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Sample records for allelic frequency distribution

  1. Distribution of forensic marker allelic frequencies in Pernambuco, Northestern Brazil.

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    Santos, S M; Souza, C A; Rabelo, K C N; Souza, P R E; Moura, R R; Oliveira, T C; Crovella, S

    2015-01-01

    Pernambuco is one of the 27 federal units of Brazil, ranking seventh in the number of inhabitants. We examined the allele frequencies of 13 short tandem repeat loci (CFS1PO, D3S1358, D5S818, D7S820, D8S1179, D13S317, D16S539, D18S51, D21S11, FGA, TH01, vWA, and TPOX), the minimum recommended by the Federal Bureau of Investigation and commonly used in forensic genetics laboratories in Brazil, in a sample of 609 unrelated individuals from all geographic regions of Pernambuco. The allele frequencies ranged from 5 to 47.2%. No significant differences for any loci analyzed were observed compared with other publications in other various regions of Brazil. Most of the markers observed were in Hardy-Weinberg equilibrium. The occurrence of the allele 47.2 (locus FGA) and alleles 35.1 and 39 (locus D21S11), also described in a single study of the Brazilian population, was observed. The other forensic parameters analyzed (matching probability, power of discrimination, polymorphic information content, paternity exclusion, complement factor I, observed heterozygosity, expected heterozygosity) indicated that the studied markers are very informative for human forensic identification purposes in the Pernambuco population. PMID:25966202

  2. [Distribution and frequency of HLA alleles and haplotypes in Brazilians with type 1 diabetes mellitus].

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    Alves, Crésio; Meyer, Isadora; Vieira, Nara; Toralles, Maria Betânia P; LeMaire, Denise

    2006-06-01

    The genetic predisposition to type 1 diabetes (DM1) is associated with genes of the human leukocyte antigen (HLA) system, specially the HLA-DR and -DQ. In Caucasians, the HLA-DR3 and -DR4 antigens are associated with susceptibility and the -DR2, with protection. In Brazil, a country with a large miscegenation of European Caucasians, Native Amerindians and African Blacks, the genetic basis of DM1 has not been adequately studied. The aim of this paper is to present a critical review of articles indexed in the MEDLINE and LILACS-BIREME data basis about the association of HLA with DM1 in Brazilians. Eight papers, all of them from the Southeast region, were found. Immunogenetic susceptibility to DM1 in Brazilians was associated with HLA-DRB1*03, -DRB*04, -DQB1*0201, -DQB1*0302 alleles, and protection against DM1 was associated with HLA-DQB1*0602, -DQB1*0301 alleles and -DR2 and -DR7 antigens. Since the Brazilian population is not racially homogeneous, it is not possible to extrapolate studies from a single region to the remainder of the country. It is necessary to study populations from different regions to identify new associations or to strengthen associations with the ones already identified. This knowledge will contribute to future prophylactic or therapeutic interventions in the group of Brazilians at risk of developing DM1. PMID:16936983

  3. Difference in PNLIP Allele Frequency Distribution Between High-Marbled and Low-Marbled Cattle

    OpenAIRE

    Tanomura, Hideki; Muramatsu, Youji; Yamamoto, Takuji; Ohta, Takeshi; Kose, Hiroyuki; Yamada, Takahisa

    2011-01-01

    Marbling characterized by the amount and distribution of intramuscular fat is one of the economically important traits of beef cattle. The Pancreatic lipase (Pnlip) gene, involved in the hydrolysis of dietary triglycerides to fatty acids has been previously shown to be regarded as possible candidate for the gene responsible for intramuscular fat content in the rat. It is located within the genomic region of a bovine marbling quantitative trait locus and thus was considered as a positional fun...

  4. RHD allele distribution in Africans of Mali

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    Moulds Joann M

    2003-09-01

    Full Text Available Abstract Background Aberrant and non-functional RHD alleles are much more frequent in Africans than in Europeans. The DAU cluster of RHD alleles exemplifies that the alleles frequent in Africans have evaded recognition until recently. A comprehensive survey of RHD alleles in any African population was lacking. Results We surveyed the molecular structure and frequency of RHD alleles in Mali (West Africa by evaluating 116 haplotypes. Only 69% could be attributed to standard RHD (55% or the RHD deletion (14%. The aberrant RHD allele DAU-0 was predicted for 19%, RHDΨ for 7% and Ccdes for 4% of all haplotypes. DAU-3 and the new RHD allele RHD(L207F, dubbed DMA, were found in one haplotype each. A PCR-RFLP for the detection of the hybrid Rhesus box diagnostic for the RHD deletion in Europeans was false positive in 9 individuals, including all carriers of RHDΨ . Including two silent mutations and the RHD deletion, a total of 9 alleles could be differentiated. Conclusion Besides standard RHD and the RHD deletion, DAU-0, RHDΨ and Ccdes are major alleles in Mali. Our survey proved that the most frequent alleles of West Africans have been recognized allowing to devise reliable genotyping and phenotyping strategies.

  5. Estimation of allele frequencies for VNTR loci.

    OpenAIRE

    Devlin, B; Risch, N; Roeder, K

    1991-01-01

    VNTR loci provide valuable information for a number of fields of study involving human genetics, ranging from forensics (DNA fingerprinting and paternity testing) to linkage analysis and population genetics. Alleles of a VNTR locus are simply fragments obtained from a particular portion of the DNA molecule and are defined in terms of their length. The essential element of a VNTR fragment is the repeat, which is a short sequence of basepairs. The core of the fragment is composed of a variable ...

  6. Distribution of allele frequencies at TTN g.231054C > T, RPL27A g.3109537C > T and AKIRIN2 c.*188G > A between Japanese Black and four other cattle breeds with differing historical selection for marbling

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    Muramatsu Youji

    2011-01-01

    Full Text Available Abstract Background Marbling defined by the amount and distribution of intramuscular fat, so-called Shimofuri, is an economically important trait of beef cattle in Japan. Our previous study detected 3 single nucleotide polymorphisms (SNPs, g.231054C > T, g.3109537C > T and c.*188G > A, respectively, in the 5' flanking region of the titin (TTN, the 5' flanking region of the ribosomal protein L27a (RPL27A and the 3' untranslated region of the akirin 2 genes (AKIRIN2, which have been considered as positional functional candidates for the genes responsible for marbling, and showed association of these SNPs with marbling in Japanese Black beef cattle. In the present study, we investigated the allele frequency distribution of the 3 SNPs among the 5 cattle breeds, Japanese Black, Japanese Brown, Japanese Shorthorn, Holstein and Brown Swiss breeds. Findings We genotyped the TTN g.231054C > T, RPL27A g.3109537C > T and AKIRIN2 c.*188G > A SNPs by polymerase chain reaction-restriction fragment length polymorphism method, using 101 sires and 1,705 paternal half sib progeny steers from 8 sires for Japanese Black, 86 sires and 27 paternal half sib progeny steers from 3 sires for Japanese Brown, 79 sires and 264 paternal half sib progeny steers from 14 sires for Japanese Shorthorn, 119 unrelated cows for Holstein, and 118 unrelated cows for Brown Swiss breeds. As compared to the frequencies of the g.231054C > T T, g.3109537C > T T and c.*188G > A A alleles, associated with high marbling, in Japanese Black breed that has been subjected to a strong selection for high marbling, those in the breeds, Japanese Shorthorn, Holstein and Brown Swiss breeds, that have not been selected for high marbling were null or lower. The Japanese Brown breed selected slightly for high marbling showed lower frequency than Japanese Black breed in the g.3109537C > T T allele, whereas no differences were detected between the 2 breeds in the frequencies of the g.231054C > T T and c

  7. Microsatellite allele frequencies in humans and chimpanzees, with implications for constraints on allele size.

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    Garza, J C; Slatkin, M; Freimer, N B

    1995-07-01

    The distributions of allele sizes at eight simple-sequence repeat (SSR) or microsatellite loci in chimpanzees are found and compared with the distributions previously obtained from several human populations. At several loci, the differences in average allele size between chimpanzees and humans are sufficiently small that there might be a constraint on the evolution of average allele size. Furthermore, a model that allows for a bias in the mutation process shows that for some loci a weak bias can account for the observations. Several alleles at one of the loci (Mfd 59) were sequenced. Differences between alleles of different lengths were found to be more complex than previously assumed. An 8-base-pair deletion was present in the nonvariable region of the chimpanzee locus. This locus contains a previously unrecognized repeated region, which is imperfect in humans and perfect in chimpanzees. The apparently greater opportunity for mutation conferred by the two perfect repeat regions in chimpanzees is reflected in the higher variance in repeat number at Mfd 59 in chimpanzees than in humans. These data indicate that interspecific differences in allele length are not always attributable to simple changes in the number of repeats. PMID:7659015

  8. Platelet antigen allele frequencies in Australian aboriginal and Caucasian populations.

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    Chen, Z; Lester, S; Boettcher, B; McCluskey, J

    1997-11-01

    We have applied genotyping methods of PCR-SSOP and PCR-RFLP to three, bi-allelic platelet specific antigen systems HPA-1 (Pla), HPA-3 (Bak) and HPA-5 (Br). This combination of techniques offers flexibility for high volume or rapid typing. The phenotype and genotype frequencies of alleles from the three systems differ significantly between the Yuendumu Australian Aboriginals (Wailbri) and Australian Caucasians. The major differences are the very low frequencies of HPA-1b and HPA-3b in Yuendumu Aboriginals which are potentially relevant to platelet transfusion in patients of Australian Aboriginal descent. PMID:9423221

  9. Genotype and allele frequency of CYP2C19*17 in a healthy Iranian population

    OpenAIRE

    Payan, Maryam; Tajik, Nader; Rouini, Mohammad Reza; Ghahremani, Mohammad Hossein

    2015-01-01

    Background: Cytochrome P450 2C19 (CYP2C19) is important in metabolism of wide range of drugs. CYP2C19*17 is a novel variant allele which increases gene transcription and therefore results in ultra-rapid metabolizer phenotype (URM). Distribution of this variant allele has not been well studied worldwide. The aim of present study was to investigate allele and genotype frequencies of CYP2C19*17 in a healthy Iranian population and compare them with other ethnic groups. Methods: One hundred eighty...

  10. Analysis of the distribution of HLA-A alleles in populations from five continents.

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    Middleton, D; Williams, F; Meenagh, A; Daar, A S; Gorodezky, C; Hammond, M; Nascimento, E; Briceno, I; Perez, M P

    2000-10-01

    The variation and frequency of HLA-A genotypes were established by PCR-SSOP typing in diverse geographically distributed populations: Brazilian, Colombian Kogui, Cuban, Mexican, Omani, Singapore Chinese, and South African Zulu. HLA-A allelic families with only one allele were identified for HLA-A*01, -A*23, -A*25, -A*31, -A*32, -A*36, -A*43, -A*69, -A*80; and with two alleles for HLA-A*03, -A*11, -A*26, -A*29, -A*33, -A*34, and -A*66. Greater variation was detected for HLA-A*02, -A*24, and -A*68 allele families. Colombian Kogui and Mexican Seris showed the least diversity with respect to HLA-A alleles, albeit with small numbers tested, with only four and five HLA-A alleles identified, respectively. It would appear by their presence in all populations studied, either rural or indigenous, that certain alleles are very important in pathogen peptide presentation. PMID:11082518

  11. Comparative frequency and allelic distribution of ABO and Rh (D blood groups of major tribal communities of southern Bangladesh with general population and their determinants

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    Gourab Dewan

    2015-04-01

    Results: Collectively all tribal had distinct ABO phenotypic frequency (B > A > O > AB which is different from Bengali population (O > B > A > AB. Tripura’s showed a unique pattern of A > B > AB > O. Overall tribal had higher frequency of B and AB group (P  B > A in all study groups except Tripura (A > O > B. Rhesus negative group was very uncommon in study groups. Data among tribal suggest their common origin as well as drift from original population due to possible founder effect among Tripura’s. Despite being malaria endemic zone the protective group O was less (P < 0.0001 among native tribal (23% and high among migrating Bengali (34%.

  12. Estimation of allele frequency and association mapping using next-generation sequencing data

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    Andersen Gitte

    2011-06-01

    Full Text Available Abstract Background Estimation of allele frequency is of fundamental importance in population genetic analyses and in association mapping. In most studies using next-generation sequencing, a cost effective approach is to use medium or low-coverage data (e.g., X. However, SNP calling and allele frequency estimation in such studies is associated with substantial statistical uncertainty because of varying coverage and high error rates. Results We evaluate a new maximum likelihood method for estimating allele frequencies in low and medium coverage next-generation sequencing data. The method is based on integrating over uncertainty in the data for each individual rather than first calling genotypes. This method can be applied to directly test for associations in case/control studies. We use simulations to compare the likelihood method to methods based on genotype calling, and show that the likelihood method outperforms the genotype calling methods in terms of: (1 accuracy of allele frequency estimation, (2 accuracy of the estimation of the distribution of allele frequencies across neutrally evolving sites, and (3 statistical power in association mapping studies. Using real re-sequencing data from 200 individuals obtained from an exon-capture experiment, we show that the patterns observed in the simulations are also found in real data. Conclusions Overall, our results suggest that association mapping and estimation of allele frequencies should not be based on genotype calling in low to medium coverage data. Furthermore, if genotype calling methods are used, it is usually better not to filter genotypes based on the call confidence score.

  13. Allele frequency of CODIS 13 in Indonesian population.

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    Untoro, Evi; Atmadja, Djaja Surya; Pu, Chang-En; Wu, Fang-Chi

    2009-04-01

    Since the first application of DNA technology in 1985 in forensic cases, and the acceptance of this technology in 1988 at court, the DNA typing is widely used in personal identification, parentage cases and tracing the source of biological samples found in the crime scene. The FBI on 1990 had recommended the forensic labs to used 13 loci of Short Tandem Repeats (STR), known as CODIS 13, as the loci of choice for forensic use. The research on the population DNA database on these loci is extremely important for calculating the Paternity Index as well as Matching Probability for forensic application of DNA technology. As many as 402 unrelated persons, consisted of 322 from western part of Indonesia and 80 from eastern part of Indonesia, were chosen as the respondents of this research, after signing the informed consent. The peripheral blood sample was taken using sterile lancets and dropped onto FTA classic cards. The DNA was extracted by FTA purification solution (3x) and TE(-1) (2x), and amplified by PCR mix, either Cofiler or Profiler Plus (Perkin Elmers), followed by sequencing using ABI Prism type 3100 Avant Genetic Analyzer. The analysis showed that the alleles frequencies of Indonesian is specific, different with the other Asian populations with some specific alleles and microvariant were found. PMID:19261522

  14. Cost-effective genome-wide estimation of allele frequencies from pooled DNA in Atlantic salmon (Salmo salar L.

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    Ozerov Mikhail

    2013-01-01

    Full Text Available Abstract Background New sequencing technologies have tremendously increased the number of known molecular markers (single nucleotide polymorphisms; SNPs in a variety of species. Concurrently, improvements to genotyping technology have now made it possible to efficiently genotype large numbers of genome-wide distributed SNPs enabling genome wide association studies (GWAS. However, genotyping significant numbers of individuals with large number of SNPs remains prohibitively expensive for many research groups. A possible solution to this problem is to determine allele frequencies from pooled DNA samples, such ‘allelotyping’ has been presented as a cost-effective alternative to individual genotyping and has become popular in human GWAS. In this article we have tested the effectiveness of DNA pooling to obtain accurate allele frequency estimates for Atlantic salmon (Salmo salar L. populations using an Illumina SNP-chip. Results In total, 56 Atlantic salmon DNA pools from 14 populations were analyzed on an Atlantic salmon SNP-chip containing probes for 5568 SNP markers, 3928 of which were bi-allelic. We developed an efficient quality control filter which enables exclusion of loci showing high error rate and minor allele frequency (MAF close to zero. After applying multiple quality control filters we obtained allele frequency estimates for 3631 bi-allelic loci. We observed high concordance (r > 0.99 between allele frequency estimates derived from individual genotyping and DNA pools. Our results also indicate that even relatively small DNA pools (35 individuals can provide accurate allele frequency estimates for a given sample. Conclusions Despite of higher level of variation associated with array replicates compared to pool construction, we suggest that both sources of variation should be taken into account. This study demonstrates that DNA pooling allows fast and high-throughput determination of allele frequencies in Atlantic salmon enabling cost

  15. A new analysis tool for individual-level allele frequency for genomic studies

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    Pan Wen-Harn

    2010-07-01

    Full Text Available Abstract Background Allele frequency is one of the most important population indices and has been broadly applied to genetic/genomic studies. Estimation of allele frequency using genotypes is convenient but may lose data information and be sensitive to genotyping errors. Results This study utilizes a unified intensity-measuring approach to estimating individual-level allele frequencies for 1,104 and 1,270 samples genotyped with the single-nucleotide-polymorphism arrays of the Affymetrix Human Mapping 100K and 500K Sets, respectively. Allele frequencies of all samples are estimated and adjusted by coefficients of preferential amplification/hybridization (CPA, and large ethnicity-specific and cross-ethnicity databases of CPA and allele frequency are established. The results show that using the CPA significantly improves the accuracy of allele frequency estimates; moreover, this paramount factor is insensitive to the time of data acquisition, effect of laboratory site, type of gene chip, and phenotypic status. Based on accurate allele frequency estimates, analytic methods based on individual-level allele frequencies are developed and successfully applied to discover genomic patterns of allele frequencies, detect chromosomal abnormalities, classify sample groups, identify outlier samples, and estimate the purity of tumor samples. The methods are packaged into a new analysis tool, ALOHA (Allele-frequency/Loss-of-heterozygosity/Allele-imbalance. Conclusions This is the first time that these important genetic/genomic applications have been simultaneously conducted by the analyses of individual-level allele frequencies estimated by a unified intensity-measuring approach. We expect that additional practical applications for allele frequency analysis will be found. The developed databases and tools provide useful resources for human genome analysis via high-throughput single-nucleotide-polymorphism arrays. The ALOHA software was written in R and R GUI and

  16. GST M1-T1 null allele frequency patterns in geographically assorted human populations: a phylogenetic approach.

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    Senthilkumar Pitchalu Kasthurinaidu

    Full Text Available Genetic diversity in drug metabolism and disposition is mainly considered as the outcome of the inter-individual genetic variation in polymorphism of drug-xenobiotic metabolizing enzyme (XME. Among the XMEs, glutathione-S-transferases (GST gene loci are an important candidate for the investigation of diversity in allele frequency, as the deletion mutations in GST M1 and T1 genotypes are associated with various cancers and genetic disorders of all major Population Affiliations (PAs. Therefore, the present population based phylogenetic study was focused to uncover the frequency distribution pattern in GST M1 and T1 null genotypes among 45 Geographically Assorted Human Populations (GAHPs. The frequency distribution pattern for GST M1 and T1 null alleles have been detected in this study using the data derived from literatures representing 44 populations affiliated to Africa, Asia, Europe, South America and the genome of PA from Gujarat, a region in western India. Allele frequency counting for Gujarat PA and scattered plot analysis for geographical distribution among the PAs were performed in SPSS-21. The GST M1 and GST T1 null allele frequencies patterns of the PAs were computed in Seqboot, Gendist program of Phylip software package (3.69 versions and Unweighted Pair Group method with Arithmetic Mean in Mega-6 software. Allele frequencies from South African Xhosa tribe, East African Zimbabwe, East African Ethiopia, North African Egypt, Caucasian, South Asian Afghanistan and South Indian Andhra Pradesh have been identified as the probable seven patterns among the 45 GAHPs investigated in this study for GST M1-T1 null genotypes. The patternized null allele frequencies demonstrated in this study for the first time addresses the missing link in GST M1-T1 null allele frequencies among GAHPs.

  17. Allele Frequencies of 10 Autosomal STR Loci from Chakma and Tripura Tribal Populations in Bangladesh

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    Ahmad Ferdous

    2010-01-01

    Full Text Available Allele frequencies of ten autosomal STR loci, D3S1358, vWA, D16S539, D2S1338, D8S1179, D21S11, D18S51, D19S433, TH01, and FGA were investigated in Chakma and Tripura tribal populations of Bangladesh. In both the populations, all loci were in Hardy-Weinberg equilibrium except for FGA locus in Chakma and D21S11 in Tripura. All the loci were highly polymorphic in Chakma population with an observed heterozygosity (Ho of >0.7 and moderately polymorphic in Tripura population (Ho>0.6. However, both the population showed least polymorphism at TH01 locus (Ho<0.6. A comparison between Chakma and Tripura population data revealed statistically significant differences in allele frequency distribution for most of the loci. A similar comparison with the mainstream Bengali population using previously published data from this lab also showed significant difference in allele frequency with these two tribal populations.

  18. Association of ABO Blood Group Phenotype and Allele Frequency with Chikungunya Fever

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    Rujirojindakul, Pairaya; Chongsuvivatwong, Virasakdi; Limprasert, Pornprot

    2015-01-01

    Background. The objective of this study was to investigate the association of the ABO blood group phenotype and allele frequency with CHIK fever. Methods. A rural community survey in Southern Thailand was conducted in August and September 2010. A total of 506 villagers were enrolled. Cases were defined as individuals having anti-CHIK IgG by hemagglutination ≥1 : 10. Results. There were 314 cases (62.1%) with CHIK seropositivity. Females were less likely to have positive anti-CHIK IgG with odds ratio (OR) (95% CI) of 0.63 (0.43, 0.93). All samples tested were Rh positive. Distribution of CHIK seropositivity versus seronegativity (P value) in A, B, AB, and O blood groups was 80 versus 46 (0.003), 80 versus 48 (0.005), 24 versus 20 (0.55), and 130 versus 78 (<0.001), respectively. However, chi-square test between ABO and CHIK infection showed no statistical significance (P = 0.76). Comparison of the ABO blood group allele frequency between CHIK seropositivity and seronegativity was not statistically significant. Conclusion. This finding demonstrated no association of the ABO blood group phenotypes and allele frequencies with CHIK infection. PMID:25977691

  19. On the Bayesness, minimaxity and admissibility of point estimators of allelic frequencies.

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    Martínez, Carlos Alberto; Khare, Kshitij; Elzo, Mauricio A

    2015-10-21

    In this paper, decision theory was used to derive Bayes and minimax decision rules to estimate allelic frequencies and to explore their admissibility. Decision rules with uniformly smallest risk usually do not exist and one approach to solve this problem is to use the Bayes principle and the minimax principle to find decision rules satisfying some general optimality criterion based on their risk functions. Two cases were considered, the simpler case of biallelic loci and the more complex case of multiallelic loci. For each locus, the sampling model was a multinomial distribution and the prior was a Beta (biallelic case) or a Dirichlet (multiallelic case) distribution. Three loss functions were considered: squared error loss (SEL), Kulback-Leibler loss (KLL) and quadratic error loss (QEL). Bayes estimators were derived under these three loss functions and were subsequently used to find minimax estimators using results from decision theory. The Bayes estimators obtained from SEL and KLL turned out to be the same. Under certain conditions, the Bayes estimator derived from QEL led to an admissible minimax estimator (which was also equal to the maximum likelihood estimator). The SEL also allowed finding admissible minimax estimators. Some estimators had uniformly smaller variance than the MLE and under suitable conditions the remaining estimators also satisfied this property. In addition to their statistical properties, the estimators derived here allow variation in allelic frequencies, which is closer to the reality of finite populations exposed to evolutionary forces. PMID:26271891

  20. Minor Allele Frequency Changes the Nature of Genotype by Environment Interactions.

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    Verhulst, Brad; Neale, Michael C

    2016-09-01

    In the classical twin study, phenotypic variation is often partitioned into additive genetic (A), common (C) and specific environment (E) components. From genetical theory, the outcome of genotype by environment interaction is expected to inflate A when the interacting factor is shared (i.e., C) between the members of a twin pair. We show that estimates of both A and C can be inflated. When the shared interacting factor changes the size of the difference between homozygotes' means, the expected sibling or DZ twin correlation is .5 if and only if the minor allele frequency (MAF) is .5; otherwise the expected DZ correlation is greater than this value, consistent (and confounded) with some additional effect of C. This result is considered in the light of the distribution of minor allele frequencies for polygenic traits. Also discussed is whether such interactions take place at the locus level or affect an aggregated biological structure or system. Interactions with structures or endophenotypes that result from the aggregated effects of many loci will generally emerge as part of the A estimate. PMID:27105628

  1. 中国东北地区汉族癫痫患者HLA-B*1502等位基因分布频率%Distributed frequency of the allele HLA-B * 1502 in Han ethnic epilepsy patients living in northeastern region of China

    Institute of Scientific and Technical Information of China (English)

    何晓静; 汝继玲; 肇丽梅

    2013-01-01

    目的 研究中国东北地区汉族癫痫患者HLA-B * 1502等位基因分布的频率.方法 用聚合酶链反应DNA序列分析法,对125例中国东北地区汉族癫痫患者DNA标本进行HLA-B基因分型.结果 125例DNA标本中,共检测出34种不同的HLA-B等位基因.其中,2例患者携带HLA-B*1502等位基因.HLA-B*1502等位基因在中国东北地区癫痫患者中的分布频率为1.6%.其他分布频率较高的等位基因分别为HLA-B*4001、B*4601、B*4801、B*1302和B*4002.结论 东北地区癫痫患者中HLA-B*1502等位基因分布频率(1.6%)与其在北京地区健康汉族人群中的分布频率近似(1.5%);但远低于其在中国中部、西部及南部地区的分布频率.%Objective To study the distributed frequency of the allele of HLA - B * 1502 in Han ethnic epilepsy patients living in northeastern region of China. Methods The polymerase chain reaction sequence -based typing method was used to detect the genotype of HLA - B * 1502 of all 125 epilepsy patients. Results Among all 125 epilepsy patients, there are 34 different types of alleles and only 2 patients with positive HLA - B * 1502. The distributed frequency of the allele of HLA - B * 1502 in Han ethnic epilepsy patients living in northeastern region of China is 1.6%. The other main alleles with high distributed frequencies are HLA - B * 4001, B * 4601, B * 4801, B * 1302and B * 4002, respectively. Conclusion The distributed frequency of HLA - B * 1502 of Han ethnic epilepsy patients living in northeastern region of China is very similar to that in Beijing, which is far lower than that in central, western and southern regions of China.

  2. Geographical distribution of GmTfl1 alleles in Chinese soybean varieties

    Institute of Scientific and Technical Information of China (English)

    Guifeng; Liu; Lin; Zhao; Benjamin; J.Averitt; Ying; Liu; Bo; Zhang; Ruzhen; Chang; Yansong; Ma; Xiaoyan; Luan; Rongxia; Guan; Lijuan; Qiu

    2015-01-01

    Stem growth habit is an important agronomic trait in soybean and is subject to artificial selection. This study aimed to provide a theory for genotypic selection of stem growth habit for breeding purposes by analyzing the alleles of Gm Tfl1 gene in Chinese soybean varieties and establishing a database of Gm Tfl1 variation. Using knowledge of insertion and deletion(Indel) in the non-coding region and four single-nucleotide polymorphisms(SNPs) in the coding sequences of the Gm Tfl1 gene, four CAPS and one Indel markers were developed and used to test 1120 Chinese soybean varieties. We found that the dominant Gm Tfl1 allele was prevalent in accessions from the Northern ecoregion, whereas the recessive allele, Gmtfl1, was more common in the Southern ecoregion, and the proportions of Gm Tfl1 and recessive alleles were respectively 40.1% and 59.9% in the Huang-Huai ecoregion. The proportion of Gm Tfl1 decreased and that of Gmtfl1 increased, gradually from north to south. Allele Gm Tfl1-a was present in higher proportions in the Huang-Huai spring, Huang-Huai summer, and Northern spring sub-ecoregions than that in the other sub-ecoregions. Gm Tfl1-b was common in the Northeast spring, Northern spring and Southern summer sub-ecoregions. Gmtfl1-ta was found mainly in the Huang-Huai spring,Huang-Huai summer and Southern spring sub-ecoregions. The Gmtfl1-ab allele was distributed in all six soybean sub-ecoregions. The Gmtfl1-bb allele was distributed mainly in the Huang-Huai spring and summer and Southern spring and summer sub-ecoregions,but the Gmtfl1-tb allele was detected only in the Huang-Huai summer sub-ecoregion. The distributions of Gm Tfl1 and Gmtfl1 have shown no large changes in nearly 60 years of breeding, but the frequency of the recessive genotype Gmtfl1 has shown a rising trend in the last 20 years. This study provides a theoretical foundation for breeding new soybean varieties for different ecoregions.

  3. Allele frequency changes due to hitch-hiking in genomic selection programs

    DEFF Research Database (Denmark)

    Liu, Huiming; Sørensen, Anders Christian; Meuwissen, Theo H E;

    2014-01-01

    Background Genomic selection makes it possible to reduce pedigree-based inbreeding over best linear unbiased prediction (BLUP) by increasing emphasis on own rather than family information. However, pedigree inbreeding might not accurately reflect the loss of genetic variation and the true level of...... inbreeding due to changes in allele frequencies and hitch-hiking. This study aimed at understanding the impact of using long-term genomic selection on changes in allele frequencies, genetic variation and the level of inbreeding. Methods Selection was performed in simulated scenarios with a population of 400......-BLUP, Genomic BLUP and Bayesian Lasso. Changes in allele frequencies at QTL, markers and linked neutral loci were investigated for the different selection criteria and different scenarios, along with the loss of favourable alleles and the rate of inbreeding measured by pedigree and runs of homozygosity. Results...

  4. HLA-B27 allele frequency in Sri Lankan patients with spondyloarthritides.

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    Kidnapillai, S; Sirisena, N D; Dissanayake, V H

    2016-06-01

    This preliminary study aims to describe the HLA-B27 allele frequency in Sri Lankan patients with spondyloarthritides (SA). An anonymised database of 373 Sri Lankan patients with SA referred for HLA-B27 testing was retrospectively analysed. Eighty five (22.8%) patients were positive for the HLA-B27 allele. A male preponderance was observed among the positives. The HLA-B27 allele frequency in this sample of patients with SA was relatively low compared to published studies in other populations. Further research is needed to identify the predominant subtypes of the allele to determine which subtypes are the most prevalent in a larger sample of Sri Lankan patients with SA, and to define their association with the specific types of SA. PMID:27423748

  5. Distribution of CYP2D6 alleles and phenotypes in the Brazilian population.

    Directory of Open Access Journals (Sweden)

    Deise C Friedrich

    Full Text Available The CYP2D6 enzyme is one of the most important members of the cytochrome P450 superfamily. This enzyme metabolizes approximately 25% of currently prescribed medications. The CYP2D6 gene presents a high allele heterogeneity that determines great inter-individual variation. The aim of this study was to evaluate the variability of CYP2D6 alleles, genotypes and predicted phenotypes in Brazilians. Eleven single nucleotide polymorphisms and CYP2D6 duplications/multiplications were genotyped by TaqMan assays in 1020 individuals from North, Northeast, South, and Southeast Brazil. Eighteen CYP2D6 alleles were identified in the Brazilian population. The CYP2D6*1 and CYP2D6*2 alleles were the most frequent and widely distributed in different geographical regions of Brazil. The highest number of CYPD6 alleles observed was six and the frequency of individuals with more than two copies ranged from 6.3% (in Southern Brazil to 10.2% (Northern Brazil. The analysis of molecular variance showed that CYP2D6 is homogeneously distributed across different Brazilian regions and most of the differences can be attributed to inter-individual differences. The most frequent predicted metabolic status was EM (83.5%. Overall 2.5% and 3.7% of Brazilians were PMs and UMs respectively. Genomic ancestry proportions differ only in the prevalence of intermediate metabolizers. The IM predicted phenotype is associated with a higher proportion of African ancestry and a lower proportion of European ancestry in Brazilians. PM and UM classes did not vary among regions and/or ancestry proportions therefore unique CYP2D6 testing guidelines for Brazilians are possible and could potentially avoid ineffective or adverse events outcomes due to drug prescriptions.

  6. Estimation of the frequency of hexosaminidase a variant alleles in the American Jewish population.

    OpenAIRE

    Greenberg, D A; Kaback, M M

    1982-01-01

    There appear to be several alleles of the hexosaminidase A (HEX A) gene that lead to different clinical syndromes. In addition to the infantile-onset Tay-Sachs disease (TSD), there is a juvenile-onset and an adult-onset form, which are also characterized by low HEX A levels. There are also apparently healthy adults with low HEX A activity. Based primarily on data from population screening for TSD carrier status, we estimate the allele frequency of the combined variant alleles for which data a...

  7. Allelic frequencies for the HLA-DQA1, D1S80, HUMTHO1, HUMTPOX, HUMCSF1PO and HUMVWA loci in Cantabria (middle north Spain).

    Science.gov (United States)

    Sánchez-Molina, I; Calvet, R

    2000-01-01

    Allele frequencies for six DNA polymorphisms have been studied in a population sample from Cantabria (middle north Spain) using the polymerase chain reaction. The HLA-DQA1 locus was analyzed by the reverse dot-blot technique and the other five by polyacrylamide gel electrophoresis followed by silver staining. Six alleles were found for HLA-DQA1. 15 alleles for D1S80, 6 alleles for HUMTHO1 and HUMCSF1PO, 7 for HUMTPOX and 8 alleles for HUMVWA. The 21 repeat allele in HUMVWA had not previously been reported in a Spanish population. The genotype distributions met Hardy-Weinberg expectations for all the systems and some statistical parameters of forensic interest were calculated. Comparisons with other populations revealed significant differences for HLA-DQA1, HUMVWA and HUMTHO1, with interracial differences being more pronounced than between Spanish populations. The HUMVWA system showed the highest forensic efficiency of the six polymorphisms studied. PMID:10641932

  8. Allele frequencies and segregation of human polymorphic keratins K4 and K5.

    OpenAIRE

    Mischke, D; Wille, G; Wild, A G

    1990-01-01

    Two electrophoretic variants for each of the human keratins K4 and K5 that are expressed in squamous nonkeratinizing epithelia lining the upper digestive tract could be distinguished on SDS-PAGE. Based on a sampling size of 1,299 unrelated individuals, calculation of allele frequencies showed the alleles to be in Hardy-Weinberg equilibrium. The genetic basis of this variation was confirmed by both quantitative gene dosage dependence and the transmission of the variants as Mendelian traits in ...

  9. HLA Class II Allele and Haplotype Frequencies in Iranian Patients with Leukemia

    Directory of Open Access Journals (Sweden)

    Farideh Khosravi

    2007-09-01

    Full Text Available Previous studies demonstrated significant differences in a number of HLA allele frequencies in leukemia patients and normal subjects. In this study, we have analyzed HLA class II alleles and haplotypes in 110 leukemia patients (60 acute myelogenous leukemia "AML", 50 chronic myelogenous leukemia"CML" and 180 unrelated normal subjects. Blood samples were collected from all of the patients and control subjects. DNA was extracted by salting out method and HLA typing was performed using PCR-SSP method. Significant positive association with AML was obtained for HLA-DRB1*11allele (35% vs. 24.7%, P=0.033. Two alleles including HLA-DRB4 and -DQB1*0303 were significantly less frequent in AML patients than in controls. HLA-DQB1*0303 allele was never observed in CML patients compared with allele frequency in controls (4.2%. According to haplotype analysis, HLA-DRB1*0101/DQA1*0104/-DQB1*0501 frequencies were significantly higher and -DRB1*16/-DQA1*01021/-DQB1*0501 frequencies were significantly lower in CML patients than in controls .In conclusion it is suggested that HLA-DRB1*16 allele and HLA-DRB1*15/-DQA1*0103/-DQB1*06011 and -DRB1*16/-DQA1*01021/-DQB1*0501 haplotypes predispose individuals to AML and HLA-DRB4 allele predispose to CML. Future studies are needed to confirm these results and establish the role of these associations in AML and CML.

  10. Influence of admixture components on CYP2C9*2 allele frequency in eight indigenous populations from Northwest Mexico.

    Science.gov (United States)

    Sosa-Macías, M; Lazalde-Ramos, B P; Galaviz-Hernández, C; Rangel-Villalobos, H; Salazar-Flores, J; Martínez-Sevilla, V M; Martínez-Fierro, M L; Dorado, P; Wong, M L; Licinio, J; LLerena, A

    2013-12-01

    We previously documented the lowest frequency of CYP2C9*2 in Mexican indigenous Tepehuanos followed by Mestizos and Mexican-Americans populations, suggesting a negative correlation between the CYP2C9*2 frequency and the degree of Asian ancestry in indigenous Americans. We determined the influence of ethnic admixture components on the CYP2C9 allele distribution in 505 Amerindian from eight indigenous populations through genotyping CYP2C9*2, *3 and *6 alleles by real-time PCR and molecular evaluation of ancestry. The frequencies for CYP2C9*2 were 0.026 in Seris and 0.057 in Mayos, being higher than in Asians (P<0.001). CYP2C9*3 was found in Tarahumaras (0.104), Mayos (0.091), Tepehuanos (0.075), Guarijíos (0.067), Huicholes (0.033) and Coras (0.037), with East Asians having lower frequencies than the former three groups (P<0.001). CYP2C9*6 was not found. The frequency of CYP2C9*2 was lower in Amerindians than in European populations, and higher than their Asian ancestors. The presence of this allele in ethnic groups in Mexico can be explained by European admixture. PMID:23358499

  11. Low frequency of the scrapile resistance-associated allele and presence of lysine-171 allele of the prion protein gene in Italian Biellese ovine breed

    NARCIS (Netherlands)

    Acutis, P.L.; Sbaiz, L.; Verburg, F.J.; Riina, M.V.; Ru, G.; Moda, G.; Caramelli, M.; Bossers, A.

    2004-01-01

    Frequencies of polymorphisms at codons 136, 154 and 171 of the prion protein (PrP) gene were studied in 1207 pure-bred and cross-bred Italian Biellese rams, a small ovine breed of about 65 000 head in Italy. Aside from the five most common alleles (VRQ, ARQ, ARR, AHQ and ARH), the rare ARK allele wa

  12. Distribution of HLA-DRB1 and HLA-DQB1 alleles in Lak population of Iran.

    Science.gov (United States)

    Varzi, Ali Mohammad; Shahsavar, Farhad; Tarrahi, Mohammad Javad

    2016-07-01

    Human leukocyte antigen (HLA) genes are the most polymorphic loci in the human genome and encode the highly polymorphic molecules critically involved in immune responses. Anthropological studies based on highly polymorphic HLA genes provide useful information for bone marrow donor registry, forensic medicine, disease association studies, as well as designing peptide vaccines against tumors, and infectious or autoimmune diseases. The aim of this study was to determine the HLA-DRB1 and HLA-DQB1 allele frequencies in 100 unrelated Lak individuals from Lorestan province of Iran. Finally, we compared the results with those previously described in four other Iranian populations. Commercial HLA-Type kits were used for determination of the HLA-DRB1 and HLA-DQB1 allele frequencies. Differences between populations in the distribution of HLA-DRB1 and HLA-DQB1 alleles were estimated by χ2 test with Yate's correction and Fisher's exact test. The most frequent HLA-DRB1 alleles were (*)1103=4 (23%), (*)1502 (9.5%), (*)0701 (9%), (*)0301 (8.5%), (*)1101 (7.5%) and (*)1501 (6%) while HLA-DQB1(*)0301 (40%), (*)0201 (15%), (*)0502 (10.5%), (*)0303 (10%), (*)0602=3 (9.5%), and (*)0501 (7.5%) were the most frequent alleles in Lak population. HLA-DRB1(*)0409, (*)0804, (*)1102, (*)1112, (*)1405, and HLA-DQB1(*)0503, (*)0604 were the least observed frequencies in Lak population. Our results based on HLA-DRB1 and HLA-DQB1 allele frequencies showed that the Lak population possesses the previously reported general features of the Lur and Kurd populations but still with unique, decreased or increased frequencies of several alleles. In other words, the Lak population is close to Lurs Khorramabadi and Kurd but far from Lurs Kohkiloyeh/Boyerahmad and Bakhtiari. PMID:27189628

  13. Cytochrome P450 2D6 variants in a Caucasian population: Allele frequencies and phenotypic consequences

    Energy Technology Data Exchange (ETDEWEB)

    Sachse, C.; Brockmoeller, J.; Bauer, S.; Roots, I. [Humboldt Univ., Berlin (Germany)

    1997-02-01

    Cytochrome P450 2D6 (CYP2D6) metabolizes many important drugs. CYP2D6 activity ranges from complete deficiency to ultrafast metabolism, depending on at least 16 different known alleles. Their frequencies were determined in 589 unrelated German volunteers and correlated with enzyme activity measured by phenotyping with dextromethorphan or debrisoquine. For genotyping, nested PCR-RFLP tests from a PCR amplificate of the entire CYP2D6 gene were developed. The frequency of the CYP2D6*1 allele coding for extensive metabolizer (EM) phenotype was .364. The alleles coding for slightly (CYP2D6*2) or moderately (*9 and *10) reduced activity (intermediate metabolizer phenotype [IM]) showed frequencies of .324, .018, and .015, respectively. By use of novel PCR tests for discrimination, CYP2D6 gene duplication alleles were found with frequencies of.005 (*1 x 2), .013 (* 2 x 2), and .001 (*4 x 2). Frequencies of alleles with complete deficiency (poor metabolizer phenotype [PM]) were .207 (*4), .020 (*3 and *5), .009 (*6), and .001 (*7, *15, and *16). The defective CYP2D6 alleles *8, *11, *12, *13, and *14 were not found. All 41 PMs (7.0%) in this sample were explained by five mutations detected by four PCR-RFLP tests, which may suffice, together with the gene duplication test, for clinical prediction of CYP2D6 capacity. Three novel variants of known CYP2D6 alleles were discovered: *1C (T{sub 1957}C), *2B (additional C{sub 2558}T), and *4E (additional C{sub 2938}T). Analysis of variance showed significant differences in enzymatic activity measured by the dextromethorphan metabolic ratio (MR) between carriers of EN/PM (mean MR = .006) and IM/PM (mean MR = .014) alleles and between carriers of one (mean MR = .009) and two (mean MR = .003) functional alleles. The results of this study provide a solid basis for prediction of CYP2D6 capacity, as required in drug research and routine drug treatment. 35 refs., 4 figs., 5 tabs.

  14. Microsatellite D21D210 (GT-12) allele frequencies in sporadic Alzheimer's disease

    International Nuclear Information System (INIS)

    Four disease-causing mutations have so far been described in the amyloid precursor protein gene on chromosome 21 in familial early-onset Alzheimer's disease. Linkage analysis with a fourteen-allele microsatellite at D21S210 named GT-12 has proven useful in the elucidation of amyloid presursor protein gene involvement in Alzheimer's disease families, as it is closely linked to the gene. Most cases of Alzheimer's disease are thought to be sporadic and not familial. However, evidence from earlier studies suggests an important genetic contribution also in sporadic cases, where gene-environment interaction may contribute to the disease. We have determined frequencies of the GT-12 alleles in 78 Swedish and 49 British sporadic Alzheimer's disease cases and 104 healthy elderly control subjects, to investigate if the disease associates with a particular genotype in GT-12. However, no differences in allele frequencies were observed between any of the groups. (au) (26 refs.)

  15. Allelic structure and distribution of 103 STR loci in a Southern Tunisian population

    Indian Academy of Sciences (India)

    Abdellatif Maalej; Ahmed Rebai; Adnen Ayadi; Jomaa Jouida; Hafedh Makni; Hammadi Ayadi

    2004-04-01

    Genotypes of 103 short tandem repeat (STR) markers distributed at an average of 40 cM intervals throughout the genome were determined for 40 individuals from the village of BirEl Hfai (BEH). This village of approximately 31.000 individuals is localized in the south-west of Tunisia. The allele frequency distributions in BEH were compared with those obtained for individuals in the CEPH (Centre d’Etude du Polymorphisme Humain) data using a Kolmogorov–Smirnov two-sample test. Fourteen out of the 103 markers (13.2%) showed significant differences ($P\\lt 0.05$) in distribution between the two populations. Population heterogeneity in BEH was indicated by an excess of observed homozygosity deviations from Hardy–Weinberg equilibrium at 3 loci ($P\\lt 0.0005$). No evidence for genotypic disequilibrium was found for any of the marker pairs. This demonstrated that in spite of a high inbreeding level in the population, few markers showed evidence for a different pattern of allelic distribution compared to CEPH.

  16. Allele frequencies of the third component of complement (C3) in MS patients.

    OpenAIRE

    Bulman, D E; Armstrong, H; Ebers, G C

    1991-01-01

    No difference was found in the allele frequency of C3 (third component of complement) in 129 multiple sclerosis (MS) patients compared with both 69 controls or with similar reported controls from the published literature. An association cannot be confirmed between C3 and MS.

  17. SNP calling, genotype calling, and sample allele frequency estimation from new-generation sequencing data

    DEFF Research Database (Denmark)

    Nielsen, Rasmus; Korneliussen, Thorfinn Sand; Albrechtsen, Anders;

    2012-01-01

    calculated using a dynamic programming algorithm and numerically optimized using analytical derivatives. We then use a bayesian method for estimating the sample allele frequency in a single site, and show how the method can be used for genotype calling and SNP calling. We also show how the method can be...

  18. Distribution of a pseudodeficiency allele among Tay-Sachs carriers

    Energy Technology Data Exchange (ETDEWEB)

    Tomczak, J.; Grebner, E.E. (Thomas Jefferson Univ., Philadelphia, PA (United States)); Boogen, C. (Univ. of Essen Medical School (Germany))

    1993-08-01

    Recently Triggs-Raine et al. (1992) identified a new mutation in the gene coding for the [alpha]-subunit of [beta]-hexosaminidase A (hex A), the enzyme whose deficiency causes Tay-Sachs disease. This mutation, a C[sub 739]-to-T transition in exon 7, results in an altered enzyme that is active (albeit at reduced levels) in cells but that has essentially no activity in serum. This so-called pseudodeficient allele was first detected in compound heterozygotes who also carried a Tay-Sachs disease allele and therefore had no detectable hex A in their serum but who were in good health. Carriers of this apparently benign mutation are generally indistinguishable from carriers of a lethal mutation by means of routine enzyme-based screening tests, because the product of the pseudodeficient allele is not detectable in serum and has decreased activity in cells. This suggests that some individuals who have been classified as Tay-Sachs carriers are actually carriers of the pseudodeficient allele and are not at risk to have a child affected with Tay-Sachs disease. The pseudodeficient allele may also be responsible for some inconclusive diagnoses, where leukocyte values fall below the normal range but are still above the carrier range. The fact that there are now two mutant alleles (the psuedodeficient and the adult) that are indistinguishable from the lethal infantile mutations by means of enzyme assay yet that are phenotypically very different and that together may account for as much as 12% of enzyme-defined carriers on the basis of the data here suggests that DNA analysis should be part of a comprehensive screening program. It will be particularly useful to identify the mutations in couples at risk, before they undergo prenatal diagnosis. DNA analysis will also resolve some inconclusive diagnoses.

  19. Fast individual ancestry inference from DNA sequence data leveraging allele frequencies for multiple populations

    OpenAIRE

    Bansal, Vikas; Libiger, Ondrej

    2015-01-01

    Background Estimation of individual ancestry from genetic data is useful for the analysis of disease association studies, understanding human population history and interpreting personal genomic variation. New, computationally efficient methods are needed for ancestry inference that can effectively utilize existing information about allele frequencies associated with different human populations and can work directly with DNA sequence reads. Results We describe a fast method for estimating the...

  20. Predictable allele frequency changes due to habitat fragmentation in the Glanville fritillary butterfly.

    Science.gov (United States)

    Fountain, Toby; Nieminen, Marko; Sirén, Jukka; Wong, Swee Chong; Hanski, Ilkka

    2016-03-01

    Describing the evolutionary dynamics of now extinct populations is challenging, as their genetic composition before extinction is generally unknown. The Glanville fritillary butterfly has a large extant metapopulation in the Åland Islands in Finland, but declined to extinction in the nearby fragmented southwestern (SW) Finnish archipelago in the 20th century. We genotyped museum samples for 222 SNPs across the genome, including SNPs from candidate genes and neutral regions. SW Finnish populations had significantly reduced genetic diversity before extinction, and their allele frequencies gradually diverged from those in contemporary Åland populations over 80 y. We identified 15 outlier loci among candidate SNPs, mostly related to flight, in which allele frequencies have changed more than the neutral expectation. At outlier loci, allele frequencies in SW Finland shifted in the same direction as newly established populations deviated from old local populations in contemporary Åland. Moreover, outlier allele frequencies in SW Finland resemble those in fragmented landscapes as opposed to continuous landscapes in the Baltic region. These results indicate selection for genotypes associated with good colonization capacity in the highly fragmented landscape before the extinction of the populations. Evolutionary response to habitat fragmentation may have enhanced the viability of the populations, but it did not save the species from regional extinction in the face of severe habitat loss and fragmentation. These results highlight a potentially common situation in changing environments: evolutionary changes are not strong enough to fully compensate for the direct adverse effects of environmental change and thereby rescue populations from extinction. PMID:26903642

  1. Allele Frequency Data for 17 Short Tandem Repeats in a Czech Population Sample

    Czech Academy of Sciences Publication Activity Database

    Šimková, H.; Faltus, Václav; Marván, Richard; Pexa, T.; Stenzl, V.; Brouček, J.; Hořínek, A.; Mazura, Ivan; Zvárová, Jana

    2009-01-01

    Roč. 4, č. 1 (2009), e15-e17. ISSN 1872-4973 R&D Projects: GA MŠk(CZ) 1M06014 Institutional research plan: CEZ:AV0Z10300504 Keywords : short tandem repeat (STR) * allelic frequency * PowerPlex 16 System * AmpflSTR Identifiler * population genetics * Czech Republic Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 2.421, year: 2009

  2. Detection of Allelic Frequency Differences between the Sexes in Humans: A Signature of Sexually Antagonistic Selection.

    Science.gov (United States)

    Lucotte, Elise A; Laurent, Romain; Heyer, Evelyne; Ségurel, Laure; Toupance, Bruno

    2016-01-01

    Sexually antagonistic (SA) selection, a form of selection that can occur when both sexes have different fitness optima for a trait, is a major force shaping the evolution of organisms. A seminal model developed by Rice (Rice WR. 1984. Sex chromosomes and the evolution of sexual dimorphism. Evolution 38:735-742.) predicts that the X chromosome should be a hotspot for the accumulation of loci under SA selection as compared with the autosomes. Here, we propose a methodological framework designed to detect a specific signature of SA selection on viability, differences in allelic frequencies between the sexes. Applying this method on genome-wide single nucleotide polymorphism (SNP) data in human populations where no sex-specific population stratification could be detected, we show that there are overall significantly more SNPs exhibiting differences in allelic frequencies between the sexes on the X chromosome as compared with autosomes, supporting the predictions of Rice's model. This pattern is consistent across populations and is robust to correction for potential biases such as differences in linkage disequilibrium, sample size, and genotyping errors between chromosomes. Although SA selection is not the only factor resulting in allelic frequency differences between the sexes, we further show that at least part of the identified X-linked loci is caused by such a sex-specific processes. PMID:27189992

  3. HLA-G allele and haplotype frequencies in a healthy population of Iran.

    Science.gov (United States)

    Kuroshli, Zahra; Gourabi, Hamid; Bazrgar, Masoud; Sanati, Mohammad Hossein; Bahraminejad, Elmira; Anisi, Khadije

    2014-06-01

    The human leukocyte antigen (HLA)-G molecule is expressed in cytotrophoblast cells, adult thymic epithelial cells, erythroblasts, pancreatic islets and mesenchymal stem cells. Although, HLA-G expression in allotransplanted patients is correlated with a better allograft acceptance, it is associated with an advanced grade of the tumor in cancer. In addition to the role on the immune system, HLA-G is also involved in successful pregnancy through the embryo implantation, fetal survival and the initial steps of hematopoiesis and angiogenesis. The aim of this study was determination of HLA-G allele frequencies in a healthy population of Iran. In this research, we selected 100 samples from healthy Iranian individuals and henceforth, we used polymerase chain reaction (PCR) followed by sequencing technique for exon 2, 3, 4 and intron 2 of the gene for evaluating the HLA-G alleles frequencies. Investigation of intronic (intron 2) variation is the novelty of our study. The obtained results indicated thirteen alleles of HLA-G in Iranian individuals including G*01:01:01:01, G*01:06, G*01:01:01:06, G*01:01:02, G*01:01:03, G*01:01:05, G*01:01:06, G*01:01:07, G*01:01:08, G*01:03, G*01:04:01, G*01:04:03, and G*01:04:04. According to this study, the most prevalent alleles in the Iranian population were G*01:01:01:01 (52.5%), G*01:01:02 (16%) and G*01:04:03 (14.5%) and also the lowest alleles regarding the frequency were G*01:01:01:06 (0.5%) and G*01:03 (0.5%). The results of G*01:01:01:01 and G*01:04:01 frequencies showed some similarities with the polish population. Our results were similar to the north Indian population for the frequencies of G*01:06 and G*01:01:02. PMID:24659125

  4. Distribution of allele frequencies at TTN g.231054C > T, RPL27A g.3109537C > T and AKIRIN2 c.*188G > A between Japanese Black and four other cattle breeds with differing historical selection for marbling

    OpenAIRE

    Muramatsu Youji; Kose Hiroyuki; Ohta Takeshi; Fujita Tatsuo; Satoh Youichi; Watanabe Naoto; Yamamoto Takuji; Yamada Takahisa

    2011-01-01

    Abstract Background Marbling defined by the amount and distribution of intramuscular fat, so-called Shimofuri, is an economically important trait of beef cattle in Japan. Our previous study detected 3 single nucleotide polymorphisms (SNPs), g.231054C > T, g.3109537C > T and c.*188G > A, respectively, in the 5' flanking region of the titin (TTN), the 5' flanking region of the ribosomal protein L27a (RPL27A) and the 3' untranslated region of the akirin 2 genes (AKIRIN2), which have been conside...

  5. Combining allele frequency uncertainty and population substructure corrections in forensic DNA calculations.

    Science.gov (United States)

    Cowell, Robert

    2016-07-01

    In forensic DNA calculations of relatedness of individuals and in DNA mixture analyses, at least two sources of uncertainty are present concerning the allele frequencies used for evaluating genotype probabilities when evaluating likelihoods. They are: (i) imprecision in the estimates of the allele frequencies in the population by using an inevitably finite database of DNA profiles to estimate them; and (ii) the existence of population substructure. Green and Mortera [6] showed that these effects may be taken into account individually using a common Dirichlet model within a Bayesian network formulation, but that when taken in combination this is not the case; however they suggested an approximation that could be used. Here we develop a slightly different approximation that is shown to be exact in the case of a single individual. We demonstrate the numerical closeness of the approximation using a published database of allele counts, and illustrate the effect of incorporating the approximation into calculations of a recently published statistical model of DNA mixtures. PMID:27231804

  6. Microsatellite D21D210 (GT-12) allele frequencies in sporadic Alzheimer`s disease

    Energy Technology Data Exchange (ETDEWEB)

    Lannfelt, L.; Lilius, L.; Viitanen, M.; Winblad, B.; Basun, H. [Huddinge Hospital, Karolinska Institute, Dept. of Geriatric Medicine, (Sweden); Houlden, H.; Rossor, M. [St. Mary`s Hospital, Dept. of Neurology, Medical School, London (United Kingdom); Hardy, J. [University of South Florida, Suncoast Alzheimer`s Disease Research Labs, Department of Psychiatry, Tampa (United States)

    1995-02-01

    Four disease-causing mutations have so far been described in the amyloid precursor protein gene on chromosome 21 in familial early-onset Alzheimer`s disease. Linkage analysis with a fourteen-allele microsatellite at D21S210 named GT-12 has proven useful in the elucidation of amyloid presursor protein gene involvement in Alzheimer`s disease families, as it is closely linked to the gene. Most cases of Alzheimer`s disease are thought to be sporadic and not familial. However, evidence from earlier studies suggests an important genetic contribution also in sporadic cases, where gene-environment interaction may contribute to the disease. We have determined frequencies of the GT-12 alleles in 78 Swedish and 49 British sporadic Alzheimer`s disease cases and 104 healthy elderly control subjects, to investigate if the disease associates with a particular genotype in GT-12. However, no differences in allele frequencies were observed between any of the groups. (au) (26 refs.).

  7. Genotype and allele frequencies of heme oxygenase-1 promoter region in a Greek cohort

    Institute of Scientific and Technical Information of China (English)

    Eleni P. Katana; Lemonia G. Skoura; Zacharias G Scouras; Michail A. Daniilidis

    2011-01-01

    Background Heme oxygenase-1 (HO-1) is an enzyme,which catabolizes heme into carbon monoxide,biliverdin and free iron.The induction of this enzyme is an important cytoprotective mechanism,which occurs as an adaptive and beneficial response to a wide variety of oxidant stimuli.HO-1 inducibility is mainly modulated by a (GT)n polymorphism in the promoter region,and has been shown that short (S) repeats are associated with greater up-regulation of HO-1,compared with long (L) repeats.Methods In the present study,250 healthy Greek individuals have been screened in order to estimate the frequencies of (GT)n alleles in the HO-1 gene.Results Nineteen different alleles,ranging from 17 to 39 repeats,with (GT)23 and (GT)30 being the most common ones,were identified.Conclusion The possible role of this polymorphism in disease states is discussed.

  8. Disparities in allele frequencies and population differentiation for 101 disease-associated single nucleotide polymorphisms between Puerto Ricans and non-Hispanic whites

    Science.gov (United States)

    Background: Variations in gene allele frequencies can contribute to differences in the prevalence of some common complex diseases among populations. Natural selection modulates the balance in allele frequencies across populations. Population differentiation (FST) can evidence environmental selection...

  9. Frequency and characterization of known and novel RHD variant alleles in 37 782 Dutch D-negative pregnant women.

    Science.gov (United States)

    Stegmann, Tamara C; Veldhuisen, Barbera; Bijman, Renate; Thurik, Florentine F; Bossers, Bernadette; Cheroutre, Goedele; Jonkers, Remco; Ligthart, Peter; de Haas, Masja; Haer-Wigman, Lonneke; van der Schoot, C Ellen

    2016-05-01

    To guide anti-D prophylaxis, Dutch D- pregnant women are offered a quantitative fetal-RHD-genotyping assay to determine the RHD status of their fetus. This allowed us to determine the frequency of different maternal RHD variants in 37 782 serologically D- pregnant women. A variant allele is present in at least 0·96% of Dutch D- pregnant women The D- serology could be confirmed after further serological testing in only 54% of these women, which emphasizes the potential relevance of genotyping of blood donors. 43 different RHD variant alleles were detected, including 15 novel alleles (11 null-, 2 partial D- and 2 DEL-alleles). Of those novel null alleles, one allele contained a single missense mutation (RHD*443C>G) and one allele had a single amino acid deletion (RHD*424_426del). The D- phenotype was confirmed by transduction of human D- erythroblasts, consolidating that, for the first time, a single amino acid change or deletion causes the D- phenotype. Transduction also confirmed the phenotypes for the two new variant DEL-alleles (RHD*721A>C and RHD*884T>C) and the novel partial RHD*492C>A allele. Notably, in three additional cases the DEL phenotype was observed but sequencing of the coding sequence, flanking introns and promoter region revealed an apparently wild-type RHD allele without mutations. PMID:27018217

  10. Semantic Web-Based Integration of Cancer Pathways and Allele Frequency Data

    Science.gov (United States)

    Holford, Matthew E.; Rajeevan, Haseena; Zhao, Hongyu; Kidd, Kenneth K.; Cheung, Kei-Hoi

    2009-01-01

    We demonstrate the use of Semantic Web technology to integrate the ALFRED allele frequency database and the Starpath pathway resource. The linking of population-specific genotype data with cancer-related pathway data is potentially useful given the growing interest in personalized medicine and the exploitation of pathway knowledge for cancer drug discovery. We model our data using the Web Ontology Language (OWL), drawing upon ideas from existing standard formats BioPAX for pathway data and PML for allele frequency data. We store our data within an Oracle database, using Oracle Semantic Technologies. We then query the data using Oracle’s rule-based inference engine and SPARQL-like RDF query language. The ability to perform queries across the domains of population genetics and pathways offers the potential to answer a number of cancer-related research questions. Among the possibilities is the ability to identify genetic variants which are associated with cancer pathways and whose frequency varies significantly between ethnic groups. This sort of information could be useful for designing clinical studies and for providing background data in personalized medicine. It could also assist with the interpretation of genetic analysis results such as those from genome-wide association studies. PMID:19458791

  11. Semantic Web-based integration of cancer pathways and allele frequency data.

    Science.gov (United States)

    Holford, Matthew E; Rajeevan, Haseena; Zhao, Hongyu; Kidd, Kenneth K; Cheung, Kei-Hoi

    2009-01-01

    We demonstrate the use of Semantic Web technology to integrate the ALFRED allele frequency database and the Starpath pathway resource. The linking of population-specific genotype data with cancer-related pathway data is potentially useful given the growing interest in personalized medicine and the exploitation of pathway knowledge for cancer drug discovery. We model our data using the Web Ontology Language (OWL), drawing upon ideas from existing standard formats BioPAX for pathway data and PML for allele frequency data. We store our data within an Oracle database, using Oracle Semantic Technologies. We then query the data using Oracle's rule-based inference engine and SPARQL-like RDF query language. The ability to perform queries across the domains of population genetics and pathways offers the potential to answer a number of cancer-related research questions. Among the possibilities is the ability to identify genetic variants which are associated with cancer pathways and whose frequency varies significantly between ethnic groups. This sort of information could be useful for designing clinical studies and for providing background data in personalized medicine. It could also assist with the interpretation of genetic analysis results such as those from genome-wide association studies. PMID:19458791

  12. Estimation of 2N(e)s from temporal allele frequency data

    DEFF Research Database (Denmark)

    Bollback, Jonathan Paul; York, Thomas L.; Nielsen, Rasmus

    2008-01-01

    We develop a new method for estimating effective population sizes, Ne, and selection coefficients, s, from time-series data of allele frequencies sampled from a single diallelic locus. The method is based on calculating transition probabilities, using a numerical solution of the diffusion process...... that the data are compatible with the assumption of s = 0, although moderate amounts of selection acting on this mutation cannot be excluded. In our second example, we estimate the selection coefficient acting on a mutation segregating in an experimental phage population. We show that the selection coefficient...

  13. Allelic frequencies and statistical data obtained from 15 STR loci in a population of the Goiás State.

    Science.gov (United States)

    Vieira, T C; Silva, D M; Gigonzac, M A D; Ferreira, V L; Gonçalves, M W; da Cruz, A D

    2013-01-01

    Due to the miscegenation of the Brazilian population, the central region of Brazil was colonized by internal migration of individuals from different origins, who contributed to the genetic diversity existing in this population. The purpose of this study was to estimate population parameters based on the allele frequencies for 15 polymorphic autosomal short-tandem repeat (STR) loci present in the population of the State of Goiás in the central region of Brazil, and to compare the results with those of others from different Brazilian populations. DNA was obtained from a sample of 986 unrelated individuals by a commercial reagent kit and was quantified by spectrometry for later amplification in the thermocycler. These loci, commonly used in forensics and paternity testing, reflected Hardy-Weinberg equilibrium in this population. The D18S51 and Penta E loci had the highest number of alleles, while the observed heterozygosity reached the highest rates in FGA (0.920), D7S820 (0.870), and vWA (0.867) markers. Genetic diversity reached the highest levels in Penta E (0.906), Penta D (0.873), and D18S51 (0.860) markers, and the investigated forensic parameters showed high average values, with 93% power of discrimination, polymorphism information content of 78%, gene diversity of 79%, and observed heterozygosity of 79%. Similar to the other populations of Brazil, the population of the Midwest is derived from the admixture of 3 main parental groups: Amerindian, European, particularly Portuguese, and Africans from sub-Saharan Africa. In this context, the overall distribution of allele frequencies in the STR markers of various Brazilian populations is quite similar to the data obtained in this study. PMID:23359020

  14. Further data on the microsatellite locus D12S67 in worldwide populations: an unusual distribution of D12S67 alleles in Native Americans.

    Science.gov (United States)

    Mitchell, R J; Federle, L; Sofro, A S; Papiha, S S; Briceno, I; Bernal, J E

    2000-08-01

    We report the frequencies of alleles at the microsatellite locus D12S67 in 2 widely separated ethnic groups of the world: 2 populations from Sulawesi, an island in the Indonesian archipelago, and 5 Native American tribes of Colombia, South America. The allele frequencies in the Minihasans and Torajans of Sulawesi are similar to each other (but the modal class allele is different) and in general agreement with those reported in mainland Asian groups, but different from both Europeans and Chinese Han of Taiwan. The 5 Native American tribes (Arsario, Kogui, Ijka, Wayuu, and Coreguaje) display different allele frequencies from those seen in Sulawesi populations, in other groups from Europe and mainland Asia, and in Chinese Han of Taiwan. Native Americans exhibit a bimodal distribution of alleles, unlike other groups, with significant differences among the tribes. The Arsario and Kogui have no admixture with Europeans or Africans and are the most distinctive, while the Wayuu have the most admixture and show most similarity to other groups. The data suggest that nonadmixed Native Americans may be quite distinctive with respect to this marker. The most common allele varies across the 5 tribes, from 249 base pairs to 261 base pairs. All samples exhibit Hardy-Weinberg genotype proportions; heterozygosities are lowest in the 2 nonadmixed Native American tribes. Examination of all the available data indicates that some east Asian and southeast Asian groups are characterized by a high frequency of smaller sized D12S67 alleles, while other populations have a greater proportion of the larger sized alleles. The cumulative, though still highly restricted, population data on locus D12S67 demonstrate that it may be of considerable value in anthropological genetic studies of ethnic groups. Data are required on Native Americans outside Colombia before this marker can be used in admixture studies of this group. PMID:11048795

  15. Utilizing Ethnic-Specific Differences in Minor Allele Frequency to Recategorize Reported Pathogenic Deafness Variants

    Science.gov (United States)

    Shearer, A. Eliot; Eppsteiner, Robert W.; Booth, Kevin T.; Ephraim, Sean S.; Gurrola, José; Simpson, Allen; Black-Ziegelbein, E. Ann; Joshi, Swati; Ravi, Harini; Giuffre, Angelica C.; Happe, Scott; Hildebrand, Michael S.; Azaiez, Hela; Bayazit, Yildirim A.; Erdal, Mehmet Emin; Lopez-Escamez, Jose A.; Gazquez, Irene; Tamayo, Marta L.; Gelvez, Nancy Y.; Leal, Greizy Lopez; Jalas, Chaim; Ekstein, Josef; Yang, Tao; Usami, Shin-ichi; Kahrizi, Kimia; Bazazzadegan, Niloofar; Najmabadi, Hossein; Scheetz, Todd E.; Braun, Terry A.; Casavant, Thomas L.; LeProust, Emily M.; Smith, Richard J.H.

    2014-01-01

    Ethnic-specific differences in minor allele frequency impact variant categorization for genetic screening of nonsyndromic hearing loss (NSHL) and other genetic disorders. We sought to evaluate all previously reported pathogenic NSHL variants in the context of a large number of controls from ethnically distinct populations sequenced with orthogonal massively parallel sequencing methods. We used HGMD, ClinVar, and dbSNP to generate a comprehensive list of reported pathogenic NSHL variants and re-evaluated these variants in the context of 8,595 individuals from 12 populations and 6 ethnically distinct major human evolutionary phylogenetic groups from three sources (Exome Variant Server, 1000 Genomes project, and a control set of individuals created for this study, the OtoDB). Of the 2,197 reported pathogenic deafness variants, 325 (14.8%) were present in at least one of the 8,595 controls, indicating a minor allele frequency (MAF) >0.00006. MAFs ranged as high as 0.72, a level incompatible with pathogenicity for a fully penetrant disease like NSHL. Based on these data, we established MAF thresholds of 0.005 for autosomal-recessive variants (excluding specific variants in GJB2) and 0.0005 for autosomal-dominant variants. Using these thresholds, we recategorized 93 (4.2%) of reported pathogenic variants as benign. Our data show that evaluation of reported pathogenic deafness variants using variant MAFs from multiple distinct ethnicities and sequenced by orthogonal methods provides a powerful filter for determining pathogenicity. The proposed MAF thresholds will facilitate clinical interpretation of variants identified in genetic testing for NSHL. All data are publicly available to facilitate interpretation of genetic variants causing deafness. PMID:25262649

  16. Allelic frequencies and statistical data obtained from 12 codis STR loci in an admixed population of the Brazilian Amazon

    Directory of Open Access Journals (Sweden)

    Pablo Abdon da Costa Francez

    2011-01-01

    Full Text Available The allelic frequencies of 12 short tandem repeat loci were obtained from a sample of 307 unrelated individuals living in Macapá, a city in the northern Amazon region, Brazil. These loci are the most commonly used in forensics and paternity testing. Based on the allele frequency obtained for the population of Macapá, we estimated an interethnic admixture for the three parental groups (European, Native American and African of, respectively, 46%, 35% and 19%. Comparing these allele frequencies with those of other Brazilian populations and of the Iberian Peninsula population, no significant distances were observed. The interpopulation genetic distances (F ST coefficients to the present database ranged from F ST = 0.0016 between Macapá and Belém to F ST = 0.0036 between Macapá and the Iberian Peninsula.

  17. Allelic frequencies and statistical data obtained from 12 codis STR loci in an admixed population of the Brazilian Amazon

    Science.gov (United States)

    da Costa Francez, Pablo Abdon; Rodrigues, Elzemar Martins Ribeiro; Frazão, Gleycianne Furtado; dos Reis Borges, Nathalia Danielly; dos Santos, Sidney Emanuel Batista

    2011-01-01

    The allelic frequencies of 12 short tandem repeat loci were obtained from a sample of 307 unrelated individuals living in Macapá, a city in the northern Amazon region, Brazil. These loci are the most commonly used in forensics and paternity testing. Based on the allele frequency obtained for the population of Macapá, we estimated an interethnic admixture for the three parental groups (European, Native American and African) of, respectively, 46%, 35% and 19%. Comparing these allele frequencies with those of other Brazilian populations and of the Iberian Peninsula population, no significant distances were observed. The interpopulation genetic distances (FST coefficients) to the present database ranged from FST = 0.0016 between Macapá and Belém to FST = 0.0036 between Macapá and the Iberian Peninsula. PMID:21637540

  18. Frequency of the MDR1 mutant allele associated with multidrug sensitivity in dogs from Brazil

    Directory of Open Access Journals (Sweden)

    Monobe MM

    2015-04-01

    Full Text Available Marina M Monobe,1 João P Araujo Junior,2 Kari V Lunsford,3 Rodrigo C Silva,4 Camilo Bulla41Department of Veterinary Clinics, School of Veterinary Medicine and Animal Science, 2Department of Microbiology and Immunology, Biosciences Institute, Sao Paulo State University (UNESP, Botucatu, Brazil; 3Department of Clinical Sciences and Animal Health Center, 4Department of Pathobiology and Population Medicine, College of Veterinary Medicine, Mississippi State University, Mississippi, MS, USAAbstract: To date, a 4-bp deletion in the MDR1 gene has been detected in more than ten dog breeds, as well as in mixed breed dogs, in several countries, however information regarding this mutation in dogs from Brazil is lacking. For this reason, 103 Collies, 77 Border Collies, 76 Shetland Sheepdogs, 20 Old English Sheepdogs, 55 German Shepherds, 16 Australian Shepherds, and 53 Whippets from Brazil were screened for the presence of the mutation. The heterozygous mutated genotype, MDR1 (+/−, frequency found for Collies, Australian Shepherd, and Shetland Sheepdog was 50.5% (95% CI =41.1%–59.9%, 31.3% (95% CI =8.6%–53.2%, and 15.8% (95% CI =7.7%–23.9%, respectively. Homozygous mutated genotype, MDR1 (−/−, was detected only in Collies 35.9%. The MDR1 allele mutant frequency found for Collies, Australian Shepherd, and Shetland Sheepdog was 61.2% (95% CI =54.8%–67.5%, 15.6% (95% CI =3.1%–28.2%, and 7.9% (95% CI =3.7%–12.1%, respectively. Additionally, even free of the mutant allele, the maximum mutant prevalence (MMP in that population, with 95% CI, was 3.8%, 5.2%, 5.4%, and 13.8% for Border Collies, German Shepherds, Whippets, and Old English Sheepdogs, respectively. In this way, this information is important, not only for MDR1 genotype-based breeding programs and international exchange of breeding animals of predisposed breeds, but also for modification of drug therapy for breeds at risk.Keywords: P-glycoprotein, MDR1 mutation, ivermectin, dog, drug

  19. "HLA Class II Allele and Haplotype Frequencies in Iranian Patients with Acute Myelogenous Leukemia and Control Group "

    Directory of Open Access Journals (Sweden)

    Abdolfattah Sarafnejad

    2006-09-01

    Full Text Available Previous studies have demonstrated some significant differences in HLA allele frequencies in leukemic patients and normal subjects. We have analyzed HLA class II alleles and haplotypes in 60 Iranian patients with acute myelogenous leukemia (AML and 180 unrelated normal subjects. Blood samples were collected after obtaining informed consents. From the patients and control DNA extraction and HLA typing were performed using PCR-SSP method. Significant positive association with the disease was found for HLA-DRB1*11 allele (35% vs. 24.7%, p=0.033. Two alleles including HLA-DRB4 and –DQB1*0303 were found to be significantly decreased in patients compared to controls. Regarding haplotype analysis, no significant association was found between case and control groups. It is suggested that HLA-DRB1*11 allele plays as a presumptive predisposing factor while the HLA-DRB4 and –DQB1*0303 alleles are suggested as protective genetic factors against acute myelogenous leukemia. Larger studies are needed to confirm and establish the role of these associations with acute myelogenous leukemia.

  20. A note on the change in gene frequency of a selected allele in partial full-sib mating populations

    Energy Technology Data Exchange (ETDEWEB)

    Caballero, A. [Univ. of Edinburgh (United Kingdom)

    1996-02-01

    The change in gene frequency of a selected allele in partial full-sib mating populations was analyzed. The implications of these papers is important in terms of the fixation probability of genes because, for the same equilibrium inbreeding coefficient, fixation rates of mutant genes would be larger for partial full-sib mating than for partial selfing. 4 refs.

  1. Association studies using family pools of outcrossing crops based on allele-frequency estimates from DNA sequencing

    DEFF Research Database (Denmark)

    Ashraf, Bilal; Jensen, Just; Asp, Torben;

    2014-01-01

    (resulting in higher LD with causative mutations) and lower sequencing depth. Therefore, association studies using genotyping by sequencing are optimal and use low sequencing depth per sample. The developed framework for association studies using allele frequencies from sequencing can be modified for other...

  2. Inference of population splits and mixtures from genome-wide allele frequency data.

    Directory of Open Access Journals (Sweden)

    Joseph K Pickrell

    Full Text Available Many aspects of the historical relationships between populations in a species are reflected in genetic data. Inferring these relationships from genetic data, however, remains a challenging task. In this paper, we present a statistical model for inferring the patterns of population splits and mixtures in multiple populations. In our model, the sampled populations in a species are related to their common ancestor through a graph of ancestral populations. Using genome-wide allele frequency data and a Gaussian approximation to genetic drift, we infer the structure of this graph. We applied this method to a set of 55 human populations and a set of 82 dog breeds and wild canids. In both species, we show that a simple bifurcating tree does not fully describe the data; in contrast, we infer many migration events. While some of the migration events that we find have been detected previously, many have not. For example, in the human data, we infer that Cambodians trace approximately 16% of their ancestry to a population ancestral to other extant East Asian populations. In the dog data, we infer that both the boxer and basenji trace a considerable fraction of their ancestry (9% and 25%, respectively to wolves subsequent to domestication and that East Asian toy breeds (the Shih Tzu and the Pekingese result from admixture between modern toy breeds and "ancient" Asian breeds. Software implementing the model described here, called TreeMix, is available at http://treemix.googlecode.com.

  3. Impact of TP53 mutation variant allele frequency on phenotype and outcomes in myelodysplastic syndromes.

    Science.gov (United States)

    Sallman, D A; Komrokji, R; Vaupel, C; Cluzeau, T; Geyer, S M; McGraw, K L; Al Ali, N H; Lancet, J; McGinniss, M J; Nahas, S; Smith, A E; Kulasekararaj, A; Mufti, G; List, A; Hall, J; Padron, E

    2016-03-01

    Although next-generation sequencing has allowed for the detection of somatic mutations in myelodysplastic syndromes (MDS), the clinical relevance of variant allele frequency (VAF) for the majority of mutations is unknown. We profiled TP53 and 20 additional genes in our training set of 219 patients with MDS or secondary acute myeloid leukemia with findings confirmed in a validation cohort. When parsed by VAF, TP53 VAF predicted for complex cytogenetics in both the training (P=0.001) and validation set (P 40% had a median overall survival (OS) of 124 days versus an OS that was not reached in patients with VAF 40% was an independent covariate (HR, 1.61; P<0.0001). In addition, SRSF2 VAF predicted for monocytosis (P=0.003), RUNX1 VAF with thrombocytopenia (P=0.01) and SF3B1 with ringed sideroblasts (P=0.001). Together, our study indicates that VAF should be incorporated in patient management and risk stratification in MDS. PMID:26514544

  4. Allelic distributions of CYP2D6 gene copy number variation in the Eastern Han Chinese population

    Institute of Scientific and Technical Information of China (English)

    Hai-hui SHENG; Yun-lan DU; Jian SUN; Hua-sheng XIAO; Ai-ping ZENG; Wen-xiang ZHU; Ren-fang ZHU; Hong-mei LI; Zhi-dong ZHU; Ying QIN; Wei JIN; Yan LIU

    2007-01-01

    Aim: The human cytochrome P450 2D6 (CYP2D6) gene copy number variation, involving CYP2D6 gene deletion (CYP2D6*5) and duplication or multiduplication (CYP2D6*×N), can result in reduced or increased metabolism of many clinically used drugs. The identification of CYP2D6*5 and CYP2D6*×N and the investigation of their allelic distributions in ethnic populations can be important in deter-mining the right drug and dosage for each patient. Methods: The CYP2D6*5 andCYP2D6 genes, and CYP2D6 gene duplication were identified by 2 modified long PCR, respectively. To determine duplicated alleles, a novel long PCR was developed to amplify the entire duplicated CYP2D6 gene which was used as template for subsequent PCR amplification. A total of 363 unrelated Eastern Han Chinese individuals were analyzed for CYP2D6 gene copy number variation. Results: The frequency of CYP2D6*5 and CYP2D6*×N were 4.82% (n=35) and 0.69% (n=5) in the Eastern Han Chinese population, respectively. Of the 5 duplicated alleles, 3were CYP2D6*1×N and 2 were CYP2D6*10×N. One individual was a carrier of both CYP2D6*5 and CYP2D6*1×N. Taken together, the CYP2D6 gene rear-rangements were present in 10.74% of subjects. Conclusion: Allelic distributions of the CYP2D6 gene copy number variation differ among Chinese from different regions, indicating ethnic variety in Chinese. Long PCR are convenient, cost effective, specific and semiquantitative for the detection of the CYP2D6 gene copy number variation, and amplification of the entire duplicated CYP2D6 gene is necessary for the accurate identification of duplicated alleles.

  5. Genetic Variants and Allele Frequencies of Kappa Casein in Egyptian Cattle and Buffalo Using PCR-RFLP

    OpenAIRE

    Eman M. Gouda; Mona Kh. Galal; Samy A. Abdelaziz

    2013-01-01

    Kappa casein (K-Ca) genetic variations affected quality and composition of the milk. Several variants of Kappa casein (K-Ca) gene locus IV have been reported with special interest for the ‘B’ allele for its relation to the milk protein and fat yields. Genotyping and allelic frequencies of K-Ca among Native Egyptian breeds of cattle and buffalo were the aim of the present study. PCR amplification of DNA isolated from 300 blood samples collected from Holstein and Baladi cattle and buffalo were ...

  6. HLA-DRB, DQA and DQB allele frequencies in Iranian patients with chronic hepatitis B by PCR-SSP

    OpenAIRE

    Baniaghil S; Sarafnejad A; Amirzargar A; Khosravi F; Ansaripour B; Moradi B; Dorkhosh S; Nikbin B

    2007-01-01

    Background: The outcome of acute hepatitis B infection may be influenced by host genetic factors like human leukocyte antigen (HLA). To investigate the association between the HLA-DRB, DQA1 and DQB1 alleles and chronic hepatitis B infection, 50 patients with chronic hepatitis B (based on 6 months positive of HBsAg and HBc antibody and HBeAg and antibody by serological test), were selected from Turkman population in north east of Iran .Allele frequency in patients were compared with a 65 aged ...

  7. HLA-DRB, DQA and DQB allele frequencies in Iranian patients with chronic hepatitis B by PCR-SSP

    Directory of Open Access Journals (Sweden)

    Baniaghil S

    2007-05-01

    Full Text Available Background: The outcome of acute hepatitis B infection may be influenced by host genetic factors like human leukocyte antigen (HLA. To investigate the association between the HLA-DRB, DQA1 and DQB1 alleles and chronic hepatitis B infection, 50 patients with chronic hepatitis B (based on 6 months positive of HBsAg and HBc antibody and HBeAg and antibody by serological test, were selected from Turkman population in north east of Iran .Allele frequency in patients were compared with a 65 aged and sex match control group from healthy blood donor of that ethnic population. Methods: HLA DRB, DQA1 and DQB1 alleles were determined using polymerase chain reaction based on sequence specific primer (PCR-SSP method. Allele frequencies in patients and control subjects were compared by Epi-info statistical soft-wear. Results: There was a significant increase and positive association in HLA-DRB1*0301, DQA1*0501 and DQB1*0604 allele frequency in patients group while the frequency of HLA-DRB1*1301, 1501 and DQB1*0401 and DQA1*0401, 0102 were lower in patients than control group and shows negative association. Conclusion: In Iranian Torkman population, HLA DRB1*0301, DQA1*0501 and DQB1*0604 have an important role in susceptibility to chronic hepatitis B infection and HLA DRB1*1301, 1501, DQB1*0401 are associated with protection to chronic hepatitis B infection. Larger case control studies may be helpful to confirm our investigation.

  8. Triglyceride associated polymorphisms of the APOA5 gene have very different allele frequencies in Pune, India compared to Europeans

    Directory of Open Access Journals (Sweden)

    Chandak Giriraj R

    2006-10-01

    Full Text Available Abstract Background The APOA5 gene variants, -1131T>C and S19W, are associated with altered triglyceride concentrations in studies of subjects of Caucasian and East Asian descent. There are few studies of these variants in South Asians. We investigated whether the two APOA5 variants also show similar association with various lipid parameters in Indian population as in the UK white subjects. Methods We genotyped 557 Indian adults from Pune, India, and 237 UK white adults for -1131T>C and S19W variants in the APOA5 gene, compared their allelic and genotype frequency and determined their association with fasting serum triglycerides, total cholesterol, HDL and LDL cholesterol levels using univariate general linear analysis. APOC3 SstI polymorphism was also analyzed in 175 Pune Indian subjects for analysis of linkage disequilibrium with the APOA5 variants. Results The APOA5 -1131C allele was more prevalent in Indians from Pune (Pune Indians compared to UK white subjects (allele frequency 20% vs. 4%, p = 0.00001, whereas the 19W allele was less prevalent (3% vs. 6% p = 0.0015. Patterns of linkage disequilibrium between the two variants were similar between the two populations and confirmed that they occur on two different haplotypes. In Pune Indians, the presence of -1131C allele and the 19W allele was associated with a 19% and 15% increase respectively in triglyceride concentrations although only -1131C was significant (p = 0.0003. This effect size was similar to that seen in the UK white subjects. Analysis of the APOC3 SstI polymorphism in 175 Pune Indian subjects showed that this variant is not in appreciable linkage disequilibrium with the APOA5 -1131T>C variant (r2 = 0.07. Conclusion This is the first study to look at the role of APOA5 in Asian Indian subjects that reside in India. The -1131C allele is more prevalent and the 19W allele is less prevalent in Pune Indians compared to UK Caucasians. We confirm that the APOA5 variants are associated

  9. ACTN3 Allele Frequency in Humans Covaries with Global Latitudinal Gradient

    OpenAIRE

    Friedlander, Scott M.; Herrmann, Amanda L.; Lowry, Daniel P.; Mepham, Emily R.; Lek, Monkol; North, Kathryn N.; Organ, Chris L.

    2013-01-01

    A premature stop codon in ACTN3 resulting in α-actinin-3 deficiency (the ACTN3 577XX genotype) is common in humans and reduces strength, muscle mass, and fast-twitch fiber diameter, but increases the metabolic efficiency of skeletal muscle. Linkage disequilibrium data suggest that the ACTN3 R577X allele has undergone positive selection during human evolution. The allele has been hypothesized to be adaptive in environments with scarce resources where efficient muscle metabolism would be select...

  10. The study of Allelic Frequency of ABO and Rh D Blood Group among the Banjara Population of Akola District, Maharashtra, India

    Directory of Open Access Journals (Sweden)

    Aravind Chavhan

    2012-12-01

    Full Text Available The distribution of ABO blood groups and Rh (D factor has been studied in the Banjara population. In the present study O, A, B, and AB blood group percentages of Banjaras of Akola district of Maharashtra are recorded as 27.64%, 22.91%, 37.45% and 12% respectively and the Rh negative incidences recorded as 02.55%. The allelic frequencies of O, A, B and AB groups in the combined data of same community found to be 0.5196, 0.2880, and 0.1924 respectively and Rh (D positive as 0.8405.

  11. Distribution of HLA alleles in Portugal and Cabo Verde. Relationships with the slave trade route.

    Science.gov (United States)

    Spínola, H; Brehm, A; Williams, F; Jesus, J; Middleton, D

    2002-07-01

    HLA-A, -B, and -DR frequencies were analysed in populations from Portugal and the Madeira and Cabo Verde Archipelagos, aiming to characterize their genetic composition. Portuguese settlers colonized both Archipelagos in the 15th and 16th centuries. Madeira received many sub-Saharan slaves to work in the sugar plantations, and Cabo Verde served as a pivotal market in the Atlantic slave trade and was populated by individuals coming from the Senegambia region of the West African coast. The population of Madeira shows the highest genetic diversity and the presence of alleles and haplotypes usually linked to sub-Saharan populations, the haplotypes accounting for 3.5% of the total. Cabo Verde presents typical markers acknowledged to be of European or Ibero-Mediterranean origin, thus revealing the admixture of European settlers with Sub-Saharan slaves. Altogether the number of European haplotypes reaches 15% of the total. The Portuguese population shows a perceivable and significant heterogeneity both in allele and haplotype frequencies, unveiling a differential input of peoples from different origins. A PCA of the populations studied, plus other relevant ones, clearly shows gene heterogeneity in mainland Portugal as well as the differences and relationships between these populations and Madeira and Cabo Verde. PMID:12418969

  12. Frequency distribution of coliforms in water distribution systems.

    OpenAIRE

    Christian, R R; Pipes, W O

    1983-01-01

    Nine small water distribution systems were sampled intensively to determine the patterns of dispersion of coliforms. The frequency distributions of confirmed coliform counts were compatible with either the negative-binomial or the lognormal distribution. They were not compatible with either the Poisson or Poisson-plus-added zeroes distribution. The implications of the use of the lognormal distributional model were further evaluated because of its previous use in water quality studies. The geo...

  13. Skewed allele frequencies of an Mx gene mutation with potential resistance to avian influenza virus in different chicken populations.

    Science.gov (United States)

    Li, X Y; Qu, L J; Yao, J F; Yang, N

    2006-07-01

    The Mx gene is considered to confer positive antiviral responses to the orthomyxovirus in many organisms. In the chicken, 1 nonsynonymous single nucleotide polymorphism (G to A) at position 2,032 of Mx cDNA was demonstrated to confer positive antiviral activity in vitro to avian influenza virus in a previous study. In the current study, 15 Chinese native chicken breeds, 4 highly selected commercial lines, and the Red Jungle Fowl were selected to detect allele frequencies of the Mx mutation. The frequencies of the favorable allele A in native breeds were 0.7241 to 0.9554, which were much higher than those (0.0565 to 0.2742) found in the commercial populations. Whereas most native breeds were in Hardy-Weinberg equilibrium at this locus (P > 0.01), 3 out of 4 commercial populations were not in Hardy-Weinberg equilibrium (P domestication background and selection history. PMID:16830876

  14. Frequency of the apolipoprotein E epsilon 4 allele in a case-control study of early onset Parkinson's disease.

    OpenAIRE

    Whitehead, A S; Bertrandy, S.; Finnan, F; Butler, A; G. D. Smith(Edinburgh University); Ben-Shlomo, Y.

    1996-01-01

    OBJECTIVES: It has been suggested that Parkinson's disease and Alzheimer's disease may share a common or at least overlapping aetiology. The prevalence of dementia among cases of Parkinson's disease is known to be greater than expected in the general population. The frequency of the apolipoprotein epsilon 4 allele in a large case-control study of early onset Parkinson's disease has been examined. METHODS: 215 patients and 212 population based controls were recruited from the Republic of Irela...

  15. Allelic Frequency of Kappa-Casein and Beta-Lactoglobulin in Indian Crossbred (Bos taurus X Bos indicus) Dairy Bulls

    OpenAIRE

    Patel, Rajesh K.; Chauhan, Jenabhai B.; Singh, Krishna M.; Kalpesh J. Soni

    2007-01-01

    A polymerase chain reaction - restriction fragment length polymorphism test was performed on DNA samples extracted from blood samples of 256 Holstein Friesian crossbred and 112 from Jersey crossbred bulls/bull calves to detect allelic frequency of the bovine kappa-casein and beta-lactoglobulin gene responsible for milk production traits. A 350 bp fragment of kappa-casein and a 247 bp fragment of beta-lactoglobulin were amplified and digested with Hinf I and Hae III restriction enzymes, respec...

  16. Unusually high frequency MHC class I alleles in Mauritian origin cynomolgus macaques.

    Science.gov (United States)

    Krebs, Kendall C; Jin, ZheYuan; Rudersdorf, Richard; Hughes, Austin L; O'Connor, David H

    2005-10-15

    Acute shortages of Indian origin Rhesus macaques significantly hinder HIV/AIDS research. Cellular immune responses are particularly difficult to study because only a subset of animals possess MHC class I (MHC I) alleles with defined peptide-binding specificities. To expand the pool of nonhuman primates suitable for studies of cellular immunity, we defined 66 MHC I alleles in Cynomolgus macaques (Macaca fascicularis) of Chinese, Vietnamese, and Mauritian origin. Most MHC I alleles were found only in animals from a single geographic origin, suggesting that Cynomolgus macaques from different origins are not interchangeable in studies of cellular immunity. Animals from Mauritius may be particularly valuable because >50% of these Cynomolgus macaques share the MHC class I allele combination Mafa-B*430101, Mafa-B*440101, and Mafa-B*460101. The increased MHC I allele sharing of Mauritian origin Cynomolgus macaques may dramatically reduce the overall number of animals needed to study cellular immune responses in nonhuman primates while simultaneously reducing the confounding effects of genetic heterogeneity in HIV/AIDS research. PMID:16210628

  17. High resolution human leukocyte antigen class I allele frequencies and HIV-1 infection associations in Chinese Han and Uyghur cohorts.

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    Yanhou Liu

    Full Text Available BACKGROUND: Host immunogenetic factors such as HLA class I polymorphism are important to HIV-1 infection risk and AIDS progression. Previous studies using high-resolution HLA class I profile data of Chinese populations appeared insufficient to provide information for HIV-1 vaccine development and clinical trial design. Here we reported HLA class I association with HIV-1 susceptibility in a Chinese Han and a Chinese Uyghur cohort. METHODOLOGY/PRINCIPAL FINDINGS: Our cohort included 327 Han and 161 Uyghur ethnic individuals. Each cohort included HIV-1 seropositive and HIV-1 seronegative subjects. Four-digit HLA class I typing was performed by sequencing-based typing and high-resolution PCR-sequence specific primer. We compared the HLA class I allele and inferred haplotype frequencies between HIV-1 seropositive and seronegative groups. A neighbor-joining tree between our cohorts and other populations was constructed based on allele frequencies of HLA-A and HLA-B loci. We identified 58 HLA-A, 75 HLA-B, and 32 HLA-Cw distinct alleles from our cohort and no novel alleles. The frequency of HLA-B*5201 and A*0301 was significantly higher in the Han HIV-1 negative group. The frequency of HLA-B*5101 was significantly higher in the Uyghur HIV-1 negative group. We observed statistically significant increases in expectation-maximization (EM algorithm predicted haplotype frequencies of HLA-A*0201-B*5101 in the Uyghur HIV-1 negative group, and of Cw*0304-B*4001 in the Han HIV-1 negative group. The B62s supertype frequency was found to be significantly higher in the Han HIV-1 negative group than in the Han HIV-1 positive group. CONCLUSIONS: At the four-digit level, several HLA class I alleles and haplotypes were associated with lower HIV-1 susceptibility. Homogeneity of HLA class I and Bw4/Bw6 heterozygosity were not associated with HIV-1 susceptibility in our cohort. These observations contribute to the Chinese HLA database and could prove useful in the

  18. Identification and distribution of three serologically undetected alleles of HLA-DR by oligonucleotide x DNA typing analysis

    International Nuclear Information System (INIS)

    Recent progress in the molecular biology of human major histocompatibility complex class II genes (HLA-DP, -DQ, -DR) have shown that the genetic complexity and allelic polymorphism are greater than expected. In the case of HLA-DR, three DR β-chain loci have been identified and linked, two of which (DR βI and DR βIII, now assigned names HLA-DR1B and HLA-DR3B) are functional. The authors have shown that the HLA micropolymorphism detected at the DNA sequence level can easily be analyzed by hybridization with allele-specific oligonucleotides (HLA oligotyping). In the case of the HLA DRw52 supertypic specificity, which includes the DR3, DR5, DRw6, and DRw8 haplotypes, three alleles, referred to as DRw52a, DRw52b, and DRw52c, have recently been identified at the HLA-DR3B locus by DNA sequencing. Hybridization with locus- and allele-specific oligonucleotide probes (designated 52a, 52b, and 52c) has been performed on DNA from normal individuals forming a panel of 82 haplotypes to establish the distribution of these three alleles. Individuals of the DR3 haplotype had either the DRw52a or DRw52b allele, and individuals of extended haplotype HLA-A1,B8,DR3 had only the DRw52a allele. DR5 individuals all had the DRw52b allele, while individuals of DRw6 haplotype had the DRw52a, -52b, or -52c allele. None of these three alleles are found in DRw8 individuals. Analysis of this micropolymorphism, undetectable by common typing procedures, is therefore now operational for more accurate HLA matching for transplantation and for improving correlations between HLA and disease susceptibility

  19. Analysis of HLA-A, HLA-B, HLA-DRB1 allelic, genotypic, and haplotypic frequencies in colombian population

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    Yazmin Rocío Árias-Murillo

    2010-12-01

    Full Text Available Introduction: The high polymorphism of the HLA system allows its typification to be used as valuable tool in establishing association to various illnesses, immune and genetic profiles; it also provides a guide to identifying compatibility among donors and receptors of organs transplants.Objective: To establish HLA-A, HLA-B, and HLA.DRB1 allele, genotype and haplotype frequencies among patients treated at Clinica Colsanitas SA.Methods: 561 patients coming from different regions in Colombia, who were attended in 8 centers of the clinical laboratory of the Clinica Colsanitas in different cities of the country from January 2004 to August 2008, were included in this study. All were HLA-A,-B, and -DRB1 typified via SSP PCR. Allele, genotype and haplotype frequencies were estimated with STATA Software Version 9.0 and the GENEPOP genetic analysis package.Results: 19, 28, and 15 different alleles were identified for loci HLA-A,-B and -DRB1, respectively. Alleles found most frequently were A*24 (26.2%, A*02 (26%, B*35(22.7%, and DRB1*04 (24%. The most frequent genotypes were A*02,24 (14.2%, B*07,35 (5.5%, DRB1*01,04, and DRB1*04,04 (6.9%; while most the frequent haplotypes were HLA A*24, B*35 (9.2%, A*24, DRB1*04 (8.1%; B*35, DRB1*04 (7.8%, A*2 DRB1*04 (7.4%.Conclusion: The results obtained provide a useful reference framework for the population studied, allowing compatibility probability calculations to be performed for organ transplants.

  20. ACTN3 allele frequency in humans covaries with global latitudinal gradient.

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    Scott M Friedlander

    Full Text Available A premature stop codon in ACTN3 resulting in α-actinin-3 deficiency (the ACTN3 577XX genotype is common in humans and reduces strength, muscle mass, and fast-twitch fiber diameter, but increases the metabolic efficiency of skeletal muscle. Linkage disequilibrium data suggest that the ACTN3 R577X allele has undergone positive selection during human evolution. The allele has been hypothesized to be adaptive in environments with scarce resources where efficient muscle metabolism would be selected. Here we test this hypothesis by using recently developed comparative methods that account for evolutionary relatedness and gene flow among populations. We find evidence that the ACTN3 577XX genotype evolved in association with the global latitudinal gradient. Our results suggest that environmental variables related to latitudinal variation, such as species richness and mean annual temperature, may have influenced the adaptive evolution of ACTN3 577XX during recent human history.

  1. Flood Frequency Analysis Using the Gumbel Distribution

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    Never Mujere

    2011-07-01

    Full Text Available This paper presents results of a study carried in Zimbabwe aimed at analysing the frequency of Nyanyadzi River floods using the Gumbel distribution. Extreme floods over recent years had washed away fields, destroyed infrastructure and killed animals. It was hypothesised that Nyanyadzi flood flows obey the Gumbel distribution. The scale and shape parameters of the distribution were estimated using method of moments. Maximum instantaneous flow data covering 30 water years (1969-1999 for station E119 on Nyanyadzi River were collected from the Zimbabwe National Water Authority (ZINWA. A Chisquare χ2 test revealed no significant (p =1.000 differences between recorded and predicted flood flows. Due to goodness of fit of the Gumbel distribution, it was assumed to be appropriate for modelling frequency of Nyanyadzi River floods. The magnitudes of the 100 and 200-year floods were estimated to be 276 and 310 m3/s respectively.

  2. The immunogenetics of multiple sclerosis. The frequency of HLA-alleles class 1 and 2 is lower in Southern Brazil than in the European population

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    Lineu Cesar Werneck

    2016-08-01

    Full Text Available ABSTRACT Objective To study the HLA of class 1and 2 in a multiple sclerosis (MS population to verify the susceptibility for the disease in the Southern Brazil. Methods We analyzed patients with MS and controls, by direct sequencing of the genes related to HLA DRB1, DQB1, DPB1, A, B and C alleles with high resolution techniques. Results We found a lower frequency of all HLA alleles class 1 and 2 in MS and controls comparing to the European population. Several alleles had statistical correlation, but after Bonferroni correction, the only allele with significance was the HLA-DQB1*02:03, which has a positive association with MS. Conclusions Our data have different frequency of HLA-alleles than the previous published papers in the Southeast Brazil and European population, possible due to several ethnic backgrounds.

  3. A Theoretical Framework for Association Studies in F2 Family Pools Using Allele Frequencies from Genotyping-By-Sequencing

    DEFF Research Database (Denmark)

    Janss, Luc L; Ashraf, Bilal H; Greve-Pedersen, Morten;

    In Perennial ryegrass breeding, F2's derived from parental crosses are sown in plots and phenotypes and genotypes are obtained as single measurements for the whole F2 family pool. For genotypes this means that quantitative assays must be used to obtain allele frequencies. For this purpose a seque...... of sequencing reads. We evaluated that with a fixed sequencing capacity it is advantageous to use low coverage and maximize the number of samples, because the value of additional samples is larger than that of additional coverage....

  4. Intraspecific body size frequency distributions of insects.

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    E Jeanne Gouws

    Full Text Available Although interspecific body size frequency distributions are well documented for many taxa, including the insects, intraspecific body size frequency distributions (IaBSFDs are more poorly known, and their variation among mass-based and linear estimates of size has not been widely explored. Here we provide IaBSFDs for 16 species of insects based on both mass and linear estimates and large sample sizes (n ≥ 100. In addition, we review the published IaBSFDs for insects, though doing so is complicated by their under-emphasis in the literature. The form of IaBSFDs can differ substantially between mass-based and linear measures. Nonetheless, in non-social insects they tend to be normally distributed (18 of 27 species or in fewer instances positively skewed. Negatively skewed distributions are infrequently reported and log transformation readily removes the positive skew. Sexual size dimorphism does not generally cause bimodality in IaBSFDs. The available information on IaBSFDs in the social insects suggests that these distributions are usually positively skewed or bimodal (24 of 30 species. However, only c. 15% of ant genera are polymorphic, suggesting that normal distributions are probably more common, but less frequently investigated. Although only 57 species, representing seven of the 29 orders of insects, have been considered here, it appears that whilst IaBSFDs are usually normal, other distribution shapes can be found in several species, though most notably among the social insects. By contrast, the interspecific body size frequency distribution is typically right-skewed in insects and in most other taxa.

  5. Intraspecific body size frequency distributions of insects.

    Science.gov (United States)

    Gouws, E Jeanne; Gaston, Kevin J; Chown, Steven L

    2011-01-01

    Although interspecific body size frequency distributions are well documented for many taxa, including the insects, intraspecific body size frequency distributions (IaBSFDs) are more poorly known, and their variation among mass-based and linear estimates of size has not been widely explored. Here we provide IaBSFDs for 16 species of insects based on both mass and linear estimates and large sample sizes (n ≥ 100). In addition, we review the published IaBSFDs for insects, though doing so is complicated by their under-emphasis in the literature. The form of IaBSFDs can differ substantially between mass-based and linear measures. Nonetheless, in non-social insects they tend to be normally distributed (18 of 27 species) or in fewer instances positively skewed. Negatively skewed distributions are infrequently reported and log transformation readily removes the positive skew. Sexual size dimorphism does not generally cause bimodality in IaBSFDs. The available information on IaBSFDs in the social insects suggests that these distributions are usually positively skewed or bimodal (24 of 30 species). However, only c. 15% of ant genera are polymorphic, suggesting that normal distributions are probably more common, but less frequently investigated. Although only 57 species, representing seven of the 29 orders of insects, have been considered here, it appears that whilst IaBSFDs are usually normal, other distribution shapes can be found in several species, though most notably among the social insects. By contrast, the interspecific body size frequency distribution is typically right-skewed in insects and in most other taxa. PMID:21479214

  6. Origins, distribution and expression of the Duarte-2 (D2) allele of galactose-1-phosphate uridylyltransferase

    OpenAIRE

    Carney, Amanda E.; Rebecca D Sanders; Garza, Kerry R.; McGaha, Lee Anne; Bean, Lora J. H.; Coffee, Bradford W.; Thomas, James W; Cutler, David J.; Kurtkaya, Natalie L.; Fridovich-Keil, Judith L.

    2009-01-01

    Duarte galactosemia is a mild to asymptomatic condition that results from partial impairment of galactose-1-phosphate uridylyltransferase (GALT). Patients with Duarte galactosemia demonstrate reduced GALT activity and carry one profoundly impaired GALT allele (G) along with a second, partially impaired GALT allele (Duarte-2, D2). Molecular studies reveal at least five sequence changes on D2 alleles: a p.N314D missense substitution, three intronic base changes and a 4 bp deletion in the 5′ pro...

  7. The allelic distribution of -308 Tumor Necrosis Factor-alpha gene polymorphism in South African women with cervical cancer and control women

    International Nuclear Information System (INIS)

    Cervical cancer is due to infection with specific high-risk types of human papillomavirus (HPV). Although the incidence of genital HPV infection in various population groups is high, most of these regress without intervention. Investigating genetic host factors and cellular immune responses, particularly cytokines, could help to understand the association between genital HPV infection and carcinogenesis. The tumor necrosis factor alpha (TNF-α) cytokine plays an important role in all stages of cervical cancer and has the ability to induce the regression of human tumors. Therefore the aim of the study was to investigate the allelic distribution of -308 TNF-α gene polymorphism in South African women with cervical cancer compared to control women. Included in our study were women with histologically proven cancer of the cervix (n = 244) and hospital-based controls (n = 228). All patients and controls were from mixed race and black population groups in South Africa. The detection of a bi-allelic -308 (A/G) polymorphism in the promoter region of TNF-α was investigated using the amplification refractory mutation system-polymerase chain reaction (ARMS-PCR) technique. The distributions of the allelic frequencies were stratified in both patients and controls into two South African ethnic population groups. In this study we observed no association between the distribution of -308 TNF-α polymorphism and the risk of developing cervical cancer even after combining the data from the two ethnic populations (X2 = 2.26). In addition, using the chi-squared test we found no significant association between the known risk factors for cervical cancer and the allele distribution of -308 TNF-α. However, the frequency of the rare high-producing allele -308A of TNF-α was significantly lower in the South African population when compared to Caucasians and Chinese population groups. We demonstrated no association between -308 TNF-α polymorphism and the risk of cervical cancer among two

  8. DNA-PCR system FGA (FIBRA)--genotype and allele frequencies in a sample of western Germany (Düsseldorf region).

    Science.gov (United States)

    Huckenbeck, W; Scheil, H G; Kuntze, K

    1999-12-01

    Frequency data for the STR system FGA (HumFibra) were obtained from a Caucasoid German population sample (Düsseldorf area) of 424 unrelated individuals. PCR products were detected by horizontal polyacrylamid gel electrophoresis and a total of 16 alleles was identified by side-by-side comparison with a commercially available sequenced ladder. The observed genotype distribution showed no significant deviation from the Hardy-Weinberg equilibrium. The high information content (pooled German data: rate of heterozygosity = 0.8626; probability of match = 0.0344; mean exclusion chance = 0.7240) render this system a useful tool not only in forensic casework (criminal and paternity cases) but in population genetics too. PMID:10646230

  9. A prospective evaluation of the transthyretin Ile122 allele frequency in an African-American population.

    Science.gov (United States)

    Yamashita, Taro; Hamidi Asl, Kamran; Yazaki, Masahide; Benson, Merrill D

    2005-06-01

    Transthyretin Val122Ile is one of greater than 80 mutations in transthyretin (TTR) that are associated with hereditary amyloidosis. Retrospective studies have shown a prevalence of this mutation as high as 3.9% in African-Americans. The present study was undertaken to determine in a prospective fashion the prevalence of the TTR Val122Ile allele in African-Americans in a Midwestern American city. DNA was isolated from cord bloods collected at the time of birth in the County hospital of Indianapolis, Indiana. Samples were identified only as to ethnic origin of the mother. Analysis was performed by PCR amplification of TTR exon 4 followed by SSCP and RFLP. Cord bloods from 1,973 children born at the County hospital were analyzed. Thirty of 1,000 DNA samples from African-American newborns were positive for TTR Val122Ile (3%). Two of 453 DNA samples from Caucasian newborns were positive (0.44%). Zero of 490 DNA samples from newborns of Hispanic mothers and 0 of 30 from newborns with mothers classified as other (including Asian) were positive. This prospective study demonstrates that 3% of newborns of African-American women in an urban population have the TTR Val122Ile mutation which is associated with late-onset cardiomyopathy. The degree of penetrance of this mutation at the clinical level has not yet been determined. PMID:16011990

  10. Analysis of the CCR5 gene coding region diversity in five South American populations reveals two new non-synonymous alleles in Amerindians and high CCR5*D32 frequency in Euro-Brazilians

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    Angelica B.W. Boldt

    2009-01-01

    Full Text Available The CC chemokine receptor 5 (CCR5 molecule is an important co-receptor for HIV. The effect of the CCR5*D32 allele in susceptibility to HIV infection and AIDS disease is well known. Other alleles than CCR5*D32 have not been analysed before, neither in Amerindians nor in the majority of the populations all over the world. We investigated the distribution of the CCR5 coding region alleles in South Brazil and noticed a high CCR5*D32 frequency in the Euro-Brazilian population of the Paraná State (9.3%, which is the highest thus far reported for Latin America. The D32 frequency is even higher among the Euro-Brazilian Mennonites (14.2%. This allele is uncommon in Afro-Brazilians (2.0%, rare in the Guarani Amerindians (0.4% and absent in the Kaingang Amerindians and the Oriental-Brazilians. R223Q is common in the Oriental-Brazilians (7.7% and R60S in the Afro-Brazilians (5.0%. A29S and L55Q present an impaired response to b-chemokines and occurred in Afro- and Euro-Brazilians with cumulative frequencies of 4.4% and 2.7%, respectively. Two new non-synonymous alleles were found in Amerindians: C323F (g.3729G > T in Guarani (1.4% and Y68C (g.2964A > G in Kaingang (10.3%. The functional characteristics of these alleles should be defined and considered in epidemiological investigations about HIV-1 infection and AIDS incidence in Amerindian populations.

  11. Functional nsSNPs from carcinogenesis-related genes expressed in breast tissue: Potential breast cancer risk alleles and their distribution across human populations

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    Savas Sevtap

    2006-03-01

    Full Text Available Abstract Although highly penetrant alleles of BRCA1 and BRCA2 have been shown to predispose to breast cancer, the majority of breast cancer cases are assumed to result from the presence of low-moderate penetrant alleles and environmental carcinogens. Non-synonymous single nucleotide polymorphisms (nsSNPs are hypothesised to contribute to disease susceptibility and approximately 30 per cent of them are predicted to have a biological significance. In this study, we have applied a bioinformatics-based strategy to identify breast cancer-related nsSNPs from 981 carcinogenesis-related genes expressed in breast tissue. Our results revealed a total of 367 validated nsSNPs, 109 (29.7 per cent of which are predicted to affect the protein function (functional nsSNPs, suggesting that these nsSNPs are likely to influence the development and homeostasis of breast tissue and hence contribute to breast cancer susceptibility. Sixty-seven of the functional nsSNPs presented as commonly occurring nsSNPs (minor allele frequencies ≥ 5 per cent, representing excellent candidates for breast cancer susceptibility. Additionally, a non-uniform distribution of the common functional nsSNPs among different human populations was observed: 15 nsSNPs were reported to be present in all populations analysed, whereas another set of 15 nsSNPs was specific to particular population(s. We propose that the nsSNPs analysed in this study constitute a unique resource of potential genetic factors for breast cancer susceptibility. Furthermore, the variations in functional nsSNP allele frequencies across major population backgrounds may point to the potential variability of the molecular basis of breast cancer predisposition and treatment response among different human populations.

  12. Allele-specific distribution of RNA polymerase II on female X chromosomes.

    Science.gov (United States)

    Kucera, Katerina S; Reddy, Timothy E; Pauli, Florencia; Gertz, Jason; Logan, Jenae E; Myers, Richard M; Willard, Huntington F

    2011-10-15

    While the distribution of RNA polymerase II (PolII) in a variety of complex genomes is correlated with gene expression, the presence of PolII at a gene does not necessarily indicate active expression. Various patterns of PolII binding have been described genome wide; however, whether or not PolII binds at transcriptionally inactive sites remains uncertain. The two X chromosomes in female cells in mammals present an opportunity to examine each of the two alleles of a given locus in both active and inactive states, depending on which X chromosome is silenced by X chromosome inactivation. Here, we investigated PolII occupancy and expression of the associated genes across the active (Xa) and inactive (Xi) X chromosomes in human female cells to elucidate the relationship of gene expression and PolII binding. We find that, while PolII in the pseudoautosomal region occupies both chromosomes at similar levels, it is significantly biased toward the Xa throughout the rest of the chromosome. The general paucity of PolII on the Xi notwithstanding, detectable (albeit significantly reduced) binding can be observed, especially on the evolutionarily younger short arm of the X. PolII levels at genes that escape inactivation correlate with the levels of their expression; however, additional PolII sites can be found at apparently silenced regions, suggesting the possibility of a subset of genes on the Xi that are poised for expression. Consistent with this hypothesis, we show that a high proportion of genes associated with PolII-accessible sites, while silenced in GM12878, are expressed in other female cell lines. PMID:21791549

  13. Colloquium paper: human adaptations to diet, subsistence, and ecoregion are due to subtle shifts in allele frequency.

    Science.gov (United States)

    Hancock, Angela M; Witonsky, David B; Ehler, Edvard; Alkorta-Aranburu, Gorka; Beall, Cynthia; Gebremedhin, Amha; Sukernik, Rem; Utermann, Gerd; Pritchard, Jonathan; Coop, Graham; Di Rienzo, Anna

    2010-05-11

    Human populations use a variety of subsistence strategies to exploit an exceptionally broad range of ecoregions and dietary components. These aspects of human environments have changed dramatically during human evolution, giving rise to new selective pressures. To understand the genetic basis of human adaptations, we combine population genetics data with ecological information to detect variants that increased in frequency in response to new selective pressures. Our approach detects SNPs that show concordant differences in allele frequencies across populations with respect to specific aspects of the environment. Genic and especially nonsynonymous SNPs are overrepresented among those most strongly correlated with environmental variables. This provides genome-wide evidence for selection due to changes in ecoregion, diet, and subsistence. We find particularly strong signals associated with polar ecoregions, with foraging, and with a diet rich in roots and tubers. Interestingly, several of the strongest signals overlap with those implicated in energy metabolism phenotypes from genome-wide association studies, including SNPs influencing glucose levels and susceptibility to type 2 diabetes. Furthermore, several pathways, including those of starch and sucrose metabolism, are enriched for strong signals of adaptations to a diet rich in roots and tubers, whereas signals associated with polar ecoregions are overrepresented in genes associated with energy metabolism pathways. PMID:20445095

  14. Real-time PCR genotyping assay for canine progressive rod-cone degeneration and mutant allele frequency in Toy Poodles, Chihuahuas and Miniature Dachshunds in Japan.

    Science.gov (United States)

    Kohyama, Moeko; Tada, Naomi; Mitsui, Hiroko; Tomioka, Hitomi; Tsutsui, Toshihiko; Yabuki, Akira; Rahman, Mohammad Mahbubur; Kushida, Kazuya; Mizukami, Keijiro; Yamato, Osamu

    2016-04-01

    Canine progressive rod-cone degeneration (PRCD) is a middle- to late-onset, autosomal recessive, inherited retinal disorder caused by a substitution (c.5G>A) in the canine PRCD gene that has been identified in 29 or more purebred dogs. In the present study, a TaqMan probe-based real-time PCR assay was developed and evaluated for rapid genotyping and large-scale screening of the mutation. Furthermore, a genotyping survey was carried out in a population of the three most popular breeds in Japan (Toy Poodles, Chihuahuas and Miniature Dachshunds) to determine the current mutant allele frequency. The assay separated all the genotypes of canine PRCD rapidly, indicating its suitability for large-scale surveys. The results of the survey showed that the mutant allele frequency in Toy Poodles was high enough (approximately 0.09) to allow the establishment of measures for the prevention and control of this disorder in breeding kennels. The mutant allele was detected in Chihuahuas for the first time, but the frequency was lower (approximately 0.02) than that in Toy Poodles. The mutant allele was not detected in Miniature Dachshunds. This assay will allow the selective breeding of dogs from the two most popular breeds (Toy Poodle and Chihuahua) in Japan and effective prevention or control of the disorder. PMID:26549343

  15. An evaluation of the performance of HapMap SNP data in a Shanghai Chinese population: Analyses of allele frequency, linkage disequilibrium pattern and tagging SNPs transferability on chromosome 1q21-q25

    Directory of Open Access Journals (Sweden)

    Wang Jie

    2008-02-01

    Full Text Available Abstract Background The HapMap project aimed to catalog millions of common single nucleotide polymorphisms (SNPs in the human genome in four major populations, in order to facilitate association studies of complex diseases. To examine the transferability of Han Chinese in Beijing HapMap data to the Southern Han Chinese in Shanghai, we performed comparative analyses between genotypes from over 4,500 SNPs in a 21 Mb region on chromosome 1q21-q25 in 80 unrelated Shanghai Chinese and 45 HapMap Chinese data. Results Three thousand and forty-two SNPs were analyzed after removal of SNPs that failed quality control and those not in the HapMap panel. We compared the allele frequency distributions, linkage disequilibrium patterns, haplotype frequency distributions and tagging SNP sets transferability between the HapMap population and Shanghai Chinese population. Among the four HapMap populations, Beijing Chinese showed the best correlation with Shanghai population on allele frequencies, linkage disequilibrium and haplotype frequencies. Tagging SNP sets selected from four HapMap populations at different thresholds were evaluated in the Shanghai sample. Under the threshold of r2 equal to 0.8 or 0.5, both HapMap Chinese and Japanese data showed better coverage and tagging efficiency than Caucasian and African data. Conclusion Our study supported the applicability of HapMap Beijing Chinese SNP data to the study of complex diseases among southern Chinese population.

  16. Frequencies of 23 functionally significant variant alleles related with metabolism of antineoplastic drugs in the Chilean population: comparison with Caucasian and Asian populations

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    Angela Margarita Roco

    2012-11-01

    Full Text Available Cancer is a leading cause of death worldwide. The cancer incidence rate in Chile is 133.7/100,000 inhabitants and it is the second cause of death, after cardiovascular diseases. Most of the antineoplastic drugs are metabolized to be detoxified, and some of them to be activated. Genetic polymorphisms of drug-metabolizing enzymes can induce deep changes in enzyme activity, leading to individual variability in drug efficacy and/or toxicity. The present research describes the presence of genetic polymorphisms in the Chilean population, which might be useful in public health programs for personalized treatment of cancer, and compare these frequencies with those reported for Asian and Caucasian populations, as a contribution to the evaluation of ethnic differences in the response to chemotherapy.We analyzed 23 polymorphisms in a group of 253 unrelated Chilean volunteers from the general population. The results showed that CYP2A6*2, CYP2A6*3, CYP2D6*3, CYP2C19*3 and CYP3A4*17 variant alleles are virtually absent in Chileans. CYP1A1*2A allele frequency (0.37 is similar to that of Caucasians and higher than that reported for Japanese people. Allele frequencies for CYP3A5*3 (0.76 and CYP2C9*3 (0.04 are similar to those observed in Japanese people. CYP1A1*2C (0.32, CYP1A2*1F (0.77, CYP3A4*1B(0.06, CYP2D6*2(0.41 and MTHFR T(0.52 allele frequencies are higher than the observed either in Caucasian or in Japanese populations. Conversely, CYP2C19*2 allele frequency (0.12 and GSTT1null (0.11 and GSTM1null (0.36 genotype frequencies are lower than those observed in both populations. Finally, allele frequencies for CYP2A6*4(0.04, CYP2C8*3(0.06, CYP2C9*2(0.06, CYP2D6*4(0.12, CYP2E1*5B(0.14, CYP2E1*6(0.19, and UGT2B7*2(0.40 are intermediate in relation to those described in Caucasian and in Japanese populations, as expected according to the ethnic origin of the Chilean population.In conclusion, our findings support the idea that ethnic variability must be considered

  17. Zipfian Frequency Distributions Facilitate Word Segmentation in Context

    Science.gov (United States)

    Kurumada, Chigusa; Meylan, Stephan C.; Frank, Michael C.

    2013-01-01

    Word frequencies in natural language follow a highly skewed Zipfian distribution, but the consequences of this distribution for language acquisition are only beginning to be understood. Typically, learning experiments that are meant to simulate language acquisition use uniform word frequency distributions. We examine the effects of Zipfian…

  18. Power laws for heavy-tailed distributions: modeling allele and haplotype diversity for the national marrow donor program.

    Directory of Open Access Journals (Sweden)

    Noa Slater

    2015-04-01

    Full Text Available Measures of allele and haplotype diversity, which are fundamental properties in population genetics, often follow heavy tailed distributions. These measures are of particular interest in the field of hematopoietic stem cell transplant (HSCT. Donor/Recipient suitability for HSCT is determined by Human Leukocyte Antigen (HLA similarity. Match predictions rely upon a precise description of HLA diversity, yet classical estimates are inaccurate given the heavy-tailed nature of the distribution. This directly affects HSCT matching and diversity measures in broader fields such as species richness. We, therefore, have developed a power-law based estimator to measure allele and haplotype diversity that accommodates heavy tails using the concepts of regular variation and occupancy distributions. Application of our estimator to 6.59 million donors in the Be The Match Registry revealed that haplotypes follow a heavy tail distribution across all ethnicities: for example, 44.65% of the European American haplotypes are represented by only 1 individual. Indeed, our discovery rate of all U.S. European American haplotypes is estimated at 23.45% based upon sampling 3.97% of the population, leaving a large number of unobserved haplotypes. Population coverage, however, is much higher at 99.4% given that 90% of European Americans carry one of the 4.5% most frequent haplotypes. Alleles were found to be less diverse suggesting the current registry represents most alleles in the population. Thus, for HSCT registries, haplotype discovery will remain high with continued recruitment to a very deep level of sampling, but population coverage will not. Finally, we compared the convergence of our power-law versus classical diversity estimators such as Capture recapture, Chao, ACE and Jackknife methods. When fit to the haplotype data, our estimator displayed favorable properties in terms of convergence (with respect to sampling depth and accuracy (with respect to diversity

  19. Evaluation of the iPLEX® ADME PGx Pro Panel and allele frequencies of pharmacogenetic markers in Danes

    DEFF Research Database (Denmark)

    Jensen, Line; Børsting, Claus; Dalhoff, Kim;

    2016-01-01

    OBJECTIVES: The iPlex® ADME PGx Pro Panel was developed to investigate 191 polymorphisms including single nucleotide polymorphisms (SNPs), insertion-deletions (INDELS), and copy number variations (CNV) relevant for absorption, distribution, metabolism, and excretion (ADME) of drugs. The purpose of...... Desorption/Ionization-Time of Flight Mass Spectrometry (MALDI-TOF-MS). RESULTS: The typing quality of 161 SNP assays was categorized as well performing or acceptable, whereas 22 SNP assays were categorized as either questionable or unacceptable. The frequencies of the genotypes observed in the Danish...... population were compared to those of the European reference population from the 1000 Genome Project. Three SNPs (rs737865, rs35167514, and rs34305973) showed statistically significantly differences between the frequencies of the 1000 Genomes Europeans and the Danes. The CNV assays could only be used as a...

  20. Distribution of allele frequencies at TTN g.231054C>T, RPL27A g.3109537C>T and AKIRIN2 c.*188G>A between Japanese Black and four other cattle breeds with differing historical selection for marbling

    OpenAIRE

    Watanabe, Naoto; Satoh, Youichi; Fujita, Tatsuo; Ohta, Takeshi; Kose, Hiroyuki; Muramatsu, Youji; Yamamoto, Takuji; Yamada, Takahisa

    2011-01-01

    BACKGROUND: Marbling defined by the amount and distribution of intramuscular fat, so-called Shimofuri, is an economically important trait of beef cattle in Japan. Our previous study detected 3 single nucleotide polymorphisms (SNPs), g.231054C > T, g.3109537C > T and c.*188G > A, respectively, in the 5' flanking region of the titin (TTN), the 5' flanking region of the ribosomal protein L27a (RPL27A) and the 3' untranslated region of the akirin 2 genes (AKIRIN2), which have been considered as p...

  1. Recommendations of the DNA Commission of the International Society for Forensic Genetics (ISFG) on quality control of autosomal Short Tandem Repeat allele frequency databasing (STRidER).

    Science.gov (United States)

    Bodner, Martin; Bastisch, Ingo; Butler, John M; Fimmers, Rolf; Gill, Peter; Gusmão, Leonor; Morling, Niels; Phillips, Christopher; Prinz, Mechthild; Schneider, Peter M; Parson, Walther

    2016-09-01

    The statistical evaluation of autosomal Short Tandem Repeat (STR) genotypes is based on allele frequencies. These are empirically determined from sets of randomly selected human samples, compiled into STR databases that have been established in the course of population genetic studies. There is currently no agreed procedure of performing quality control of STR allele frequency databases, and the reliability and accuracy of the data are largely based on the responsibility of the individual contributing research groups. It has been demonstrated with databases of haploid markers (EMPOP for mitochondrial mtDNA, and YHRD for Y-chromosomal loci) that centralized quality control and data curation is essential to minimize error. The concepts employed for quality control involve software-aided likelihood-of-genotype, phylogenetic, and population genetic checks that allow the researchers to compare novel data to established datasets and, thus, maintain the high quality required in forensic genetics. Here, we present STRidER (http://strider.online), a publicly available, centrally curated online allele frequency database and quality control platform for autosomal STRs. STRidER expands on the previously established ENFSI DNA WG STRbASE and applies standard concepts established for haploid and autosomal markers as well as novel tools to reduce error and increase the quality of autosomal STR data. The platform constitutes a significant improvement and innovation for the scientific community, offering autosomal STR data quality control and reliable STR genotype estimates. PMID:27352221

  2. Rapid genotyping assays for the 4-base pair deletion of canine MDR1/ABCB1 gene and low frequency of the mutant allele in Border Collie dogs.

    Science.gov (United States)

    Mizukami, Keijiro; Chang, Hye-Sook; Yabuki, Akira; Kawamichi, Takuji; Hossain, Mohammad A; Rahman, Mohammad M; Uddin, Mohammad M; Yamato, Osamu

    2012-01-01

    P-glycoprotein, encoded by the MDR1 or ABCB1 gene, is an integral component of the blood-brain barrier as an efflux pump for xenobiotics crucial in limiting drug uptake into the central nervous system. Dogs homozygous for a 4-base pair deletion of the canine MDR1 gene show altered expression or function of P-glycoprotein, resulting in neurotoxicosis after administration of the substrate drugs. In the present study, the usefulness of microchip electrophoresis for genotyping assays detecting this deletion mutation was evaluated. Mutagenically separated polymerase chain reaction (MS-PCR) and real-time PCR assays were newly developed and evaluated. Furthermore, a genotyping survey was carried out in a population of Border Collies dogs in Japan to determine the allele frequency in this breed. Microchip electrophoresis showed advantages in detection sensitivity and time saving over other modes of electrophoresis. The MS-PCR assay clearly discriminated all genotypes. Real-time PCR assay was most suitable for a large-scale survey due to its high throughput and rapidity. The genotyping survey demonstrated that the carrier and mutant allele frequencies were 0.49% and 0.25%, respectively, suggesting that the mutant allele frequency in Border Collies is markedly low compared to that in the susceptible dog breeds such as rough and smooth Collies. PMID:22362942

  3. Superconducting RF Cavity Frequency and Field Distribution Sensitivity Simulation

    CERN Document Server

    An, Sun

    2005-01-01

    Frequency and electromagnetic field distribution sensitivity of a superconducting RF (SRF) cavity due to cavity's small deformation are the fundamental phyical paramethers in cavity and tuner design. At low temperature, the frequency sensitivity can be obtained by measuring prototype cavity, but it is not easy to test the filed distribution sensitivity. This paper presents and describes a simulation method combining ANSYS and SUPERFISH to calculate the cavity frequency and field distribution variation due to cavity's small deformation caused by mechanical force, radiation force, thermal expansion etc.. As an example, the simulation results of the frequency and field flatness sensitivity on the SNS cavities were confirmed by their test results.

  4. P67L: a cystic fibrosis allele with mild effects found at high frequency in the Scottish population.

    OpenAIRE

    Gilfillan, A.; Warner, J P; Kirk, J M; Marshall, T.; Greening, A; Ho, L. P.; Hargreave, T; Stack, B; McIntyre, D.; Davidson, R.; Dean, J C; Middleton, W; Brock, D J

    1998-01-01

    Only three mutant cystic fibrosis (CF) alleles have to date been established as conferring a dominant mild effect on affected subjects who are compound heterozygotes. We now add a fourth, P67L, which occurs on about 1.4% of Scottish CF chromosomes. Among 13 patients (12 unrelated) with this allele, the average age at diagnosis was 22.5 +/- 11.3 years. None of the cases had consistently raised sweat chloride concentrations, the average value being 57 +/- 9 mmol/l; 77% of the patients were panc...

  5. Magnitude-frequency distribution of volcanic explosion earthquakes

    Science.gov (United States)

    Nishimura, Takeshi; Iguchi, Masato; Hendrasto, Mohammad; Aoyama, Hiroshi; Yamada, Taishi; Ripepe, Maurizio; Genco, Riccardo

    2016-07-01

    Magnitude-frequency distributions of volcanic explosion earthquakes that are associated with occurrences of vulcanian and strombolian eruptions, or gas burst activity, are examined at six active volcanoes. The magnitude-frequency distribution at Suwanosejima volcano, Japan, shows a power-law distribution, which implies self-similarity in the system, as is often observed in statistical characteristics of tectonic and volcanic earthquakes. On the other hand, the magnitude-frequency distributions at five other volcanoes, Sakurajima and Tokachi-dake in Japan, Semeru and Lokon in Indonesia, and Stromboli in Italy, are well explained by exponential distributions. The statistical features are considered to reflect source size, as characterized by a volcanic conduit or chamber. Earthquake generation processes associated with vulcanian, strombolian and gas burst events are different from those of eruptions ejecting large amounts of pyroclasts, since the magnitude-frequency distribution of the volcanic explosivity index is generally explained by the power law.

  6. High Susceptibility to Cry1Ac and Low Resistance Allele Frequency Reduce the Risk of Resistance of Helicoverpa armigers to Bt Soybean in Brazil.

    Science.gov (United States)

    Dourado, Patrick M; Bacalhau, Fabiana B; Amado, Douglas; Carvalho, Renato A; Martinelli, Samuel; Head, Graham P; Omoto, Celso

    2016-01-01

    The Old World bollworm, Helicoverpa armigera (Hübner), was recently introduced into Brazil, where it has caused extensive damage to cotton and soybean crops. MON 87701 × MON 89788 soybean, which expresses the Bt protein Cry1Ac, was recently deployed in Brazil, providing high levels of control against H. armigera. To assess the risk of resistance to the Cry1Ac protein expressed by MON 87701 × MON 89788 soybean in Brazil, we conducted studies to evaluate the baseline susceptibility of H. armigera to Cry1Ac, in planta efficacy including the assessment of the high-dose criterion, and the initial resistance allele frequency based on an F2 screen. The mean Cry1Ac lethal concentration (LC50) ranged from 0.11 to 1.82 μg·mL-1 of diet among all H. armigera field populations collected from crop seasons 2013/14 to 2014/15, which indicated about 16.5-fold variation. MON 87701 × MON 89788 soybean exhibited a high level of efficacy against H. armigera and most likely met the high dose criterion against this target species in leaf tissue dilution bioassays up to 50 times. A total of 212 F2 family lines of H. armigera were established from field collections sampled from seven locations across Brazil and were screened for the presence of MON 87701 × MON 89788 soybean resistance alleles. None of the 212 families survived on MON 87701 × MON 89788 soybean leaf tissue (estimated allele frequency = 0.0011). The responses of H. armigera to Cry1Ac protein, high susceptibility to MON 87701 × MON 89788 soybean, and low frequency of resistance alleles across the main soybean-producing regions support the assumptions of a high-dose/refuge strategy. However, maintenance of reasonable compliance with the refuge recommendation will be essential to delay the evolution of resistance in H. armigera to MON 87701 × MON 89788 soybean in Brazil. PMID:27532632

  7. High frequency and founder effect of the CYP3A4*20 loss-of-function allele in the Spanish population classifies CYP3A4 as a polymorphic enzyme.

    Science.gov (United States)

    Apellániz-Ruiz, M; Inglada-Pérez, L; Naranjo, M E G; Sánchez, L; Mancikova, V; Currás-Freixes, M; de Cubas, A A; Comino-Méndez, I; Triki, S; Rebai, A; Rasool, M; Moya, G; Grazina, M; Opocher, G; Cascón, A; Taboada-Echalar, P; Ingelman-Sundberg, M; Carracedo, A; Robledo, M; Llerena, A; Rodríguez-Antona, C

    2015-06-01

    Cytochrome P450 3A4 (CYP3A4) is a key drug-metabolizing enzyme. Loss-of-function variants have been reported as rare events, and the first demonstration of a CYP3A4 protein lacking functional activity is caused by CYP3A4*20 allele. Here we characterized the world distribution and origin of CYP3A4*20 mutation. CYP3A4*20 was determined in more than 4000 individuals representing different populations, and haplotype analysis was performed using CYP3A polymorphisms and microsatellite markers. CYP3A4*20 allele was present in 1.2% of the Spanish population (up to 3.8% in specific regions), and all CYP3A4*20 carriers had a common haplotype. This is compatible with a Spanish founder effect and classifies CYP3A4 as a polymorphic enzyme. This constitutes the first description of a CYP3A4 loss-of-function variant with high frequency in a population. CYP3A4*20 results together with the key role of CYP3A4 in drug metabolism support screening for rare CYP3A4 functional alleles among subjects with adverse drug events in certain populations. PMID:25348618

  8. ABO and Rh (D group distribution and gene frequency; the first multicentric study in India

    Directory of Open Access Journals (Sweden)

    Amit Agrawal

    2014-01-01

    Full Text Available Background and Objectives: The study was undertaken with the objective to provide data on the ABO and Rh(D blood group distribution and gene frequency across India. Materials and Methods: A total of 10,000 healthy blood donors donating in blood banks situated in five different geographical regions of the country (North, South, East and Center were included in the study. ABO and Rh (D grouping was performed on all these samples. Data on the frequency of ABO and Rh(D blood groups was reported in simple numbers and percentages. Results: The study showed that O was the most common blood group (37.12% in the country closely followed by B at 32.26%, followed by A at 22.88% while AB was the least prevalent group at 7.74%. 94.61% of the donor population was Rh positive and the rest were Rh negative. Regional variations were observed in the distribution. Using the maximum likelihood method, the frequencies of the I A , I B and I O alleles were calculated and tested according to the Hardy Weinberg law of Equilibrium. The calculated gene frequencies are 0.1653 for I A (p, 0.2254 for I B (q and 0.6093 for I O (r. In Indian Population, O (r records the highest value followed by B (q and A (p; O > B > A. Conclusion: The study provides information about the relative distribution of various alleles in the Indian population both on a pan-India basis as well as region-wise. This vital information may be helpful in planning for future health challenges, particularly planning with regards to blood transfusion services.

  9. Inosine triphosphatase allele frequency and association with ribavirin-induced anaemia in Brazilian patients receiving antiviral therapy for chronic hepatitis C

    Directory of Open Access Journals (Sweden)

    Nathália Delvaux

    2015-08-01

    Full Text Available Inosine triphosphatase (ITPA single nucleotide polymorphisms (SNPs are strongly associated with protection against ribavirin (RBV-induced anaemia in European, American and Asian patients; however, there is a paucity of data for Brazilian patients. The aim of this study was to evaluate the ITPA SNP (rs7270101/rs1127354 frequency in healthy and hepatitis C virus (HCV-infected patients from Brazil and the association with the development of severe anaemia during antiviral therapy. ITPA SNPs were determined in 200 HCV infected patients and 100 healthy individuals by sequencing. Biochemical parameters and haemoglobin (Hb levels were analysed in 97 patients who underwent antiviral therapy. A combination of AArs7270101+CCrs1127354 (100% ITPase activity was observed in 236/300 individuals. Anaemia was observed in 87.5% and 86.2% of treated patients with AA (rs7270101 and CC genotypes (rs1127354, respectively. Men with AA (rs7270101 showed a considerable reduction in Hb at week 12 compared to those with AC/CC (p = 0.1475. In women, there was no influence of genotype (p = 0.5295. For rs1127354, men with the CC genotype also showed a sudden reduction in Hb compared to those with AC. Allelic distribution of rs7270101 and rs1127354 shows high rates of the genotypes AA and CC, respectively, suggesting that the study population had a great propensity for developing RBV-induced anaemia. A progressive Hb reduction during treatment was observed; however, this reduction was greater in men at week 12 than in women.

  10. Allele frequencies and population data for 17 Y-STR loci (The AmpFlSTR® Y-filer™) in Casablanca resident population.

    Science.gov (United States)

    Laouina, Adil; El Houate, Brahim; Yahia, Hakima; Azeddoug, Houssine; Boulouiz, Redouane; Chbel, Faiza

    2011-01-01

    Allele frequencies and population data for 17 Y-STR loci included in the AmpFlSTR® Y-filer™ PCR amplification kit (Applied Biosystems, Foster City, USA), that permit the simultaneous amplification of all the markers included in the actually used European "extended haplotype", DYS19, DYS189I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS385I/II, DYS438, DYS439 and also DYS437, DYS448, DYS456, DYS458, DYS635 and Y GATA H4, were obtained from a sample of 166 healthy unrelated males resident in Casablanca (from Morocco). A total of 166 haplotypes were identified, of which 142 were unique. The overall haplotype diversity for the 17 Y-STR loci reached 0.9974, and a discrimination capacity was 0.855. We report some non-standard situations, including duplications and microvariant alleles. PMID:21126935

  11. Frequency distribution of DNA repair genes ERCC1 and ERCC2 polymorphisms in South Indian healthy population.

    Science.gov (United States)

    Rao, Katiboina Srinivasa; SureshKumar, Srinivasamurthy; Umamaheswaran, Gurusamy; Paul, Abialbon; Dubashi, Biswajit; Gunaseelan, Karunanithi; Dkhar, Steven Aibor

    2014-09-01

    DNA repair genes are crucial in maintaining the integrity of the whole genome. Single nucleotide polymorphisms (SNPs) in DNA repair genes have been attributed to the development of various cancers. SNPs of DNA repair genes (ERCC1 and ERCC2) have been implicated in the causation of various cancers as well as inter-individual variability in the therapeutic outcomes of platinum based therapy. Thus establishing the frequency of these functional SNPs in the healthy population is of significance. The present study was aimed to establish the allele and genotype frequencies of ERCC1 (19007C>T, rs11615; 8092C>A, rs3212986) and ERCC2 (Asp312Asn, rs1799793) genes in South Indian healthy population and to compare the data from HapMap populations. The study population consisted of 128 healthy South Indian unrelated individuals of either sex aged between 18 and 60 years. Standard phenol-chloroform method was used to extract DNA from peripheral leukocytes. The genotype of DNA repair gene polymorphisms was determined by quantitative real-time polymerase chain reaction using TaqMan genotyping assay. The observed frequency of the studied polymorphisms followed Hardy-Weinberg equilibrium (p>0.05). The frequencies of the minor alleles of the SNPs rs11615 (T), rs3212986 (A) and rs1799793 (A) were 43.8%, 29.3% and 35.6%, respectively. Gender-based analysis showed no significant difference in the frequency pattern. The observed allele and genotype frequencies showed significant ethnic difference between South Indians and other HapMap populations. This is the first study to provide the normative frequency data of allele and genotype distribution of three SNPs of ERCC1 and ERCC2 in South Indian healthy population. It might be useful in future genotype-phenotype association studies, especially for predicting the efficacy and adverse events of platinum based drugs. PMID:25155628

  12. A new allele conferring resistance to Lysinibacillus sphaericus is detected in low frequency in Culex quinquefasciatus field populations

    OpenAIRE

    Menezes, Heverly Suzany Gouveia; Chalegre, Karlos Diogo de Melo; Romão, Tatiany Patrícia; de Oliveira, Cláudia Maria Fontes; de-Melo-Neto, Osvaldo Pompílio; Silva-Filha, Maria Helena Neves Lobo

    2016-01-01

    Background The Cqm1 α-glucosidase of Culex quinquefasciatus larvae acts as the midgut receptor for the binary toxin of the biolarvicide Lysinibacillus sphaericus. Mutations within the cqm1 gene can code for aberrant polypeptides that can no longer be properly expressed or bind to the toxin, leading to insect resistance. The cqm1 REC and cqm1 REC-2 alleles were identified in a laboratory selected colony and both displayed mutations that lead to equivalent phenotypes of refractoriness to L. sph...

  13. Frequency of Cry1F Non-Recessive Resistance Alleles in North Carolina Field Populations of Spodoptera frugiperda (Lepidoptera: Noctuidae.

    Directory of Open Access Journals (Sweden)

    Guoping Li

    Full Text Available Fall armyworm, Spodoptera frugiperda (J.E. Smith (Lepidoptera: Noctuidae, is a target species of transgenic corn (Zea mays L. that expresses single and pyramided Bacillus thuringiensis (Bt toxin. In 2014, S. frugiperda were collected from a light trap in North Carolina, and a total of 212 F1/F2 isofemale lines of S. frugiperda were screened for resistance to Bt and non-Bt corn. All of the 212 isolines were susceptible to corn tissue expressing Cry1A.105 + Cry2Ab, Cry1F + Cry1A.105 + Cry2Ab, and Cry1F + Cry1Ab + Vip3Aa20. Growth rate bioassays were performed to isolate non-recessive Bt resistance alleles. Seven individuals out of the 212 isofemale lines carried major non-recessive alleles conferring resistance to Cry1F. A pooled colony was created from the seven individuals. This colony was 151.21 times more resistant to Cry1F than a known-susceptible population and was also resistant to Cry1A.105, but was not resistant to Cry2Ab and Vip3Aa20. The results demonstrate that field populations of S. frugiperda collected from North Carolina are generally susceptible to Cry1F, but that some individuals carry resistant alleles. The data generated in this study can be used as baseline data for resistance monitoring.

  14. Low Frequencies of CCR5-△32 and CCR5-m303, but High Frequencies of CCR2-641 and SDF1-3'A Alleles in Indigenous Ethnic Groups in Mainland China

    Institute of Scientific and Technical Information of China (English)

    WANG Fusheng (王福生); WANG zhe(王哲); Feng Tiejian (冯铁建); HOU Jing(侯静); LI Guanghani(李光汉); CAO Yunzhen(曹韵贞); JIN Lei(金磊); HONG Weiguo(洪卫国); LIU Mingxu (刘明旭); ZHOU YueSu (周越塑); ZHANG Bing (张冰); SHI Ming (施明); WANG JiMing(王吉明); LEI Zhouyun (雷周云)

    2002-01-01

    Objective:The aim in this study was to identify the allelicfrequencies of the chemokine (SDF1-3'A) and chemokinereceptor (CCR5A32, CCR5m303 and CCR2-64I) genesresistant to HIV-1 infection and/or disease progression inindigenous Chinese populations.Methods: By using QIAamp DNA Blood Mini Kit, thegenomic DNA samples were purified from whole peripheralblood of healthy individuals (n=2067) from Han, Uygur,Mongolian and Tibetan ethnic groups, as well as Han patientsincluding HIV-1 carriers (n=330), patients with other sexuallytransmitted diseases (STDs, n=259) and intravenous drugusers (IVDUs, n=125). The allelic polymorphisms wereidentified by means of PCR or PCR-RFLP analyses. Thesequences of randomly selected amplified PCR products werefurther confirmed by direct DNA sequencing.Results: The mutant frequencies were identified to be0%~3.48% for CCR5A32, 0% for CCR5m303,19.15%~28.79% for CCR2-64 and 19.10%~28.73% for SDF1-3'A alleles, respectively, in Chinese healthy individuals fromfour ethnic groups. Our findings indicated the allelicfrequencies vary among the different ethnic groups.Furthermore, the HIV-1 carriers, STD cases and IVDUs (all ofHan ethnicity) were found to have the allelic frequencies of0%~0.19% (CCR5A32), 0% (CCR5m303), 19.31%~20.45%(CCR2-64) and 25.61%~26.83% (SDF1-3'A) with minorvariations in their frequencies between the patients andhealthy Han groups. There was no CCR5-m303 mutationfound in any subject in this study.Conclusion: The examined subjects of four Chinese ethnicorigins showed lower frequencies of CCR5A32 andCCR5m303 alleles, but higher frequencies of mutant CCR2-64I and SDF1-3'A alleles compared to those identified innorthern-European and American Caucasians. Thesignificance of the different frequencies and polymorphisms of the above alleles in Chinese populations needs to be furtherexamined in HIV-1/AIDS diseases.

  15. The frequency characteristics of medium voltage distribution system impedances

    Directory of Open Access Journals (Sweden)

    Liviu Emil Petrean

    2009-10-01

    Full Text Available In this paper we present the frequency characteristics of impedances involved in the electrical equivalent circuit of a large medium voltage distribution system. These impedances influence harmonics distortions propagation occurring due to the nonsinusoidal loads. We analyse the case of a 10 kV large urban distribution system which supplies industrial, commercial and residential customers. The influence of various parameters of the distribution network on the frequency characteristics are presented, in order to assess the interaction of harmonic distortion and distribution system network.

  16. Topographical Distributions of Allelic Loss in Individual Non-Small-Cell Lung Cancers

    OpenAIRE

    Yatabe, Yasushi; Konishi, Hiroyuki; Mitsudomi, Tetsuya; Nakamura, Shigeo; Takahashi, Takashi

    2000-01-01

    Non-small-cell carcinomas of the lung, especially adenocarcinomas, are characterized by a high degree of morphological heterogeneity. As carcinogenesis has been suggested to be a multistep process involving sequential accumulation of multiple genetic alterations, morphological heterogeneity may represent a cross-sectional view of genetic alterations within individual tumors. We therefore examined the topographical distribution of loss of heterozygosity (LOH) events within 10 non-small-cell lu...

  17. Distribution of HLA-C alleles in Shandong Han population of China%HLA-C等位基因在中国山东汉族人群中的分布

    Institute of Scientific and Technical Information of China (English)

    朱传福; 张毅; 宋永红; 刘艳; 聂向民; 乔文本; 庄云龙

    2013-01-01

    Objective To analyze the distribution of HLA-C alleles in Shandong Han population of China.Methods One hundred and fifty unrelated potential donors,self-claimed as Han population from Shandong province,were selected from China Marrow Donor Program.Genotypes of HLA-C with the donors were identified by PCR-SBT.The frequencies of allele were calculated with direct counting method and the differences with other populations were analyzed with SPSS16.0 x2 software.Results A total of 25 alleles of HLA-C were observed and the most common alleles were C * 06:02 and C * 07:02 with the frequency of more than 10.00%.Moreover,there were 16 kinds of alleles with the frequency of more than 1.00% accounting for 95.33% of the total alleles.The distribution of HLA-C alleles in Shandong Han population was similar to that in northern Han population,but had some differences with that in southern Han population.In addition,the distribution of HLA-C alleles in Shandong Han population significantly differed from that of German/African American.Conclusion This study on the distribution of HLA-C alleles in Shandong Han population provides valuable references for further studies on the genetics of HLA,cross-match for organ transplantation and other genetic-associated diseases in this population.%目的 分析人类白细胞抗原(human leukocyte antigen,HLA)C等位基因在山东汉人群中的多态性分布.方法 对150名山东汉族无血缘关系的中华骨髓库志愿捐献者,采用聚合酶链反应-测序分型(polymerase chain reaction-sequence based typing,PCR-SBT)方法进行HLA-C基因分型,计数法计算各等位基因频率并采用x2比较与其他人群的差异.结果 观察到HLA-C等位基因25个,最常见等位基因为C*06∶02和C*07∶02,基因频率均超过10.00%,有16个等位基因频率>1.00%,累计基因频率为95.33%.山东汉族人群HLA-C等位基因分布与中国北方汉族最为接近,与南方汉族有一定差异,与德国人和非

  18. Negative Influence of Frequency Converters on Power Distribution Network

    Directory of Open Access Journals (Sweden)

    Martin Pittermann

    2006-01-01

    Full Text Available This paper deals with low-frequency analysis of the phase current taken by frequency converters from a power distribution network. Problems concerning with characteristic harmonic currents are relatively well-known. Therefore the main emphasis of this work is focused on the investigation of factors which influence arising of non-characteristic and interharmonic current components

  19. Distribution of HLA-A, -B, and -C Alleles and HLA/KIR Combinations in Han Population in China

    Directory of Open Access Journals (Sweden)

    Yunsong Shen

    2014-01-01

    Full Text Available We investigated polymorphisms of the human leukocyte antigen (HLA class I (A, B, and C loci of a Han population (n, 239 from the Yunnan province, Southwest China, using high-resolution polymerase chain reaction-Luminex (PCR-Luminex typing. We combined the HLA data from this study with the KIR genotypes from a previous study of this Han population to analyze the combination of KIR/HLA ligands. A total of 27 HLA-A, 54 HLA-B, and 31 HLA-C alleles were found in this population. The frequencies of A*11:01, A*24:02, B*40:01, B*46:01, C*01:02, C*03:04, and C*07:02 were all > 10%. The following haplotypes were common, with frequencies > 5%: 1 A-B (A*02:07-B*46:01, 2 A-C (A*02:07-C*01:02, and A*11:01-C*07:02, 4 C-B (B*13:01-C*03:04, B*40:01-C*07:02, B*46:01-C*01:02 and B*58:01-C*03:02, and 1 A-C-B (A*02:07-C*01:02-B*46:01. Analysis of KIR3D and their ligands HLA-A3/A11 and HLA-Bw4 showed that the frequencies of 3DL2+-A3/A11+ and 3DL2+-A3/A11− were 0.527 and 0.473, and the frequencies of 3DL1+-Bw4+, 3DL1+-Bw4−, 3DL1−-Bw4+, and 3DL1−-Bw4− were 0.552, 0.397, 0.038, and 0.013, respectively. The results of KIR/HLA-C combination analysis showed that all individuals had at least one inhibitory or activating KIR/HLA-C pair, and one KIR/HLA-C pair was the most frequent (157/239, followed by two pairs (46/239, three pairs (33/239, and no pairs (3/239. Comparison of KIR gene and HLA gene and their pair frequency between Yunnan Han and the isolated Han (FYDH who also lived in Yunnan province showed no significant difference (P>0.05 in KIR frequencies, but significant differences (P0.05 between the two populations for KIR/HLA pairs.

  20. HLA-Cw Allele Frequency in Definite Meniere’s Disease Compared to Probable Meniere’s Disease and Healthy Controls in an Iranian Sample

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    Sasan Dabiri

    2016-05-01

    Full Text Available Introduction Several lines of evidence support the contribution of autoimmune mechanisms in the pathogenesis of Meniere’s disease. The aim of this study was determining the association between HLA-Cw Alleles in patients with definite Meniere’s disease and patients with probable Meniere’s disease and a control group.  Materials and Methods: HLA-Cw genotyping was performed in 23 patients with definite Meniere’s disease, 24 with probable Meniere’s disease, and 91 healthy normal subjects, using sequence specific primers polymerase chain reaction technique. The statistical analysis was performed using stata 8 software.  Results: There was a significant association between HLA-Cw*04 and HLA-Cw*16 in both definite and probable Meniere’s disease compared to normal healthy controls. We observed a significant difference in HLA-Cw*12 frequencies between patients with definite Meniere’s disease compared to patients with probable Meniere’s disease (P=0.04. The frequency of HLA-Cw*18 is significantly higher in healthy controls (P=0.002.  Conclusion: Our findings support the rule of HLA-Cw Alleles in both definite and probable Meniere’s disease. In addition, differences in HLA-Cw*12 frequency in definite and probable Meniere’s disease in our study’s population might indicate distinct immune and inflammatory mechanisms involved in each condition.

  1. k-Casein, b-lactoglobulin and growth hormone allele frequencies and genetic distances in Nelore, Gyr, Guzerá, Caracu, Charolais, Canchim and Santa Gertrudis cattle

    Directory of Open Access Journals (Sweden)

    Paola Augusta Kemenes

    1999-12-01

    Full Text Available The genotypes for k-casein (k-CN, b-lactoglobulin (b-LG and growth hormone (GH were determined by polymerase chain reaction (PCR and restriction enzyme digestion in seven breeds of cattle (Nelore, Gyr, Guzerá, Caracu, Charolais, Canchim and Santa Gertrudis. k-Casein had two alleles with the A allele occurring at a higher frequency in Bos indicus breeds (0.93, 0.92 and 0.91% for Gyr, Guzerá and Nelore, respectively. The b-lactoglobulin locus had two alleles in all of the breeds. European breeds had a higher frequency of the b-LG A allele than Zebu breeds. The GH locus had two alleles (L and V in Bos taurus and was monomorphic (L allele only in all of the Bos indicus breeds evaluated. The highest frequency for the V allele was observed in Charolais cattle. The markers used revealed a considerable similarity among breeds, with two main groups being discernible. One group consisted of Zebu and Santa Gertrudis breeds and the other consisted of European and Canchim breeds.Os genótipos de k-caseína (k-CN, b-lactoglobulina (b-LG e hormônio de crescimento foram determinados por reação em cadeia de polimerase (PCR e digestão com enzima de restrição em sete raças de bovinos (Nelore, Gir, Guzerá, Caracu, Charolesa, Canchim and Santa Gertrudis. A k-caseína apresentou dois alelos e as freqüências mais elevadas para o alelo A foram observadas em Bos indicus (0,93, 0,92 e 0,91% para as raças Gir, Guzerá e Nelore, respectivamente. A b-lactoglobulina apresentou dois alelos em todas as raças estudadas, sendo a freqüência do alelo A mais elevada nas raças européias. O loco de hormônio de crescimento apresentou dois alelos em Bos taurus e foi monomórfico (alelo L em todas as raças zebuínas. A maior freqüência para o alelo V foi observado na raça Charolesa. Os marcadores investigados revelaram alta similaridade entre as raças, com a formação de dois grupos principais: um composto de raças zebuínas e a raça Santa Gertrudis e outro

  2. Distribution of the CCR5delta32 allele (gene variant CCR5) in Rondônia, Western Amazonian region, Brazil.

    Science.gov (United States)

    de Farias, Josileide Duarte; Santos, Marlene Guimarães; de França, Andonai Krauze; Delani, Daniel; Tada, Mauro Shugiro; Casseb, Almeida Andrade; Simões, Aguinaldo Luiz; Engracia, Vera

    2012-01-01

    Since around 1723, on the occasion of its initial colonization by Europeans, Rondonia has received successive waves of immigrants. This has been further swelled by individuals from northeastern Brazil, who began entering at the beginning of the twentieth century. The ethnic composition varies across the state according to the various sites of settlement of each wave of immigrants. We analyzed the frequency of the CCR5Δ32 allele of the CCR5 chemokine receptor, which is considered a Caucasian marker, in five sample sets from the population. Four were collected in Porto Velho, the state capital and the site of several waves of migration. Of these, two, from the Hospital de Base were comprised of HB Mothers and HB Newborns presenting allele frequencies of 3.5% and 3.1%, respectively, a third from the peri-urban neighborhoods of Candelária/Bate-Estaca (1.8%), whereas a fourth, from the Research Center on Tropical Medicine/CEPEM (0.6%), was composed of malaria patients under treament. The fifth sample (3.4%) came from the inland Quilombola village of Pedras Negras. Two homozygous individuals (CCR5Δ32/CCR5Δ32) were detected among the HB Mother samples. The frequency of this allele was heterogeneous and higher where the European inflow was more pronounced. The presence of the allele in Pedras Negras revealed European miscegenation in a community largely comprising Quilombolas. PMID:22481870

  3. Distribution of the CCR5delta32 allele (gene variant CCR5 in Rondônia, Western Amazonian region, Brazil

    Directory of Open Access Journals (Sweden)

    Josileide Duarte de Farias

    2012-01-01

    Full Text Available Since around 1723, on the occasion of its initial colonization by Europeans, Rondonia has received successive waves of immigrants. This has been further swelled by individuals from northeastern Brazil, who began entering at the beginning of the twentieth century. The ethnic composition varies across the state according to the various sites of settlement of each wave of immigrants. We analyzed the frequency of the CCR5L32 allele of the CCR5 chemokine receptor, which is considered a Caucasian marker, in five sample sets from the population. Four were collected in Porto Velho, the state capital and the site of several waves of migration. Of these, two, from the Hospital de Base were comprised of HB Mothers and HB Newborns presenting allele frequencies of 3.5% and 3.1%, respectively, a third from the peri-urban neighborhoods of Candelária/Bate-Estaca (1.8%, whereas a fourth, from the Research Center on Tropical Medicine/CEPEM (0.6%, was composed of malaria patients under treament. The fifth sample (3.4% came from the inland Quilombola village of Pedras Negras. Two homozygous individuals (CCR5Δ32/CCR5Δ32 were detected among the HB Mother samples. The frequency of this allele was heterogeneous and higher where the European inflow was more pronounced. The presence of the allele in Pedras Negras revealed European miscegenation in a community largely comprising Quilombolas.

  4. Estimating length frequency distributions of large reef fish underwater

    Science.gov (United States)

    Bell, J. D.; Craik, G. J. S.; Pollard, D. A.; Russell, B. C.

    1985-04-01

    We describe the training of divers to recognise and remove bias in estimating lengths of fish underwater. Divers were asked to allocate objects, from a population ( N=50) with a known length frequency distribution, to ten 100 mm size classes. Observed and expected distributions were then compared and the divers informed of their errors. Training continued until divers consistently produced length frequency distributions that were not significantly different from the expected distribution (α=0.8) by the one sample Kolmogorov-Smirnov (K-S) test. Divers were trained in five trials, but after six months they had lost all their ability and had to be retrained. Three trained divers observing the “same” population of the large reef fish Plectropomus leopardus (Serranidae) produced length frequency distributions that were not significantly different ( P>0.1) on 67% of occasions. Data collected by divers can be used to detect small but real differences in length frequency distributions of populations when analysed using the two sample K-S test. We suggest a means of determining within site variation in length frequency relative to between site variation.

  5. Highly flexible distributions to fit multiple frequency financial returns

    Science.gov (United States)

    BenSaïda, Ahmed; Slim, Skander

    2016-01-01

    Financial data are usually studied via low flexible distributions, independently of the frequency of the data, due to their simplicity and analytical tractability. In this paper we analyze two highly flexible five-parameter distributions into fitting financial returns, these are the skewed generalized t (SGT) and the generalized hyperbolic (GH). Applications carried on two exchange rates (Euro-Dollar and Dollar-Yen), and two indexes (S&P 500 and Nikkei 225) over four frequencies: weekly, daily, 30-min and 5-min, confirm the superiority of the SGT and GH in approximating the distribution of a given data at a remarkable precision. Moreover, as we move from higher to lower frequency, the distribution's overall shape does indeed change radically, and the estimated parameters refute the tendency to normality, which calls into question the aggregational Gaussianity's stylized fact.

  6. Allele Frequency of D12S1632, D12S329, D12S96, D16S3096 and D16S2624 in four Ethnic Groups and Its Relationship With Metabolic Syndrome in Tehran Lipid and Glucose Study

    Directory of Open Access Journals (Sweden)

    Daneshpour

    2014-10-01

    Full Text Available Background Variation in drug resistance and susceptibility to various diseases may be related to difference in allele frequencies of the variants at the population level. Objectives The present study aimed to investigate the allele frequencies of five short tandem repeats (STR loci in two different chromosomes of candidates from Tehran Lipid and Glucose Study. Materials and Methods For this study, a representative sample of 563 individuals (130 affected by metabolic syndrome from Tehran, including four different ethnic groups of Iran, was selected. Five STRs including D12S1632, D12S329, D12S96, D16S3096 and D16S2624 were analyzed using the fragment analysis method. Allele frequency, polymorphism information content (PIC values, observed and expected heterozygosity, discrimination power, matching probability, power of discrimination, power of exclusion and paternity index were calculated for the whole sample. Results There was no significant deviation in allelic frequencies from Hardy-Weinberg equilibrium for all the studied markers except for D12S1632 and D12S329. The long alleles in D12S329 were significantly more frequent in patients with metabolic syndrome (P < 0.05. Conclusions This study revealed allele frequency of some STRs on chromosome 12 and 16 for the first time in Iran, and indicated differences between subjects with metabolic syndrome and subjects in the control group.

  7. Temporal changes in allele frequencies in a small marble trout Salmo marmoratus population threatened by extreme flood events.

    Science.gov (United States)

    Pujolar, J M; Vincenzi, S; Zane, L; Crivelli, A J

    2016-03-01

    The effect of extreme floods on the genetic composition of marble trout Salmo marmoratus living in Lipovscek, a tributary of the Soca River in Slovenia, which has been affected by multiple destructive flood events for centuries was investigated. By monitoring genetic variability during the period 2004-2011, apparent signatures of genetic erosion including a decline in observed and expected heterozygosities and allelic richness were observed. Contemporary effective population size was estimated between 11 and 55 individuals, which is congruent with census data. The data suggest asymmetric gene flow between the two sections of the river. The existence of substantial downstream migration (15-19%) was confirmed by paternity analysis. A small (1-3%) upstream migration was also suggested, which was confirmed by tagging data. Overall, low genetic diversity has not prevented the survival of the Lipovscek population, which might be a common feature of salmonid freshwater populations. PMID:26832308

  8. The Adaptive Change of HLA-DRB1 Allele Frequencies Caused by Natural Selection in a Mongolian Population That Migrated to the South of China.

    Directory of Open Access Journals (Sweden)

    Hao Sun

    Full Text Available Pathogen-driven balancing selection determines the richness of human leukocyte antigen (HLA alleles. Changes in the pathogen spectrum may cause corresponding changes in HLA loci. Approximately 700 years ago, a Mongolian population moved from the north of China to the Yunnan region in the south of China. The pathogen spectrum in the south of China differs from that in the north. In this study, changes in the HLA genes in the Yunnan Mongolian population, as well as the underlying mechanism, were investigated. A sequence-based typing method (SBT was used to genotype HLA-DRB1 in 470 individuals from two Mongolian populations and another five ethnic groups. Meanwhile, 10 autosomal short tandem repeats (STRs were genotyped to assess the influence of genetic background on HLA-DRB1 frequencies. The frequencies of certain alleles changed significantly in the Mongolian population that migrated to Yunnan. For example, DRB1*12:02:01 increased from 6.1% to 35.4%. STR analysis excluded the possibility of a recent bottleneck and indicated that 50% of the genetic consistency between northern and southern Mongolians; Tajima's D value for HLA-DRB1 exon2 and dN/dS analysis showed that the HLA-DRB1 genes in both Mongolian populations were under balancing selection. However, the sites under natural selection changed. We proposed that the dramatically change of HLA frequencies in southern Mongolian was caused by a combination of inter-population gene flow and natural selection. Certain diseases specific to the south of China, such as malaria, may be the driving force behind the enhanced DRB1*12:02:01 frequency.

  9. Frecuencia alélica del gen de la k-caseína bovina en un rebaño Frisón Negro Chileno Allelic frequency of the bovine k-caseingen in a Frisón Negro Chileno dairy herd

    Directory of Open Access Journals (Sweden)

    R. FELMER

    1998-01-01

    Full Text Available Caseins are a family of milk proteins that exist in several molecular forms and are the main proteins present in the bovine milk. Genetic variants of these proteins have been associated with the quality and quantity of cheese derived from milk. Genotypes of 278 Frisón Negro Chileno cows were determined for k-casein by restriction fragment length polymorphism analysis of amplified DNA. A 350 bp fragment of the genomic bovine k-casein gene was amplified by PCR. Two HINF I sites were found in the amplified fragment of allele A, one at position 134 and one at position 266; only the latter site is present in allele B. Thus, digests of alleles A yielded 84 bp and 132/134 bp bands and digests of alleles B resulted in 84 bp and 266 bp bands. These bands, and thus genotypes AA, AB and BB, were recognised by agarose gel electrophoresis and ethidium-bromide staining. This technique was used to determine the k-casein allelic frequency in a Frisón Negro dairy herd. The distribution of genotypes was slightly different, and the gene frequencies similar to those reported in the literature. This molecular genetic technique based on molecular markers allows direct genotyping for milk k-casein with certainty and accuracy in bulls and females to be used in programs of dairy cattle improvement. Therefore, an early and precise identification of milk protein genotypes should have a direct impact on dairy cattle breeding strategies

  10. Incoherent Optical Frequency Domain Reflectometry for Distributed Thermal Sensing

    OpenAIRE

    Karamehmedovic, Emir; Jeppesen, Palle; Peucheret, Christophe; Bjarklev, Anders Overgaard

    2006-01-01

    This thesis reports the main results from an investigation of a fibre-optic distributed temperature sensor based on spontaneous Raman scattering. The technique used for spatial resolving is the incoherent optical frequency domain reflectometry, where a pump laser is sine modulated with a stepwise increasing frequency, after which the inverse Fourier transform is applied to the signal from the backscattered light. This technique is compared with the more conventional optical time domain reflec...

  11. Allelic Spectra of Risk SNPs Are Different for Environment/Lifestyle Dependent versus Independent Diseases.

    Directory of Open Access Journals (Sweden)

    Ivan P Gorlov

    2015-07-01

    Full Text Available Genome-wide association studies (GWAS have generated sufficient data to assess the role of selection in shaping allelic diversity of disease-associated SNPs. Negative selection against disease risk variants is expected to reduce their frequencies making them overrepresented in the group of minor (<50% alleles. Indeed, we found that the overall proportion of risk alleles was higher among alleles with frequency <50% (minor alleles compared to that in the group of major alleles. We hypothesized that negative selection may have different effects on environment (or lifestyle-dependent versus environment (or lifestyle-independent diseases. We used an environment/lifestyle index (ELI to assess influence of environmental/lifestyle factors on disease etiology. ELI was defined as the number of publications mentioning "environment" or "lifestyle" AND disease per 1,000 disease-mentioning publications. We found that the frequency distributions of the risk alleles for the diseases with strong environmental/lifestyle components follow the distribution expected under a selectively neutral model, while frequency distributions of the risk alleles for the diseases with weak environmental/lifestyle influences is shifted to the lower values indicating effects of negative selection. We hypothesized that previously selectively neutral variants become risk alleles when environment changes. The hypothesis of ancestrally neutral, currently disadvantageous risk-associated alleles predicts that the distribution of risk alleles for the environment/lifestyle dependent diseases will follow a neutral model since natural selection has not had enough time to influence allele frequencies. The results of our analysis suggest that prediction of SNP functionality based on the level of evolutionary conservation may not be useful for SNPs associated with environment/lifestyle dependent diseases.

  12. Photogrammetry and altimetry: Part C: frequency distributions of lunar slopes

    Science.gov (United States)

    Wu, Sherman S.C.; Moore, H.J.

    1972-01-01

    The metric and panoramic cameras aboard the Apollo 16 spacecraft provided photographs on which photogrammetric techniques may be used to obtain precise measurements of horizontal distances and elevations. These measurements of horizontal distances and elevations. These measurements may in turn be used to obtain slope-frequency distributions of lunar surfaces at various slope lengths and for various types of terrain and geologic map units (ref. 30-4). Bistatic radar and photoclinometric methods have also been used to obtain slope-frequency distributions of lunar surfaces. The problem arises as to how well these varied methods correlate with one another (ref. 30-5).

  13. Novel rapid genotyping assays for neuronal ceroid lipofuscinosis in Border Collie dogs and high frequency of the mutant allele in Japan.

    Science.gov (United States)

    Mizukami, Keijiro; Chang, Hye-Sook; Yabuki, Akira; Kawamichi, Takuji; Kawahara, Natsuko; Hayashi, Daisuke; Hossain, Mohammad A; Rahman, Mohammad M; Uddin, Mohammad M; Yamato, Osamu

    2011-11-01

    Neuronal ceroid lipofuscinosis (NCL) constitutes a group of recessively inherited lysosomal storage diseases that primarily affect neuronal cells. Such diseases share certain clinical and pathologic features in human beings and animals. Neuronal ceroid lipofuscinosis in Border Collie dogs was first detected in Australia in the 1980s, and the pathogenic mutation was shown to be a nonsense mutation (c.619C>T) in exon 4 in canine CLN5 gene. In the present study, novel rapid genotyping assays including polymerase chain reaction (PCR)-restriction fragment length polymorphism, PCR primer-induced restriction analysis, mutagenically separated PCR, and real-time PCR with TaqMan minor groove binder probes, were developed. The utility of microchip electrophoresis was also evaluated. Furthermore, a genotyping survey was carried out in a population of Border Collies in Japan using these assays to determine the current allele frequency in Japan, providing information to control and prevent this disease in the next stage. All assays developed in the current study are available to discriminate these genotypes, and microchip electrophoresis showed a timesaving advantage over agarose gel electrophoresis. Of all assays, real-time PCR was the most suitable for large-scale examination because of its high throughput. The genotyping survey demonstrated that the carrier frequency was 8.1%. This finding suggested that the mutant allele frequency of NCL in Border Collies is high enough in Japan that measures to control and prevent the disease would be warranted. The genotyping assays developed in the present study could contribute to the prevention of NCL in Border Collies. PMID:22362793

  14. High frequency of loss of allelic integrity at Wilms′ tumor suppressor gene-1 locus in advanced breast tumors associated with aggressiveness of the tumor

    Directory of Open Access Journals (Sweden)

    S Gupta

    2009-01-01

    Full Text Available Background: The product of Wilms′ tumor suppressor gene (WT1, a nuclear transcription factor, regulates the expression of the insulin-like growth factor (IGF and transforming growth factor (TGF systems, both of which are implicated in breast tumorigenesis and are known to facilitate angiogenesis. In the present study, WT1 allelic integrity was examined by Loss of Heterozygosity (LOH studies in infiltrating breast carcinoma (n=60, ductal carcinoma in situ (DCIS (n=10 and benign breast disease (n=5 patients, to determine its possible association with tumor progression. Methods: LOH at the WT1 locus (11p13 as determined by PCR-RFLP for Hinf1 restriction site and was subsequently examined for its association with intratumoral expression of various growth factors i.e. TGF-β1, IGF-II, IGF-1R and angiogenesis (VEGF and Intratumoral micro-vessel density in breast carcinoma. Results: Six of 22 (27.2% genetically heterozygous of infiltrating breast carcinoma and 1 of 4 DCIS cases showed loss of one allele at WT1 locus. Histologically, the tumors with LOH at WT1 were Intraductal carcinoma (IDC and were of grade II and III. There was no correlation in the appearance of LOH at WT1 locus with age, tumor stage, menopausal status, chemotherapy status and lymph node metastasis. The expression of factor IGF-II and its receptor, IGF-1R was significantly higher in carcinoma having LOH at WT1 locus. A positive correlation was observed between the TGF-β1, VEGF expression and IMD scores in infiltrating carcinoma. Conclusions: The current study indicates that the high frequency of loss of allelic integrity at Wilms′ tumor suppressor gene-1 locus in high-graded breast tumors is associated with aggressiveness of the tumor.

  15. The frequency-independent control method for distributed generation systems

    OpenAIRE

    Naderi, Siamak; Pouresmaeil, Edris; Wenzhong Gao, David

    2012-01-01

    In this paper a novel frequency-independent control method suitable for distributed generation (DG) is presented. This strategy is derived based on the abc/αβ transformation and abc/dq transformation of the ac system variables. The active and reactive currents injected by the DG are controlled in the synchronously rotating orthogonal dq reference frame. The transformed variables are used in control of the voltage source inverter that connects DG to distribution network. Due to importance of d...

  16. Randomness versus specifics for word-frequency distributions

    Science.gov (United States)

    Yan, Xiaoyong; Minnhagen, Petter

    2016-02-01

    The text-length-dependence of real word-frequency distributions can be connected to the general properties of a random book. It is pointed out that this finding has strong implications, when deciding between two conceptually different views on word-frequency distributions, i.e. the specific 'Zipf's-view' and the non-specific 'Randomness-view', as is discussed. It is also noticed that the text-length transformation of a random book does have an exact scaling property precisely for the power-law index γ = 1, as opposed to the Zipf's exponent γ = 2 and the implication of this exact scaling property is discussed. However a real text has γ > 1 and as a consequence γ increases when shortening a real text. The connections to the predictions from the RGF (Random Group Formation) and to the infinite length-limit of a meta-book are also discussed. The difference between 'curve-fitting' and 'predicting' word-frequency distributions is stressed. It is pointed out that the question of randomness versus specifics for the distribution of outcomes in case of sufficiently complex systems has a much wider relevance than just the word-frequency example analyzed in the present work.

  17. Incoherent Optical Frequency Domain Reflectometry for Distributed Thermal Sensing

    DEFF Research Database (Denmark)

    Karamehmedovic, Emir

    2006-01-01

    This thesis reports the main results from an investigation of a fibre-optic distributed temperature sensor based on spontaneous Raman scattering. The technique used for spatial resolving is the incoherent optical frequency domain reflectometry, where a pump laser is sine modulated with a stepwise...

  18. Similarity of Symbol Frequency Distributions with Heavy Tails

    Science.gov (United States)

    Gerlach, Martin; Font-Clos, Francesc; Altmann, Eduardo G.

    2016-04-01

    Quantifying the similarity between symbolic sequences is a traditional problem in information theory which requires comparing the frequencies of symbols in different sequences. In numerous modern applications, ranging from DNA over music to texts, the distribution of symbol frequencies is characterized by heavy-tailed distributions (e.g., Zipf's law). The large number of low-frequency symbols in these distributions poses major difficulties to the estimation of the similarity between sequences; e.g., they hinder an accurate finite-size estimation of entropies. Here, we show analytically how the systematic (bias) and statistical (fluctuations) errors in these estimations depend on the sample size N and on the exponent γ of the heavy-tailed distribution. Our results are valid for the Shannon entropy (α =1 ), its corresponding similarity measures (e.g., the Jensen-Shanon divergence), and also for measures based on the generalized entropy of order α . For small α 's, including α =1 , the errors decay slower than the 1 /N decay observed in short-tailed distributions. For α larger than a critical value α*=1 +1 /γ ≤2 , the 1 /N decay is recovered. We show the practical significance of our results by quantifying the evolution of the English language over the last two centuries using a complete α spectrum of measures. We find that frequent words change more slowly than less frequent words and that α =2 provides the most robust measure to quantify language change.

  19. Influences on flood frequency distributions in Irish river catchments

    Directory of Open Access Journals (Sweden)

    S. Ahilan

    2012-04-01

    Full Text Available This study explores influences on flood frequency distributions in Irish rivers. A Generalised Extreme Value (GEV type I distribution is recommended in Ireland for estimating flood quantiles in a single site flood frequency analysis. This paper presents the findings of an investigation that identified the GEV statistical distributions that best fit the annual maximum (AM data series extracted from 172 gauging stations of 126 rivers in Ireland. Analysis of these data was undertaken to explore hydraulic and hydro-geological factors that influence flood frequency distributions. A hierarchical approach of increasing statistical power that used probability plots, moment and L-moment diagrams, the Hosking goodness of fit algorithm and a modified Anderson-Darling (A-D statistical test was followed to determine whether a type I, type II or type III distribution was valid. Results of the Hosking et al. method indicated that of the 143 stations with flow records exceeding 25 yr, data for 95 (67% was best represented by GEV type I distributions and a further 9 (6% and 39 (27% stations followed type II and type III distributions respectively. Type I, type II and type III distributions were determined for 83 (58%, 16 (11% and 34 (24% stations respectively using the modified A-D method (data from 10 stations was not represented by GEV family distributions. The influence of karst terrain on these flood frequency distributions was assessed by incorporating results on an Arc-GIS platform showing karst features and using Monte Carlo simulations to assess the significance of the number and clustering of the observed distributions. Floodplain effects were identified by using two-sample t-tests to identify statistical correlations between the distributions and catchment properties that are indicative of strong floodplain activity. The data reveals that type I distributions are spatially well represented throughout the country. While also well represented throughout

  20. Influences on flood frequency distributions in Irish river catchments

    Science.gov (United States)

    Ahilan, S.; O'Sullivan, J. J.; Bruen, M.

    2012-04-01

    This study explores influences on flood frequency distributions in Irish rivers. A Generalised Extreme Value (GEV) type I distribution is recommended in Ireland for estimating flood quantiles in a single site flood frequency analysis. This paper presents the findings of an investigation that identified the GEV statistical distributions that best fit the annual maximum (AM) data series extracted from 172 gauging stations of 126 rivers in Ireland. Analysis of these data was undertaken to explore hydraulic and hydro-geological factors that influence flood frequency distributions. A hierarchical approach of increasing statistical power that used probability plots, moment and L-moment diagrams, the Hosking goodness of fit algorithm and a modified Anderson-Darling (A-D) statistical test was followed to determine whether a type I, type II or type III distribution was valid. Results of the Hosking et al. method indicated that of the 143 stations with flow records exceeding 25 yr, data for 95 (67%) was best represented by GEV type I distributions and a further 9 (6%) and 39 (27%) stations followed type II and type III distributions respectively. Type I, type II and type III distributions were determined for 83 (58%), 16 (11%) and 34 (24%) stations respectively using the modified A-D method (data from 10 stations was not represented by GEV family distributions). The influence of karst terrain on these flood frequency distributions was assessed by incorporating results on an Arc-GIS platform showing karst features and using Monte Carlo simulations to assess the significance of the number and clustering of the observed distributions. Floodplain effects were identified by using two-sample t-tests to identify statistical correlations between the distributions and catchment properties that are indicative of strong floodplain activity. The data reveals that type I distributions are spatially well represented throughout the country. While also well represented throughout the

  1. Distributed coupling and multi-frequency microwave accelerators

    Energy Technology Data Exchange (ETDEWEB)

    Tantawi, Sami G.; Li, Zenghai; Borchard, Philipp

    2016-07-05

    A microwave circuit for a linear accelerator has multiple metallic cell sections, a pair of distribution waveguide manifolds, and a sequence of feed arms connecting the manifolds to the cell sections. The distribution waveguide manifolds are connected to the cell sections so that alternating pairs of cell sections are connected to opposite distribution waveguide manifolds. The distribution waveguide manifolds have concave modifications of their walls opposite the feed arms, and the feed arms have portions of two distinct widths. In some embodiments, the distribution waveguide manifolds are connected to the cell sections by two different types of junctions adapted to allow two frequency operation. The microwave circuit may be manufactured by making two quasi-identical parts, and joining the two parts to form the microwave circuit, thereby allowing for many manufacturing techniques including electron beam welding, and thereby allowing the use of un-annealled copper alloys, and hence greater tolerance to high gradient operation.

  2. Distribution of alpha-2-HS-glycoprotein (AHSG) phenotypes in Cabo Verde (west Africa): description of a new allele, AHSG*32.

    Science.gov (United States)

    Caeiro, J L; Parra, E J; Yuasa, I; Teixeira, C; Llano, C

    1994-04-01

    The genetic polymorphism of alpha-2-HS-glycoprotein (AHSG) was studied in the population of Cabo Verde (West Africa), using isoelectric focusing in polyacrylamide gels followed by immunofixation-silver stain. AHSG frequencies are reported for the first time in a subsaharan African population. In addition to the common variants, AHSG 1 and AHSG 2, five AHSG variants were observed, including a new variant, tentatively designated AHSG 32. The allele frequencies were, AHSG*1: 0.7289, AHSG*2: 0.2111, AHSG*10: 0.0276, AHSG*3: 0.0162, AHSG*11: 0.0081, AHSG*22: 0.0065, AHSG*32:0.0016. PMID:7619771

  3. Frequency and distribution of Notch mutations in tumor cell lines

    International Nuclear Information System (INIS)

    Deregulated Notch signaling is linked to a variety of tumors and it is therefore important to learn more about the frequency and distribution of Notch mutations in a tumor context. In this report, we use data from the recently developed Cancer Cell Line Encyclopedia to assess the frequency and distribution of Notch mutations in a large panel of cancer cell lines in silico. Our results show that the mutation frequency of Notch receptor and ligand genes is at par with that for established oncogenes and higher than for a set of house-keeping genes. Mutations were found across all four Notch receptor genes, but with notable differences between protein domains, mutations were for example more prevalent in the regions encoding the LNR and PEST domains in the Notch intracellular domain. Furthermore, an in silico estimation of functional impact showed that deleterious mutations cluster to the ligand-binding and the intracellular domains of NOTCH1. For most cell line groups, the mutation frequency of Notch genes is higher than in associated primary tumors. Our results shed new light on the spectrum of Notch mutations after in vitro culturing of tumor cells. The higher mutation frequency in tumor cell lines indicates that Notch mutations are associated with a growth advantage in vitro, and thus may be considered to be driver mutations in a tumor cell line context. The online version of this article (doi:10.1186/s12885-015-1278-x) contains supplementary material, which is available to authorized users

  4. Predicting Baseball Home Run Records Using Exponential Frequency Distributions

    CERN Document Server

    Kelley, D J; Phillips, J A

    2006-01-01

    A new model, which uses the frequency of individuals' annual home run totals, is employed to predict future home run totals and records in Major League Baseball. Complete home run frequency data from 1903--2005 is analyzed, resulting in annual exponential distributions whose changes can be a used as a measure of progression in the sport and serve as a basis against which record-setting performances can be compared. We show that there is an 80% chance that Barry Bonds' current 73 home run record will be broken in the next 10 years, despite the longevity of previous records held by baseball legends Babe Ruth and Roger Marris.

  5. On the similarity of symbol frequency distributions with heavy tails

    CERN Document Server

    Gerlach, Martin; Altmann, Eduardo G

    2015-01-01

    Quantifying the similarity between symbolic sequences is a traditional problem in Information Theory which requires comparing the frequencies of symbols in different sequences. In numerous modern applications, ranging from DNA over music to texts, the distribution of symbol frequencies is characterized by heavy-tailed distributions (e.g., Zipf's law). The large number of low-frequency symbols in these distributions poses major difficulties to the estimation of the similarity between sequences, e.g., they hinder an accurate finite-size estimation of entropies. Here we show how the accuracy of estimations depend on the sample size~$N$, not only for the Shannon entropy $(\\alpha=1)$ and its corresponding similarity measures (e.g., the Jensen-Shanon divergence) but also for measures based on the generalized entropy of order $\\alpha$. For small $\\alpha$'s, including $\\alpha=1$, the bias and fluctuations in the estimations decay slower than the $1/N$ decay observed in short-tailed distributions. For $\\alpha$ larger ...

  6. Five-year tracking of Plasmodium falciparum allele frequencies in a holoendemic area with indistinct seasonal transitions

    Directory of Open Access Journals (Sweden)

    Akala HM

    2014-11-01

    Full Text Available Hoseah M Akala, Angela O Achieng, Fredrick L Eyase, Dennis W Juma, Luiser Ingasia, Agnes C Cheruiyot, Charles Okello, Duke Omariba, Eunice A Owiti, Catherine Muriuki, Redemptah Yeda, Ben Andagalu, Jacob D Johnson, Edwin Kamau Global Emerging Infections Surveillance Program, United States Army Medical Research Unit-Kenya, Kenya Medical Research Institute, Walter Reed Project, Kisumu and Nairobi, Kenya Background: The renewed malaria eradication efforts require an understanding of the seasonal patterns of frequency of polymorphic variants in order to focus limited funds productively. Although cross-sectional studies in holoendemic areas spanning a single year could be useful in describing parasite genotype status at a given point, such information is inadequate in describing temporal trends in genotype polymorphisms. For Plasmodium falciparum isolates from Kisumu District Hospital, Plasmodium falciparum chloroquine-resistance transporter gene (Pfcrt-K76T and P. falciparum multidrug resistance gene 1 (PfMDR1-N86Y, were analyzed for polymorphisms and parasitemia changes in the 53 months from March 2008 to August 2012. Observations were compared with prevailing climatic factors, including humidity, rainfall, and temperature. Methods: Parasitemia (the percentage of infected red blood cells per total red blood cells was established by microscopy for P. falciparum malaria-positive samples. P. falciparum DNA was extracted from whole blood using a Qiagen DNA Blood Mini Kit. Single nucleotide polymorphism identification at positions Pfcrt-K76T and PfMDR1-N86Y was performed using real-time polymerase chain reaction and/or sequencing. Data on climatic variables were obtained from http://www.tutiempo.net/en/. Results: A total of 895 field isolates from 2008 (n=169, 2009 (n=161, 2010 (n=216, 2011 (n=223, and 2012 (n=126 showed large variations in monthly frequency of PfMDR1-N86Y and Pfcrt-K76T as the mutant genotypes decreased from 68.4%±15% and 38.1%±13% to

  7. Frequency distribution function of stellar flares in the Orion association

    International Nuclear Information System (INIS)

    The temporal distributions of flare stars in the Orion association and the numbers of stars with different flare frequencies are determined by means of Ambartsumian's (1978) method, which uses the chronology of discovery of 'first' flares and the chronology of confirmations, i.e., the temporal distributions of 'repeated' flares. It is shown that flare stars with high flare frequency (not greater than 1000 hours) in the Pleiades are basically stars of low luminosity with M(U) not less than 13m. Two independent methods of determining the number of flare stars in the aggregates confirm that there are about 1.5 times more flare stars in the Orion association than in the Pleiades

  8. Chirplet Based Nonnegative Time-Frequency Distribution for FMmlet Transform

    Institute of Scientific and Technical Information of China (English)

    ZOUHongxing; WANGDianjun; DAIQionghai; LIYanda

    2005-01-01

    This paper proposes a method of devising a nonnegative Time-frequency distribution (TFD) for displaying the decomposition results of FMmlet transform. Underlying this method are the facts that the chirplet is a special case of FMmlet and that the Wigner-ville distribution (WVD) of Gaussian chirplet is nonnegative. The true essence of the method is to migrate the values of WVDs of Gaussian chirplets to the positions of Instantaneous frequencies (IFs) of the best matched FMmlet atoms for different signal components. The relative merits and usefulness of the resulting TFD are twofold: First, it is nonnegative; second, its localization is identical to that of WVD. Therefore, the resulting TFD is more flexible and advantageous for delineating the time-varying spectral contents of a nonstationary signal.

  9. A Statistical Model of Background Air Pollution Frequency Distributions

    OpenAIRE

    Antonovsky, M.Y.; Buchstaber, V. M.; Zaleniuk, E.A.

    1988-01-01

    The authors of this paper describe an approach for identifying statistically stable central tendencies in the frequency distributions of time series of observations of background atmospheric pollutants. The data were collected as daily mean values of concentrations of sulfur dioxide and suspended particulate matter at five monitoring stations -- three in the USSR, one in Norway, and one in Sweden. In their approach, the authors use well-developed statistical techniques and the usual meth...

  10. Distributed Frequency Control in Power Grids Under Limited Communication

    OpenAIRE

    Parandehgheibi, Marzieh; Turitsyn, Konstantin; Modiano, Eytan

    2016-01-01

    In this paper, we analyze the impact of communication failures on the performance of optimal distributed frequency control. We consider a consensus-based control scheme, and show that it does not converge to the optimal solution when the communication network is disconnected. We propose a new control scheme that uses the dynamics of power grid to replicate the information not received from the communication network, and prove that it achieves the optimal solution under any single communicatio...

  11. Separating More Sources Than Sensors Using Time-Frequency Distributions

    Directory of Open Access Journals (Sweden)

    Belouchrani Adel

    2005-01-01

    Full Text Available We examine the problem of blind separation of nonstationary sources in the underdetermined case, where there are more sources than sensors. Since time-frequency (TF signal processing provides effective tools for dealing with nonstationary signals, we propose a new separation method that is based on time-frequency distributions (TFDs. The underlying assumption is that the original sources are disjoint in the time-frequency (TF domain. The successful method recovers the sources by performing the following four main procedures. First, the spatial time-frequency distribution (STFD matrices are computed from the observed mixtures. Next, the auto-source TF points are separated from cross-source TF points thanks to the special structure of these mixture STFD matrices. Then, the vectors that correspond to the selected auto-source points are clustered into different classes according to the spatial directions which differ among different sources; each class, now containing the auto-source points of only one source, gives an estimation of the TFD of this source. Finally, the source waveforms are recovered from their TFD estimates using TF synthesis. Simulated experiments indicate the success of the proposed algorithm in different scenarios. We also contribute with two other modified versions of the algorithm to better deal with auto-source point selection.

  12. Separating More Sources Than Sensors Using Time-Frequency Distributions

    Science.gov (United States)

    Linh-Trung, Nguyen; Belouchrani, Adel; Abed-Meraim, Karim; Boashash, Boualem

    2005-12-01

    We examine the problem of blind separation of nonstationary sources in the underdetermined case, where there are more sources than sensors. Since time-frequency (TF) signal processing provides effective tools for dealing with nonstationary signals, we propose a new separation method that is based on time-frequency distributions (TFDs). The underlying assumption is that the original sources are disjoint in the time-frequency (TF) domain. The successful method recovers the sources by performing the following four main procedures. First, the spatial time-frequency distribution (STFD) matrices are computed from the observed mixtures. Next, the auto-source TF points are separated from cross-source TF points thanks to the special structure of these mixture STFD matrices. Then, the vectors that correspond to the selected auto-source points are clustered into different classes according to the spatial directions which differ among different sources; each class, now containing the auto-source points of only one source, gives an estimation of the TFD of this source. Finally, the source waveforms are recovered from their TFD estimates using TF synthesis. Simulated experiments indicate the success of the proposed algorithm in different scenarios. We also contribute with two other modified versions of the algorithm to better deal with auto-source point selection.

  13. Towards the distribution network of time and frequency

    Science.gov (United States)

    Lipiński, M.; Krehlik, P.; Śliwczyński, Ł.; Buczek, Ł.; Kołodziej, J.; Nawrocki, J.; Nogaś, P.; Dunst, P.; Lemański, D.; Czubla, A.; Pieczerak, J.; Adamowicz, W.; Pawszak, T.; Igalson, J.; Binczewski, A.; Bogacki, W.; Ostapowicz, P.; Stroiński, M.; Turza, K.

    2014-05-01

    In the paper the genesis, current stage and perspectives of the OPTIME project are described. The main goal of the project is to demonstrate that the newdeveloped at AGH technology of fiber optic transfer of the atomic clocks reference signals is ready to be used in building the domestic Time and Frequency distribution network. In the first part we summarize the two-year continuous operation of 420 kmlong link connecting the Laboratory of Time and Frequency at Central Office of Measures GUM in Warsaw and Time Service Laboratory at Astrogeodynamic Obserwatory AOS in Borowiec near Poznan. For the first time, we are reporting the two year comparison of UTC(PL) and UTC(AOS) atomic timescales with this link, and we refer it to the results of comparisons performed by GPS-based methods. We also address some practical aspects of maintaining time and frequency dissemination over fiber optical network. In the second part of the paper the concept of the general architecture of the distribution network with two Reference Time and Frequency Laboratories and local repositories is proposed. Moreover the brief project of the second branch connecting repositories in Poznan Polish Supercomputing and Networking Center and Torun Nicolaus Copernicus University with the first end-users in Torun such as National Laboratory of Atomic, Molecular and Optical Physics and Nicolaus Copernicus Astronomical Center is described. In the final part the perspective of developing the network both in the domestic range as far as extention with the international connections possibilities are presented.

  14. High-resolution time-frequency distributions for fall detection

    Science.gov (United States)

    Amin, Moeness G.; Zhang, Yimin D.; Boashash, Boualem

    2015-05-01

    In this paper, we examine the role of high-resolution time-frequency distributions (TFDs) of radar micro-Doppler signatures for fall detection. The work supports the recent and rising interest in using emerging radar technology for elderly care and assisted living. Spectrograms have been the de facto joint-variable signal representation, depicting the signal power in both time and frequency. Although there have been major advances in designing quadratic TFDs which are superior to spectrograms in terms of detailing the local signal behavior, the contributions of these distributions in the area of human motion classifications and their offerings in enhanced feature extractions have not yet been properly evaluated. The main purpose of this paper is to show the effect of using high-resolution TFD kernels, in lieu of spectrogram, on fall detection. We focus on the extended modified B-distribution (EMBD) and exploit the level of details it provides as compared with the coarse and smoothed time-frequency signatures offered by spectrograms.

  15. Frequency distributions: from the sun to the earth

    Directory of Open Access Journals (Sweden)

    N. B. Crosby

    2011-11-01

    Full Text Available The space environment is forever changing on all spatial and temporal scales. Energy releases are observed in numerous dynamic phenomena (e.g. solar flares, coronal mass ejections, solar energetic particle events where measurements provide signatures of the dynamics. Parameters (e.g. peak count rate, total energy released, etc. describing these phenomena are found to have frequency size distributions that follow power-law behavior. Natural phenomena on Earth, such as earthquakes and landslides, display similar power-law behavior. This suggests an underlying universality in nature and poses the question of whether the distribution of energy is the same for all these phenomena. Frequency distributions provide constraints for models that aim to simulate the physics and statistics observed in the individual phenomenon. The concept of self-organized criticality (SOC, also known as the "avalanche concept", was introduced by Bak et al. (1987, 1988, to characterize the behavior of dissipative systems that contain a large number of elements interacting over a short range. The systems evolve to a critical state in which a minor event starts a chain reaction that can affect any number of elements in the system. It is found that frequency distributions of the output parameters from the chain reaction taken over a period of time can be represented by power-laws. During the last decades SOC has been debated from all angles. New SOC models, as well as non-SOC models have been proposed to explain the power-law behavior that is observed. Furthermore, since Bak's pioneering work in 1987, people have searched for signatures of SOC everywhere. This paper will review how SOC behavior has become one way of interpreting the power-law behavior observed in natural occurring phenomenon in the Sun down to the Earth.

  16. ALLELE DISTRIBUTION OF FIVE X-CHROMOSOME SHORT TANDEM REPEAT LOCI IN EWENKE POPULATION OF NORTH CHINA

    Institute of Scientific and Technical Information of China (English)

    Shan-zhi Gu; Teng Chen; Qing-bo Liu; Bing Yu; Sheng-bin Li

    2005-01-01

    Objective To study the allele genetic polymorphism of five short tandem repeat (STR) loci on X-chromosome in Ewenke population of north China and to provide basic data for forensic identification.Methods Genomic DNA was extracted from EDTA-whole blood of Ewenke population by Chelex-100. The DNA samples were amplified by PCR and were analyzed by polyacrylamide gel electrophoresis and silver staining. The sequence length variations of DXS6799, DXS8378, DXS101, HPRTB, and DXS6789 loci on X-chromosome in 98unrelated Ewenke individuals were investigated.Results All five loci analyzed showed high polymorphism and genetic stability. The data of the five X-chromosome STR loci in Ewenke ethnic group of China was in accordance with Hardy-Weinberg equilibrium by Chi-square test.Conclusion Allele polymorphism of five X-chromosome STR loci can be used as a genetic marker for forensic identification and population genetic research.

  17. Allele-specific primer polymerase chain reaction for a single nucleotide polymorphism (C1205T) of swine Toll-like receptor 5 and comparison of the allelic frequency among several pig breeds in Japan and the Czech Republic

    Czech Academy of Sciences Publication Activity Database

    Muneta, Y.; Minagawa, Y.; Kusumoto, M.; Shinkai, H.; Uenishi, H.; Šplíchal, Igor

    2012-01-01

    Roč. 56, č. 6 (2012), s. 385-391. ISSN 0385-5600 R&D Projects: GA ČR GA524/09/0365 Institutional support: RVO:61388971 Keywords : allele-specific PCR * Salmonella enterica serovar Choleraesuis * single nucleotide polymorphism Subject RIV: EC - Immunology Impact factor: 1.545, year: 2012

  18. Randomized Algorithms for Tracking Distributed Count, Frequencies, and Ranks

    DEFF Research Database (Denmark)

    Huang, Zengfeng; Yi, Ke; Zhang, Qin

    2011-01-01

    can be reduced to $\\Theta(\\sqrt{k}/\\eps \\cdot \\log N)$. Our algorithm is simple and uses only O(1) space at each player, while the lower bound holds even assuming each player has infinite computing power. Then, we extend our techniques to two related distributed tracking problems: {\\em frequency......-tracking} and {\\em rank-tracking}, and obtain similar improvements over previous deterministic algorithms. Both problems are of central importance in large data monitoring and analysis, and have been extensively studied in the literature....

  19. The frequency-independent control method for distributed generation systems

    DEFF Research Database (Denmark)

    Naderi, Siamak; Pouresmaeil, Edris; Gao, Wenzhong David

    2012-01-01

    -effective and simple control strategies is obligatory. The new control method of this paper does not need a Phase Locked Loop (PLL) in control circuit and has fast dynamic response in providing active and reactive power to nonlinear load. From extensive simulation results, high performance of this control......In this paper a novel frequency-independent control method suitable for distributed generation (DG) is presented. This strategy is derived based on the . abc/. αβ transformation and . abc/. dq transformation of the ac system variables. The active and reactive currents injected by the DG are...

  20. Single Frequency Network Based Distributed Passive Radar Technology

    Directory of Open Access Journals (Sweden)

    Wan Xian-rong

    2015-01-01

    Full Text Available The research and application of passive radar are heading from single transmitter-receiver pair to multiple transmitter-receiver pairs. As an important class of the illuminators of opportunity, most of modern digital broadcasting and television systems work on Single Frequency Network (SFN, which intrinsically determines that the passive radar based on such illuminators must be distributed and networked. In consideration of the remarkable working and processing mode of passive radar under SFN configuration, this paper proposes the concept of SFN-based Distributed Passive Radar (SDPR. The main characteristics and key problems of SDPR are first described. Then several potential solutions are discussed for part of the key technologies. The feasibility of SDPR is demonstrated by preliminary experimental results. Finally, the concept of four network convergence that includes the broadcast based passive radar network is conceived, and its application prospects are discussed.

  1. Allele frequency-based and polymorphism-versus-divergence indices of balancing selection in a new filtered set of polymorphic genes in Plasmodium falciparum.

    Science.gov (United States)

    Ochola, Lynette Isabella; Tetteh, Kevin K A; Stewart, Lindsay B; Riitho, Victor; Marsh, Kevin; Conway, David J

    2010-10-01

    Signatures of balancing selection operating on specific gene loci in endemic pathogens can identify candidate targets of naturally acquired immunity. In malaria parasites, several leading vaccine candidates convincingly show such signatures when subjected to several tests of neutrality, but the discovery of new targets affected by selection to a similar extent has been slow. A small minority of all genes are under such selection, as indicated by a recent study of 26 Plasmodium falciparum merozoite-stage genes that were not previously prioritized as vaccine candidates, of which only one (locus PF10_0348) showed a strong signature. Therefore, to focus discovery efforts on genes that are polymorphic, we scanned all available shotgun genome sequence data from laboratory lines of P. falciparum and chose six loci with more than five single nucleotide polymorphisms per kilobase (including PF10_0348) for in-depth frequency-based analyses in a Kenyan population (allele sample sizes >50 for each locus) and comparison of Hudson-Kreitman-Aguade (HKA) ratios of population diversity (π) to interspecific divergence (K) from the chimpanzee parasite Plasmodium reichenowi. Three of these (the msp3/6-like genes PF10_0348 and PF10_0355 and the surf(4.1) gene PFD1160w) showed exceptionally high positive values of Tajima's D and Fu and Li's F indices and have the highest HKA ratios, indicating that they are under balancing selection and should be prioritized for studies of their protein products as candidate targets of immunity. Combined with earlier results, there is now strong evidence that high HKA ratio (as well as the frequency-independent ratio of Watterson's /K) is predictive of high values of Tajima's D. Thus, the former offers value for use in genome-wide screening when numbers of genome sequences within a species are low or in combination with Tajima's D as a 2D test on large population genomic samples. PMID:20457586

  2. Identification of Electrooculography Signals Frequency Energy Distribution Using Wavelet Algorithm

    Directory of Open Access Journals (Sweden)

    W. M. Bukhari

    2011-01-01

    Full Text Available Problem statement: The time frequency analysis of non-stationary signals has been the considerable research effort in recent years. Wavelet transform is one of the favored tool for the analyzing the biomedical signals. Approach: We describe the identification of Electro-Oculograph (EOG signals of eye movement potentials by using wavelet algorithm which gives a lot of information than FFT. The capability of wavelet transform was to distribute the signal energy with the change of time in different frequency bands. This will showed the characteristic of the signals since energy was an important physical variable in signal analysis. The EOG signals were captured using electrodes placed on the forehead around the eyes to record the eye movements. The wavelet features used to determine the characteristic of eye movement waveform. This technique adopted because it was a non-invasive, inexpensive and accurate. The new technology enhancement has allowed the EOG signals captured using the Neuronal EEG-9200. The recorded data was composed of an eye movement toward four directions, i.e., downward, upward, leftward and rightward. The proposed analysis for each eyes signal is analyzed by using Wavelet Transform (WT with energy algorithm and by comparing the energy distribution with the change of time and frequency of each signal. Results: A wavelet Scalogram was plotted to display the different percentages of energy for each wavelet coefficient towards different movement. Conclusion: From the result, it is proved that the different EOG signals exhibit differences in signals energy with their corresponding scale such as leftward with scale 6 (8- 16Hz, rightward with scale 8 (2-4Hz, downward with scale 9 (1-2Hz and upward with level 7 (4-8Hz. Statistically, the results in this study indicate that there are 93% (averages significance differences in the extracted features of wavelet Scalogram analysis.

  3. A WIDE DISTRIBUTION OF A NEW VRN-B1c ALLELE OF WHEAT TRITICUM AESTIVUM L. IN RUSSIA, UKRAINE AND ADJACENT REGIONS: A LINK WITH THE HEADING TIME AND ADAPTIVE POTENTIAL

    Directory of Open Access Journals (Sweden)

    Shcherban A.

    2012-08-01

    Full Text Available The adaptation of common wheat (T. aestivum L. to diverse environmental conditions is greatly under the control of genes involved in determination of vernalization response (Vrn-1 genes. It was found that the variation in common wheat heading time is affected not only by combination of Vrn-1 homoeoalleles but also by multiple alleles at a separate Vrn-1 locus. Previously, we described the Vrn-B1c allele from T.aestivum cv. 'Saratovskaya 29' and found significant differences in the structure of the first (1st intron of this allele when compared to another highly abundant Vrn-B1a allele, specifically, the deletion of 0.8 kb coupled with the duplication of 0.4 kb. We suggested that the changes in the intron 1 of Vrn-B1c allele caused earlier ear emergence in the near-isogenic line and cultivars, carrying this allele. In this study we investigate the distribution of the Vrn-B1c allele in a wide set of spring wheat cultivars from Russia, Ukraine and adjacent regions. The analysis revealed that 40% of Russian and 53% of Ukranian spring wheat cultivars contain the Vrn-B1c allele. The high distribution of the Vrn-B1c allele can be explained by a frequent using of 'Saratovskaya 29' in the breeding process inside the studied area. From the other hand, the predominance of the Vrn-B1c allele among cultivars cultivated in West Siberia and Kazakhstan may be due to the selective advantage of this allele for the region where there is a high risk of early fall frosts.

  4. DISTRIBUTION OF ALLELIC VARIANTS OF HEXAPLOID WHEAT GERMPLASM AT XGWM261 AND PPD-D1 LOCUS

    Directory of Open Access Journals (Sweden)

    Sonja Petrović

    2012-12-01

    Full Text Available Traits like plant height and response to photoperiod are involved in controlling many quality characteristics that breeders look into the desired genotype. Today, climatic changes in traditional wheat growing regions cause day temperature rising and water supply shortening. Exploitation of various semi-dwarfing (Rht and photoperiod response (Ppd genes could help the implementation of wheat breeding programs, especially selection of stabile and stress adaptable varieties targeted for different environments. Microsatellite gwm261 is located on Xgwm261 locus, and it is 0.6 cM distant from Rht8 gene on 2DS chromosome, which can also include Ppd1 gen for insensitivity to photoperiod. PCR screening of Croatian and foreign wheat varieties showed prevalence of 192 bp allele at Xgwm261 locus and photoperiod insensitive allele (Ppd-D1a. The results of this research could be useful for more accurate characterization and selection of Croatian wheat cultivars and foreign ones aiming to cross and create new adaptable varieties.

  5. Frequencies and ethnic distribution of ABO and Rh(D) blood groups in Mauritania: results of first nationwide study.

    Science.gov (United States)

    Hamed, C T; Bollahi, M A; Abdelhamid, I; Med Mahmoud, M A; Ba, B; Ghaber, S; Habti, N; Houmeida, A

    2012-04-01

    There is no data available on the ABO/Rh(D) frequencies in the Mauritanian population. We retrospectively analysed records of a 5-year database that contained ABO/Rh phenotype and ethnic origin of 10 116 volunteers giving blood at the national blood transfusion centre to derive the frequencies of ABO/Rh(D) groups in the Mauritanian population. The two race categories in the country and their sub-ethnic groups: the Moors (whites and black) and the black Africans (Pulhars, Soninkes and Wolof) were included in this study. Globally, group O had the highest frequency (49.10%) followed by A (28.28%), B (18.56%) and AB (4.05%). This order more common in North African populations was found in four of the five ethnic groups composing our population. Allele frequencies were, respectively, 70.20%, 17.74% and 12.04% giving the same order of O > A > B. We observed no significant variation in these frequencies between the different ethnic groups. Rhesus study showed that with a percentage of 94.23% Rh(D) positive is by far the most prevalent, while Rh(D) negative is present only in 5.77% of the total population. This frequency distribution supports the mixed-race composition of the Mauritanian population. PMID:22128837

  6. Daily tornado frequency distributions in the United States

    International Nuclear Information System (INIS)

    The authors examine daily tornado counts in the United States over the period 1994–2012 and find strong evidence for a power-law relationship in the distribution frequency. The scaling exponent is estimated at 1.64 (0.019 s.e.) giving a per tornado-day probability of 0.014% (return period of 71 years) that a tornado day produces 145 tornadoes as was observed on 27 April 2011. They also find that the total number of tornadoes by damage category on days with at least one violent tornado follows an exponential rule. On average, the daily number of tornadoes in the next lowest damage category is approximately twice the number in the current category. These findings are important and timely for tornado hazard models and for seasonal and sub-seasonal forecasts of tornado activity. (paper)

  7. Directional spatial frequency analysis of lipid distribution in atherosclerotic plaque

    Science.gov (United States)

    Korn, Clyde; Reese, Eric; Shi, Lingyan; Alfano, Robert; Russell, Stewart

    2016-04-01

    Atherosclerosis is characterized by the growth of fibrous plaques due to the retention of cholesterol and lipids within the artery wall, which can lead to vessel occlusion and cardiac events. One way to evaluate arterial disease is to quantify the amount of lipid present in these plaques, since a higher disease burden is characterized by a higher concentration of lipid. Although therapeutic stimulation of reverse cholesterol transport to reduce cholesterol deposits in plaque has not produced significant results, this may be due to current image analysis methods which use averaging techniques to calculate the total amount of lipid in the plaque without regard to spatial distribution, thereby discarding information that may have significance in marking response to therapy. Here we use Directional Fourier Spatial Frequency (DFSF) analysis to generate a characteristic spatial frequency spectrum for atherosclerotic plaques from C57 Black 6 mice both treated and untreated with a cholesterol scavenging nanoparticle. We then use the Cauchy product of these spectra to classify the images with a support vector machine (SVM). Our results indicate that treated plaque can be distinguished from untreated plaque using this method, where no difference is seen using the spatial averaging method. This work has the potential to increase the effectiveness of current in-vivo methods of plaque detection that also use averaging methods, such as laser speckle imaging and Raman spectroscopy.

  8. Helicobacter pylori vacA s1a and s1b alleles from clinical isolates from different regions of Chile show a distinct geographic distribution

    Institute of Scientific and Technical Information of China (English)

    MI Díaz; A Kirberg; E Hebel; J Fierro; R Bravo; F Siegel; G Leon; G Klapp; A Venegas; A Valdivia; P Martínez; JL Palacios; P Harris; J Novales; E Garrido; D Valderrama; C Shilling

    2005-01-01

    AIM: To establish the most common vacA alleles in Helicobacter pylori(H pylori) strains isolated from Chilean patients and its relationship with gastritis and gastroduodenal ulcers.METHODS: Two hundred and forty five H pylori clinical isolates were obtained from 79 biopsies from Chilean infected patients suffering from gastrointestinal diseases. An average of 2-3 strains per patient was isolated and the vacA genotype was analyzed by PCR and 3% agarose electrophoresis. Some genotypes were checked by DNA sequencing.RESULTS: The most prevalent vacA genotype inChilean patients was s1b m1 (76%), followed by s1a m1 (21%). In contrast, the s2 m2 genotype was scarcely represented (3%).The s1b m1 genotype was found most frequently linked to gastropathies (P<0.05) rather than ulcers. Ulcers were found more commonly in male and older patients. Curiously, patients living in cities located North and far South of Santiago, the capital and largest Chilean city, carried almost exclusively strains with the s1b m1 genotype. In contrast, patients from Santiago and cities located South of Santiago carried strains with either one or both s1a m1 and s1b m1 genotypes.Regarding the s2 m2 genotype, comparison with GenBank sequences revealed that Chilean s2 sequence was identical to those of Australian, American, and Colombian strains but quite different from those of Alaska and India.CONCLUSION: Differences in geographic distribution of the s and m vaccA alleles in Chile and a relationship of s1b m1 genotype with gastritis were found. Sequence data in part support a hispanic origin for the vacA genotype.Asymmetric distribution of genotypes s1b m1 and s2 m2recedes H Pyloristrain distribution in Spain and Portugal.

  9. The size-frequency distribution of elliptical impact craters

    Science.gov (United States)

    Collins, G. S.; Elbeshausen, D.; Davison, T. M.; Robbins, S. J.; Hynek, B. M.

    2011-10-01

    Impact craters are elliptical in planform if the impactor's trajectory is below a threshold angle of incidence. Laboratory experiments and 3D numerical simulations demonstrate that this threshold angle decreases as the ratio of crater size to impactor size increases. According to impact cratering scaling laws, this implies that elliptical craters occur at steeper impact angles as crater size or target strength increases. Using a standard size-frequency distribution for asteroids impacting the terrestrial planets we estimate the fraction of elliptical craters as a function of crater size on the Moon, Mars, Earth, Venus and Mercury. In general, the expected fraction of elliptical craters is ~ 2-4% for craters between 5 and 100-km in diameter, consistent with the observed population of elliptical craters on Mars. At larger crater sizes both our model and observations suggest a dramatic increase in the fraction of elliptical craters with increasing crater diameter. The observed fraction of elliptical craters larger than 100-km diameter is significantly greater than our model predictions, which may suggest that there is an additional source of large elliptical craters other than oblique impact.

  10. Multiscale Point Correspondence Using Feature Distribution and Frequency Domain Alignment

    Directory of Open Access Journals (Sweden)

    Zeng-Shun Zhao

    2012-01-01

    Full Text Available In this paper, a hybrid scheme is proposed to find the reliable point-correspondences between two images, which combines the distribution of invariant spatial feature description and frequency domain alignment based on two-stage coarse to fine refinement strategy. Firstly, the source and the target images are both down-sampled by the image pyramid algorithm in a hierarchical multi-scale way. The Fourier-Mellin transform is applied to obtain the transformation parameters at the coarse level between the image pairs; then, the parameters can serve as the initial coarse guess, to guide the following feature matching step at the original scale, where the correspondences are restricted in a search window determined by the deformation between the reference image and the current image; Finally, a novel matching strategy is developed to reject the false matches by validating geometrical relationships between candidate matching points. By doing so, the alignment parameters are refined, which is more accurate and more flexible than a robust fitting technique. This in return can provide a more accurate result for feature correspondence. Experiments on real and synthetic image-pairs show that our approach provides satisfactory feature matching performance.

  11. Allele frequencies of the epidermal growth factor receptors polymorphism R521K in colorectal cancer patients and healthy subjects indicate a risk-reducing effect of K521 in Syrian population

    Directory of Open Access Journals (Sweden)

    Ola Haj Mustafa

    2013-01-01

    Full Text Available Background: Colorectal cancer contributes heavily to cancer morbidity and mortality worldwide. Numerous therapies are currently in use, including monoclonal antibodies against cellular components involved in tumorigenesis such as epidermal growth factor receptors (EGFRs. Studies showed the polymorphism [R521K] GàA in the EGFR gene to be involved in both colorectal cancer susceptibility and clinical response to therapeutics (e.g., Cetuximab. Aim: We aimed at uncovering allele frequencies of this polymorphism among Syrian colorectal cancer patients and healthy individuals. Materials and Methods: Forty-seven patients with colorectal cancer were included in a case-control study along with 48 healthy subjects, all native Syrians. Individuals were genotyped using PCR-Restriction Fragment Length Polymorphism (PCR-RFLP and results were statistically analyzed to elucidate significant differences between the two groups. Results: Allele frequencies were 40.4% (G/G, 57.4% (G/A and 2.1% (A/A in colorectal cancer patients and 41.6% (G/G, 43.7% (G/A and 14.5% (A/A in healthy subjects. The A/A genotype was significantly lower in colorectal cancer patients than in the control group. Conclusions: Homozygosity for the A allele is linked to reducing the risk of developing colorectal cancer in Syrian patients. The lower prevalence of (A/A locally may predict sub-optimal rates of clinical response to Cetuximab compared with populations with higher frequencies of the A allele. Larger scale investigations are needed for a stronger conclusion.

  12. Development of Allele-Specific Primer PCR for a Swine TLR2 SNP and Comparison of the Frequency among Several Pig Breeds of Japan and the Czech Republic

    Czech Academy of Sciences Publication Activity Database

    Muneta, Y.; Minagawa, Y.; Kusumoto, M.; Shinkai, H.; Uenishi, H.; Šplíchal, Igor

    2012-01-01

    Roč. 74, č. 5 (2012), s. 553-559. ISSN 0916-7250 R&D Projects: GA ČR GA524/09/0365 Institutional support: RVO:61388971 Keywords : allele-specific PCR * Mycoplasma hyopneumoniae * single nucleotide polymorphism Subject RIV: EC - Immunology Impact factor: 0.876, year: 2012

  13. Study on resonance frequency distribution of high-overtone bulk acoustic resonators

    Institute of Scientific and Technical Information of China (English)

    ZHANG Hui; WANG Zuoqing; ZHANG Shuyi

    2005-01-01

    Based on the method of characterizing piezo-films by the resonance frequency distributions, the factors influencing the resonance frequency distribution of a High-overtone Bulk Acoustic Resonator (HBAR) consisting of a piezoelectric thin film with twoelectrodes and a substrate are studied. Some HBARs are simulated. The results manifest that changing the acoustic impedance ratio of the substrate to piezo-film the distribution of the space of the parallel resonance frequency and the effective electromechanical coupling factor are changed. When the fundamental mode of the piezo-film is at high frequency, changing the acoustic impedance ratio of the electrode to piezo-film and the thickness of the electrodes make the resonance frequency distribution of HBARs change. These results manifest that the HBARs can be resonant at specified frequencies by means of adjusting the factors affecting the resonance frequency distribution.

  14. Dynamic Response to Pedestrian Loads with Statistical Frequency Distribution

    DEFF Research Database (Denmark)

    Krenk, Steen

    2012-01-01

    Pedestrian loads depend on the regularity and frequency of the footfall process. Traditionally, pedestrian loads have been represented by one or more specific harmonic components with a well-defined frequency, and light footbridges have been investigated for resonance vibration generated by the h...

  15. Distribution of HIV-1 resistance-conferring polymorphic alleles SDF-1-3′A, CCR2-64I and CCR5-32 in diverse populations of Andhra Pradesh, South India

    Indian Academy of Sciences (India)

    G. V. Ramana; A. Vasanthi; M. Khaja; B. Su; V. Govindaiah; L. Jin; L. Singh; R. Chakraborty

    2001-12-01

    Polymorphic allelic variants of chemokine receptors CCR2 and CCR5, as well as of stromal-derived factor-1 SDF-1, the ligand for the chemokine receptor CXCR4, are known to have protective effects against HIV-1 infection and to be involved with delay in disease progression. We have studied the DNA polymorphisms at the loci that encode these proteins in 525 healthy individuals without any history of HIV-1 infection from 11 diverse populations of Andhra Pradesh, South India. The two protective alleles SDF-1-3′A and CCR2-64I at the SDF-1 and CCR2 loci, respectively, are present in all populations studied, although their frequencies differ considerably across populations (from 17% to 35% for the SDF-1-3′A allele, and from 3% to 17% for CCR2-64I). In contrast the CCR5-32 allele is observed only in three populations (Yamani, Pathan and Kamma), all in low frequencies (i.e. 1% to 3%). The mean number of mutant alleles (for the three loci together) carried by each individual varies from 0.475 (in Vizag Brahmins) to 0.959 (in Bohra Muslims). The estimated relative hazard values for the populations, computed from the three-locus genotype data, are comparable to those from Africa and Southeast Asia, where AIDS is known to be widespread.

  16. Effect of laser frequency noise on fiber-optic frequency reference distribution

    Science.gov (United States)

    Logan, R. T., Jr.; Lutes, G. F.; Maleki, L.

    1989-01-01

    The effect of the linewidth of a single longitude-mode laser on the frequency stability of a frequency reference transmitted over a single-mode optical fiber is analyzed. The interaction of the random laser frequency deviations with the dispersion of the optical fiber is considered to determine theoretically the effect on the Allan deviation (square root of the Allan variance) of the transmitted frequency reference. It is shown that the magnitude of this effect may determine the limit of the ultimate stability possible for frequency reference transmission on optical fiber, but is not a serious limitation to present system performance.

  17. Association between the CCR5 32-bp deletion allele and late onset of schizophrenia

    DEFF Research Database (Denmark)

    Rasmussen, Henrik Berg; Timm, Sally; Wang, August G; Søeby, Karen; Lublin, Henrik; Fenger, Mogens; Hemmingsen, Ralf Peter Arnfred; Werge, Thomas

    2006-01-01

    psychiatric hospital department served as a measure of disease onset. RESULTS: Patients and comparison subjects differed marginally in their genotype distribution, with a slightly higher frequency of the deletion allele seen in the patients. The authors found the deletion allele to be associated with higher......OBJECTIVE: The 32-bp deletion allele in chemokine receptor CCR5 has been associated with several immune-mediated diseases and might be implicated in schizophrenia as well. METHOD: The authors genotyped DNA samples from 268 schizophrenia patients and 323 healthy subjects. Age at first admission to a...

  18. Demographic history and rare allele sharing among human populations

    OpenAIRE

    Henn, Brenna M.; Indap, Amit R.; Donnelly, Peter; Nickerson, Debbie A.; Peltonen, Leena; Deiros, David; Metzker, Mike; Li, Jingxiang; Jian, Min; Liang, Huiqing; Tian, Geng; Wang, Bo; Wang, Wei; Zhang, Xiuqing; Zheng, Huisong

    2011-01-01

    High-throughput sequencing technology enables population-level surveys of human genomic variation. Here, we examine the joint allele frequency distributions across continental human populations and present an approach for combining complementary aspects of whole-genome, low-coverage data and targeted high-coverage data. We apply this approach to data generated by the pilot phase of the Thousand Genomes Project, including whole-genome 2–4× coverage data for 179 samples from HapMap European, As...

  19. Time-frequency analyses of disturbances in power distribution systems

    OpenAIRE

    Avdakovic, Samir; Bosovic, Adnan; Hasanspahic, Nedzad; Saric, Kenan

    2014-01-01

    Future smart distribution grids will apart from a large number of measurement instruments, communication infrastructure, intelligent software etc., also require the appropriate techniques for analysis of the available signals. Various disturbances of different intensities constantly occur in real distribution systems. Many of them are just temporary while others cause the tripping of protection devices and the suspension of electricity supply. For distribution network operators, timely identi...

  20. μ-Calpain, calpastatin, and growth hormone receptor genetic effects on preweaning performance, carcass quality traits, and residual variance of tenderness in Angus cattle selected to increase minor haplotype and allele frequencies.

    Science.gov (United States)

    Tait, R G; Shackelford, S D; Wheeler, T L; King, D A; Casas, E; Thallman, R M; Smith, T P L; Bennett, G L

    2014-02-01

    Genetic marker effects and interactions are estimated with poor precision when minor marker allele frequencies are low. An Angus population was subjected to marker assisted selection for multiple years to increase divergent haplotype and minor marker allele frequencies to 1) estimate effect size and mode of inheritance for previously reported SNP on targeted beef carcass quality traits; 2) estimate effects of previously reported SNP on nontarget performance traits; and 3) evaluate tenderness SNP specific residual variance models compared to a single residual variance model for tenderness. Divergent haplotypes within µ-calpain (CAPN1), and SNP within calpastatin (CAST) and growth hormone receptor (GHR) were successfully selected to increase their frequencies. Traits evaluated were birth BW, weaning BW, final BW, fat thickness, LM area, USDA marbling score, yield grade, slice shear force (SSF), and visible and near infrared predicted slice shear force. Both CAPN1 and CAST exhibited additive (P grade (P meat yield and less trimmable fat. There were no significant effects (P ≥ 0.23) for GHR on any of the traits evaluated in this study. Furthermore, CAST specific residual variance models were found to fit significantly better (P quality. PMID:24398843

  1. Frequency of the allelic variant c.1150T > C in exon 10 of the fibroblast growth factor receptor 3 (FGFR3 gene is not increased in patients with pathogenic mutations and related chondrodysplasia phenotypes

    Directory of Open Access Journals (Sweden)

    Thatiane Yoshie Kanazawa

    2014-12-01

    Full Text Available Mutations in the FGFR3 gene cause the phenotypic spectrum of FGFR3 chondrodysplasias ranging from lethal forms to the milder phenotype seen in hypochondroplasia (Hch. The p.N540K mutation in the FGFR3 gene occurs in ~70% of individuals with Hch, and nearly 30% of individuals with the Hch phenotype have no mutations in the FGFR3, which suggests genetic heterogeneity. The identification of a severe case of Hch associated with the typical mutation c.1620C > A and the occurrence of a c.1150T > C change that resulted in a p.F384L in exon 10, together with the suspicion that this second change could be a modulator of the phenotype, prompted us to investigate this hypothesis in a cohort of patients. An analysis of 48 patients with FGFR3 chondrodysplasia phenotypes and 330 healthy (control individuals revealed no significant difference in the frequency of the C allele at the c.1150 position (p = 0.34. One patient carrying the combination `pathogenic mutation plus the allelic variant c.1150T > C' had a typical achondroplasia (Ach phenotype. In addition, three other patients with atypical phenotypes showed no association with the allelic variant. Together, these results do not support the hypothesis of a modulatory role for the c.1150T > C change in the FGFR3 gene.

  2. Secondary Frequency and Voltage Control of Islanded Microgrids via Distributed Averaging

    OpenAIRE

    W. Simpson-Porco, John; Shafiee, Qobad; Dorfler, Florian; Vasquez, Juan Carlos; Josep M. Guerrero; Bullo, Francesco

    2015-01-01

    In this work we present new distributed controllers for secondary frequency and voltage control in islanded microgrids. Inspired by techniques from cooperative control, the proposed controllers use localized information and nearest neighbour communication to collectively perform secondary control actions. The frequency controller rapidly regulates the microgrid frequency to its nominal value while maintaining active power sharing among the distributed generators. Tuning of the voltage control...

  3. Time-Frequency Distribution of Music based on Sparse Wavelet Packet Representations

    DEFF Research Database (Denmark)

    Endelt, Line Ørtoft

    the minimization methods basis pursuit and best orthogonal basis. Visualizations of the time-frequency distribution are constructed based on a simplified energy distribution in the wavelet packet decomposition. The time-frequency distributions emphasizes structured musical content, including non......-stationary content, by masking the energy from less structured music instruments. We present four examples for visualizing structured content, including vocal and single instrument.......We introduce a new method for generating time-frequency distributions, which is particularly useful for the analysis of music signals. The method presented here is based on $\\ell1$ sparse representations of music signals in a redundant wavelet packet dictionary. The representations are found using...

  4. Fast and memory-efficient algorithms for computing quadratic time–frequency distributions

    OpenAIRE

    O'Toole, J.M.; Boashash, B.

    2013-01-01

    This paper presents algorithms that compute DTFDs with minimal computation and memory loads. (Additional details can be found in the comprehensive book on Time-Frequency Signal Analysis and Processing (see http://www.elsevier.com/locate/isbn/0080443354). In addition, the most recent upgrade of the original software package that calculates Time-Frequency Distributions and Instantaneous Frequency estimators can be downloaded from the web site: www.time-frequency.net. This was the first...

  5. Frequency and distribution studies of asymmetrical versus symmetrical chromosome aberrations

    International Nuclear Information System (INIS)

    Two aspects of the relationship between Asymmetrical (A) and Symmetrical (S) radiation-induced chromosomal aberrations are considered in this paper. (1) Are A and S truly alternative modes of lesion interaction. Relative frequencies for chromatid-type and chromosome-type are examined, and new lymphocyte data using banding is used to look at this, and also for parallelism in chromosome participation of the two forms for various aberration categories. All the tests applied suggest that A and S are alternative interaction modes. (2) The long-term survival characteristics of A and S are discussed, and the differences in expected frequencies of derived S per surviving cell from chromosome-type and chromatid-types are stressed. Since many in vivo tissues have varying mixtures of potential chromatid and chromosome aberration-bearing target cells, ultimate cell survival and derived S frequencies may differ between tissues for the same absorbed dose. An Appendix gives Relative Corrected Lengths (RCL) for chromosomes of the human karyotype which should be used when testing the various exchange aberration categories for random chromosome participation. (orig.)

  6. Frequency-wavenumber processing for infrasound distributed arrays.

    Science.gov (United States)

    Costley, R Daniel; Frazier, W Garth; Dillion, Kevin; Picucci, Jennifer R; Williams, Jay E; McKenna, Mihan H

    2013-10-01

    The work described herein discusses the application of a frequency-wavenumber signal processing technique to signals from rectangular infrasound arrays for detection and estimation of the direction of travel of infrasound. Arrays of 100 sensors were arranged in square configurations with sensor spacing of 2 m. Wind noise data were collected at one site. Synthetic infrasound signals were superposed on top of the wind noise to determine the accuracy and sensitivity of the technique with respect to signal-to-noise ratio. The technique was then applied to an impulsive event recorded at a different site. Preliminary results demonstrated the feasibility of this approach. PMID:24116535

  7. Radar signal analysis of ballistic missile with micro-motion based on time-frequency distribution

    Science.gov (United States)

    Wang, Jianming; Liu, Lihua; Yu, Hua

    2015-12-01

    The micro-motion of ballistic missile targets induces micro-Doppler modulation on the radar return signal, which is a unique feature for the warhead discrimination during flight. In order to extract the micro-Doppler feature of ballistic missile targets, time-frequency analysis is employed to process the micro-Doppler modulated time-varying radar signal. The images of time-frequency distribution (TFD) reveal the micro-Doppler modulation characteristic very well. However, there are many existing time-frequency analysis methods to generate the time-frequency distribution images, including the short-time Fourier transform (STFT), Wigner distribution (WD) and Cohen class distribution, etc. Under the background of ballistic missile defence, the paper aims at working out an effective time-frequency analysis method for ballistic missile warhead discrimination from the decoys.

  8. Next-generation sequencing of ABCA4: High frequency of complex alleles and novel mutations in patients with retinal dystrophies from Central Europe.

    Science.gov (United States)

    Ścieżyńska, Aneta; Oziębło, Dominika; Ambroziak, Anna M; Korwin, Magdalena; Szulborski, Kamil; Krawczyński, Maciej; Stawiński, Piotr; Szaflik, Jerzy; Szaflik, Jacek P; Płoski, Rafał; Ołdak, Monika

    2016-04-01

    Variation in the ABCA4 locus has emerged as the most prevalent cause of monogenic retinal diseases. The study aimed to discover causative ABCA4 mutations in a large but not previously investigated cohort with ABCA4-related diseases originating from Central Europe and to refine the genetic relevance of all identified variants based on population evidence. Comprehensive clinical studies were performed to identify patients with Stargardt disease (STGD, n = 76) and cone-rod dystrophy (CRD, n = 16). Next-generation sequencing targeting ABCA4 was applied for a widespread screening of the gene. The results were analyzed in the context of exome data from a corresponding population (n = 594) and other large genomic databases. Our data disprove the pathogenic status of p.V552I and provide more evidence against a causal role of four further ABCA4 variants as drivers of the phenotype under a recessive paradigm. The study identifies 12 novel potentially pathogenic mutations (four of them recurrent) and a novel complex allele p.[(R152*; V2050L)]. In one third (31/92) of our cohort we detected the p.[(L541P; A1038V)] complex allele, which represents an unusually high level of genetic homogeneity for ABCA4-related diseases. Causative ABCA4 mutations account for 79% of STGD and 31% of CRD cases. A combination of p.[(L541P; A1038V)] and/or a truncating ABCA4 mutation always resulted in an early disease onset. Identification of ABCA4 retinopathies provides a specific molecular diagnosis and justifies a prompt introduction of simple precautions that may slow disease progression. The comprehensive, population-specific study expands our knowledge on the genetic landscape of retinal diseases. PMID:26593885

  9. Distributed multi-frequency image reconstruction for radio-interferometry

    CERN Document Server

    Deguignet, Jérémy; Mary, David; Ferrari, Chiara

    2016-01-01

    The advent of enhanced technologies in radio interferometry and the perspective of the SKA telescope bring new challenges in image reconstruction. One of these challenges is the spatio-spectral reconstruction of large (Terabytes) data cubes with high fidelity. This contribution proposes an alternative implementation of one such 3D prototype algorithm, MUFFIN (MUlti-Frequency image reconstruction For radio INterferometry), which combines spatial and spectral analysis priors. Using a recently proposed primal dual algorithm, this new version of MUFFIN allows a parallel implementation where computationally intensive steps are split by spectral channels. This parallelization allows to implement computationally demanding translation invariant wavelet transforms (IUWT), as opposed to the union of bases used previously. This alternative implementation is important as it opens the possibility of comparing these efficient dictionaries, and others, in spatio-spectral reconstruction. Numerical results show that the IUWT-...

  10. Randomized algorithms for tracking distributed count, frequencies, and ranks

    DEFF Research Database (Denmark)

    Zengfeng, Huang; Ke, Yi; Zhang, Qin

    2012-01-01

    We show that randomization can lead to significant improvements for a few fundamental problems in distributed tracking. Our basis is the count-tracking problem, where there are k players, each holding a counter ni that gets incremented over time, and the goal is to track an ∑-approximation...... of their sum n=∑ini continuously at all times, using minimum communication. While the deterministic communication complexity of the problem is θ(k/ε • log N), where N is the final value of n when the tracking finishes, we show that with randomization, the communication cost can be reduced to θ(√k/ε • log N...

  11. Large-alphabet time-frequency entangled quantum key distribution by means of time-to-frequency conversion

    Science.gov (United States)

    Nunn, J.; Wright, L. J.; Söller, C.; Zhang, L.; Walmsley, I. A.; Smith, B. J.

    2013-07-01

    We introduce a novel time-frequency quantum key distribution (TFQKD) scheme based on photon pairs entangled in these two conjugate degrees of freedom. The scheme uses spectral detection and phase modulation to enable measurements in the temporal basis by means of time-to-frequency conversion. This allows large-alphabet encoding to be implemented with realistic components. A general security analysis for TFQKD with binned measurements reveals a close connection with finite-dimensional QKD protocols and enables analysis of the effects of dark counts on the secure key size.

  12. Allelic variations in Glu-1 and Glu-3 loci of historical and modern Iranian bread wheat (Triticum aestivum L.) cultivars

    Indian Academy of Sciences (India)

    Ali Izadi-Darbandi; Bahman Yazdi-Samadi; Ali-Akbar Su-Boushehri; Mohsen Mohammadi

    2010-08-01

    Proline and glutamine-rich wheat seed endosperm proteins are collectively referred to as prolamins. They are comprised of HMW-GSs, LMW-GSs and gliadins. HMW-GSs are major determinants of gluten elasticity and LMW-GSs considerably affect dough extensibility and maximum dough resistance. The inheritance of glutenin subunits follows Mendelian genetics with multiple alleles in each locus. Identification of the banding patterns of glutenin subunits could be used as an estimate for screening high quality wheat germplasm. Here, by means of a two-step 1D-SDS-PAGE procedure, we identified the allelic variations in high and low-molecular-weight glutenin subunits in 65 hexaploid wheat (Triticum aestivum L.) cultivars representing a historical trend in the cultivars introduced or released in Iran from the years 1940 to 1990. Distinct alleles 17 and 19 were detected for Glu-1 and Glu-3 loci, respectively. The allelic frequencies at the Glu-1 loci demonstrated unimodal distributions. At Glu-A1, Glu-B1 and Glu-D1, we found that the most frequent alleles were the null, 7 + 8, 2 + 12 alleles, respectively, in Iranian wheat cultivars. In contrast, Glu-3 loci showed bimodal or trimodal distributions. At Glu-A3, the most frequent alleles were c and e. At Glu-B3 the most frequent alleles were a, b and c. At Glu-D3 locus, the alleles b and a, were the most and the second most frequent alleles in Iranian wheat cultivars. This led to a significantly higher Nei coefficient of genetic variations in Glu-3 loci (0.756) as compared to Glu-1 loci (0.547). At Glu-3 loci, we observed relatively high quality alleles in Glu-A3 and Glu-D3 loci and low quality alleles at Glu-B3 locus.

  13. Frequency distribution words for semester curriculum Department of Russian language University of Guilan

    OpenAIRE

    Golandam A.

    2012-01-01

    The article deals with the theory of a frequency distribution of words by semester curriculum Russian Language Department University of Gilan (Iran). The description of the work, as well as the scope of its use.

  14. Algorithms for Blind Components Separation and Extraction from the Time-Frequency Distribution of Their Mixture

    OpenAIRE

    Abed-Meraim K; Barkat B

    2004-01-01

    We propose novel algorithms to select and extract separately all the components, using the time-frequency distribution (TFD), of a given multicomponent frequency-modulated (FM) signal. These algorithms do not use any a priori information about the various components. However, their performances highly depend on the cross-terms suppression ability and high time-frequency resolution of the considered TFD. To illustrate the usefulness of the proposed algorithms, we applied them for the estimati...

  15. Finite Time Control for Fractional Order Nonlinear Hydroturbine Governing System via Frequency Distributed Model

    OpenAIRE

    Bin Wang; Lin Yin; Shaojie Wang; Shirui Miao; Tantan Du; Chao Zuo

    2016-01-01

    This paper studies the application of frequency distributed model for finite time control of a fractional order nonlinear hydroturbine governing system (HGS). Firstly, the mathematical model of HGS with external random disturbances is introduced. Secondly, a novel terminal sliding surface is proposed and its stability to origin is proved based on the frequency distributed model and Lyapunov stability theory. Furthermore, based on finite time stability and sliding mode control theory, a robust...

  16. Investigation of Dual Radio-Frequency Driven Sheaths and Ion Energy Distributions Bombarding an Insulating Substrate

    Institute of Scientific and Technical Information of China (English)

    WANG Li-Hong; DAI Zhong-Ling; WANG Yu-Nian

    2006-01-01

    @@ Dual radio-frequency (rf) sources at widely different frequencies are often simultaneously used to separately optimize the plasma parameters and ion energy distributions (IEDs) incident onto a substrate. Characteristics of collisionless dual rf biased-sheaths and IEDs impinging on an insulating substrate are studied with a self consistent one-dimensional fluid model.

  17. Secondary Frequency and Voltage Control of Islanded Microgrids via Distributed Averaging

    DEFF Research Database (Denmark)

    W. Simpson-Porco, John; Shafiee, Qobad; Dorfler, Florian;

    2015-01-01

    actions. The frequency controller rapidly regulates the microgrid frequency to its nominal value while maintaining active power sharing among the distributed generators. Tuning of the voltage controller provides a simple and intuitive trade-off between the conflicting goals of voltage regulation and...

  18. Daris, a low-frequency distributed aperture array for radio astronomy in space

    NARCIS (Netherlands)

    Boonstra, A.J.; Saks, N.; Bentum, M.J.; Klooster, van 't K.; Falcke, H.

    2010-01-01

    DARIS (Distributed Aperture Array for Radio Astronomy in Space) is a radio astronomy space mission concept aimed at observing the low-frequency radio sky in the range 1-10 MHz. Because of the Earth's ionospheric disturbances and opaqueness, this frequency range can only be observed from space. The a

  19. Frequency distributions of helminths of wolves in Kazakhstan.

    Science.gov (United States)

    Abdybekova, A M; Torgerson, P R

    2012-03-23

    Between 2001 and 2008 a total of 41 wolves (Canis lupus) were necropsied in southern Kazakhstan and their intestinal parasite fauna evaluated. Of these animals 8 (19.5%) were infected with Echinococcus granulosus, 15 (36%) with Taenia spp, 13 (31.7%) with Dypilidium caninum, 5 (12.2%) with Mesocestoides lineatus, 15 (36.6%) with Toxocara canis, 16 (39%) with Toxascaris leonina, 8 (19.5%) with Trichuris vulpis, 9 (22%) with Macracanthorhynchus catulinus and 1 (2.4%) with Moniliformis moniliformis. All parasites had an aggregated distribution which followed a zero inflated or hurdle model. Although a small convenience sample of wolves, the results indicate a high prevalence of infection with E. granulosus. The mean abundance (1275 E. granulosus per wolf) was high with individual infected wolves carrying intensities of several thousand parasites. As wolves are common in Kazakhstan they may act as an important host in the transmission of this zoonotic parasite. The wolves were sampled from an area of Kazakhstan where there is a high prevalence of hydatid cysts in livestock and where echinococcosis has been observed in wild ungulates. PMID:21962968

  20. Velocity Distribution of Effective Atoms in a Small Optically Pumped Cesium Beam Frequency Standard

    Institute of Scientific and Technical Information of China (English)

    CHEN Jingbiao; WANG Fengzhi; YANG Donghai; WANG YiQiu

    2001-01-01

    In this paper, the velocity distribution of effective atoms in a small optically pumped cesium beam frequency standard has been achieved from the Fourier transforms of the experimentally recorded Ramsey patterns. The result fits well with the theoretical calculation. The second order Doppler shift correction of the small cesium atomic clock is obtained from the velocity distribution of effective atoms.

  1. [Features of the distribution of alleles of the HLA-DRB1 04 and HLA-DQB1 03 genes among healthy people of European origin in Western Siberia].

    Science.gov (United States)

    Sartakova, M L; Konenkov, V I; Kimura, A

    1993-04-01

    The allelic HLA-DRB1 04 and HLA-DQB1 03 polymorphism in caucasians living among the West Siberia Mongoloid aborigenes was studied. As a result of our studies, it was shown that the HLA-DRB1 0403/07 predominates and HLA-DRB1 0404/08 is absent in the Russian population of West Siberia, in contrast to those among Caucasians living in West Europe and North America. The frequencies of HLA-DQB1 03 alleles are similar to those observed among the all Caucasians. Gametic association HLA-DR4 - HLA-DQw was found for the first time in Caucasians of West Siberia. PMID:8354474

  2. The frequency-area distribution of volcanic units on Venus: Implications for planetary resurfacing

    OpenAIRE

    Romeo Briones, Ignacio; Turcotte, Donald L.

    2009-01-01

    The areas of volcanic units on Venus have been measured on the 1:5000000 geological maps published by NASA/USGS. These data were used to obtain a frequency-area distribution. The cumulative frequency-area distribution of 1544 specific occurrence of units cover six orders of magnitude from the largest unit (30 106 km2) to the smallest (20 km2). The probability distribution function has been calculated. The medium and large volcanic units correlate well with a power-law (fractal) r...

  3. Coastal waters monitoring data: frequency distributions of the principal water quality variables

    OpenAIRE

    Di Lorenzo, Bianca; Maria Grazia FINOIA; Marina AMORI; Russo, Simone; Giovanardi, Franco

    2006-01-01

    Examining the results of the Italian national programme of marine coastal monitoring, the old problem has arisen about the choice of the most appropriate procedures and methods to validate data and screen preliminary data. Therefore, statistical distributions of water quality parameters have been taken into consideration, in order to assign appropriate frequency distributions to all the routinely measured variables. Each sample distribution has been analysed and defined by a probability densi...

  4. Changes in allelic frequency over time in European bread wheat (Triticum aestivum L.) varieties revealed using DArT and SSR markers

    DEFF Research Database (Denmark)

    Orabi, Jihad; Jahoor, Ahmed; Backes, Gunter Martin

    2014-01-01

    A collection of 189 bread wheat landraces and cultivars, primarily of European origin, released between 1886 and 2009, was analyzed using two DNA marker systems. A set of 76 SSR markers and ~7,000 DArT markers distributed across the wheat genome were employed in these analyses. All of the SSR mar...

  5. Distribution of Voltage-Gated Sodium Channel (Nav) Alleles among the Aedes aegypti Populations In Central Java Province and Its Association with Resistance to Pyrethroid Insecticides

    Science.gov (United States)

    Sayono, Sayono; Hidayati, Anggie Puspa Nur; Fahri, Sukmal; Sumanto, Didik; Dharmana, Edi; Hadisaputro, Suharyo; Asih, Puji Budi Setia; Syafruddin, Din

    2016-01-01

    The emergence of insecticide resistant Aedes aegypti mosquitoes has hampered dengue control efforts. WHO susceptibility tests, using several pyrethroid compounds, were conducted on Ae. aegypti larvae that were collected and raised to adulthood from Semarang, Surakarta, Kudus and Jepara in Java. The AaNaV gene fragment encompassing kdr polymorphic sites from both susceptible and resistant mosquitoes was amplified, and polymorphisms were associated with the resistant phenotype. The insecticide susceptibility tests demonstrated Ae, aegypti resistance to the pyrethroids, with mortality rates ranging from 1.6%–15.2%. Three non-synonymous polymorphisms (S989P, V1016G and F1534C) and one synonymous polymorphism (codon 982) were detected in the AaNaV gene. Eight AaNaV alleles were observed in specimens from Central Java. Allele 3 (SGF) and allele 7 (PGF) represent the most common alleles found and demonstrated strong associations with resistance to pyrethroids (OR = 2.75, CI: 0.97–7.8 and OR = 7.37, CI: 2.4–22.5, respectively). This is the first report of 8 Ae. aegypti AaNaV alleles, and it indicates the development of resistance in Ae. aegypti in response to pyrethroid insecticide-based selective pressure. These findings strongly suggest the need for an appropriate integrated use of insecticides in the region. The 989P, 1016G and 1534C polymorphisms in the AaNaV gene are potentially valuable molecular markers for pyrethroid insecticide resistance monitoring. PMID:26939002

  6. A strategy to discover genes that carry multi-allelic or mono-allelic risk for common diseases: A cohort allelic sums test (CAST)

    International Nuclear Information System (INIS)

    A method is described to discover if a gene carries one or more allelic mutations that confer risk for any specified common disease. The method does not depend upon genetic linkage of risk-conferring mutations to high frequency genetic markers such as single nucleotide polymorphisms. Instead, the sums of allelic mutation frequencies in case and control cohorts are determined and a statistical test is applied to discover if the difference in these sums is greater than would be expected by chance. A statistical model is presented that defines the ability of such tests to detect significant gene-disease relationships as a function of case and control cohort sizes and key confounding variables: zygosity and genicity, environmental risk factors, errors in diagnosis, limits to mutant detection, linkage of neutral and risk-conferring mutations, ethnic diversity in the general population and the expectation that among all exonic mutants in the human genome greater than 90% will be neutral with regard to any effect on disease risk. Means to test the null hypothesis for, and determine the statistical power of, each test are provided. For this 'cohort allelic sums test' or 'CAST', the statistical model and test are provided as an Excel (TM) program, CASTAT (C) at http://epidemiology.mit.edu. Based on genetics, technology and statistics, a strategy of enumerating the mutant alleles carried in the exons and splice sites of the estimated ∼25,000 human genes in case cohort samples of 10,000 persons for each of 100 common diseases is proposed and evaluated: A wide range of possible conditions of multi-allelic or mono-allelic and monogenic, multigenic or polygenic (including epistatic) risk are found to be detectable using the statistical criteria of 1 or 10 ''false positive'' gene associations per 25,000 gene-disease pair-wise trials and a statistical power of >0.8. Using estimates of the distribution of both neutral and gene-inactivating nondeleterious mutations in humans and

  7. Estimating the age of alleles by use of intraallelic variability

    Energy Technology Data Exchange (ETDEWEB)

    Slatkin, M.; Rannala, B. [Univ of California, Berkeley, CA (United States)

    1997-02-01

    A method is presented for estimating the age of an allele by use of its frequency and the extent of variation among different copies. The method uses the joint distribution of the number of copies in a population sample and the coalescence times of the intraallelic gene genealogy conditioned on the number of copies. The linear birth-death process is used to approximate the dynamics of a rare allele in a finite population. A maximum-likelihood estimate of the age of the allele is obtained by Monte Carlo integration over the coalescence times. The method is applied to two alleles at the cystic fibrosis (CFTR) locus, {Delta}F508 and G542X, for which intraallelic variability at three intronic microsatellite loci has been examined. Our results indicate that G542X is somewhat older than {Delta}F508. Although absolute estimates depend on the mutation rates at the microsatellite loci, our results support the hypothesis that {Delta}F508 arose <500 generations ({approx}10,000 years) ago. 32 refs., 4 figs.

  8. Estimating the flood frequency distribution at seasonal and annual time scale

    Directory of Open Access Journals (Sweden)

    E. Baratti

    2012-06-01

    Full Text Available We propose an original approach to infer the flood frequency distribution at seasonal and annual time scale. Our purpose is to estimate the peak flow that is expected for an assigned return period T, independently of the season in which it occurs (i.e. annual flood frequency regime, as well as in different selected sub-yearly periods (i.e. seasonal flood frequency regime. While a huge literature exists on annual flood frequency analysis, few studies have focused on the estimation of seasonal flood frequencies despite the relevance of the issue, for instance when scheduling along the months of the year the construction phases of river engineering works directly interacting with the active river bed, like for instance dams. An approximate method for joint frequency analysis is presented here that guarantees consistency between fitted annual and seasonal distributions, i.e. the annual cumulative distribution is the product of the seasonal cumulative distribution functions, under the assumption of independence among floods in different seasons. In our method the parameters of the seasonal frequency distributions are fitted by maximising an objective function that accounts for the likelihoods of both seasonal and annual peaks. Differently from previous studies, our procedure is conceived to allow the users to introduce subjective weights to the components of the objective function in order to emphasize the fitting of specific seasons or of the annual peak flow distribution. An application to the time series of the Blue Nile daily flows at Sudan-Ethiopia border is presented.

  9. Estimating the flood frequency distribution at seasonal and annual time scales

    Directory of Open Access Journals (Sweden)

    E. Baratti

    2012-12-01

    Full Text Available We propose an original approach to infer the flood frequency distribution at seasonal and annual time scale. Our purpose is to estimate the peak flow that is expected for an assigned return period T, independently of the season in which it occurs (i.e. annual flood frequency regime, as well as in different selected sub-yearly periods (i.e. seasonal flood frequency regime. While a huge literature exists on annual flood frequency analysis, few studies have focused on the estimation of seasonal flood frequencies despite the relevance of the issue, for instance when scheduling along the months of the year the construction phases of river engineering works directly interacting with the active river bed, like for instance dams. An approximate method for joint frequency analysis is presented here that guarantees consistency between fitted annual and seasonal distributions, i.e. the annual cumulative distribution is the product of the seasonal cumulative distribution functions, under the assumption of independence among floods in different seasons. In our method the parameters of the seasonal frequency distributions are fitted by maximising an objective function that accounts for the likelihoods of both seasonal and annual peaks. In contrast to previous studies, our procedure is conceived to allow the users to introduce subjective weights to the components of the objective function in order to emphasize the fitting of specific seasons or of the annual peak flow distribution. An application to the time series of the Blue Nile daily flows at the Sudan–Ethiopia border is presented.

  10. Bonus-Malus System with the Claim Frequency Distribution is Geometric and the Severity Distribution is Truncated Weibull

    Science.gov (United States)

    Santi, D. N.; Purnaba, I. G. P.; Mangku, I. W.

    2016-01-01

    Bonus-Malus system is said to be optimal if it is financially balanced for insurance companies and fair for policyholders. Previous research about Bonus-Malus system concern with the determination of the risk premium which applied to all of the severity that guaranteed by the insurance company. In fact, not all of the severity that proposed by policyholder may be covered by insurance company. When the insurance company sets a maximum bound of the severity incurred, so it is necessary to modify the model of the severity distribution into the severity bound distribution. In this paper, optimal Bonus-Malus system is compound of claim frequency component has geometric distribution and severity component has truncated Weibull distribution is discussed. The number of claims considered to follow a Poisson distribution, and the expected number λ is exponentially distributed, so the number of claims has a geometric distribution. The severity with a given parameter θ is considered to have a truncated exponential distribution is modelled using the Levy distribution, so the severity have a truncated Weibull distribution.

  11. Multilocus Inherited Neoplasia Alleles Syndrome

    DEFF Research Database (Denmark)

    Whitworth, James; Skytte, Anne-Bine; Sunde, Lone; Lim, Derek H; Arends, Mark J; Happerfield, Lisa; Frayling, Ian M; van Minkelen, Rick; Woodward, Emma R; Tischkowitz, Marc D; Maher, Eamonn R

    Mendelian causes of inherited cancer susceptibility are mostly rare and characterized by variable expression and incomplete penetrance. Phenotypic variability may result from a range of causes including locus heterogeneity, allelic heterogeneity, genetic and environmental modifier effects, or...... chance. Another potential cause is the presence of 2 or more inherited cancer predisposition alleles in the same individual. Although the frequency of such occurrences might be predicted to be low, such cases have probably been underascertained because standard clinical practice has been to test...... candidate inherited cancer genes sequentially until a pathogenic mutation is detected. However, recent advances in next-generation sequencing technologies now provide the opportunity to perform simultaneous parallel testing of large numbers of inherited cancer genes. Herein we provide examples of patients...

  12. NEW TECHNOLOGY FOR FAULT DIAGNOSIS BASED ON WAVELET DENOISING AND MODIFIED EXPONENTIAL TIME-FREQUENCY DISTRIBUTION

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Fast wavelet multi-resolution analysis (wavelet MRk)provides a effective tool for analyzing and canceling disturbing components in original signal. Because of its exponential frequency axis, this method isn't suitable for extracting harmonic components. The modified exponential time-frequency distribution(MED)overcomes the problems of Wigner distribution(WD), can suppress cross-terms and cancel noise further more. MED provides high resolution in both time and frequency domains, so it can make out weak period impulse components from signal with mighty harmonic components. According to the "time" behavior, together with "frequency" behavior in one figure, the essential structure of a signal is revealed clearly. According to the analysis of algorithm and fault diagnosis example, the joint of wavelet MRA and MED is a powerful tool for fault diagnosis.

  13. Frequency of three Hex A mutant alleles among Jewish and non-Jewish carriers identified in a Tay-Sachs screening program.

    OpenAIRE

    Paw, B H; Tieu, P T; Kaback, M M; Lim, J; Neufeld, E F

    1990-01-01

    Mutations in the HEX A gene, encoding the alpha-subunit of beta-hexosaminidase A (Hex A), are the cause of Tay-Sachs disease as well as of juvenile, chronic, and adult GM2 gangliosidoses. We have examined the distribution of three mutations--a 4-nucleotide insertion in exon 11, a G----C transversion at a 5' splice site in intron 12, and a 269Gly----Ser amino acid substitution in exon 7--among individuals enzymatically diagnosed as carriers of Hex A deficiency. Mutation analysis included polym...

  14. Inferring the flood frequency distribution for an ungauged basin using a spatially distributed rainfall-runoff model

    Directory of Open Access Journals (Sweden)

    G. Moretti

    2008-08-01

    Full Text Available The estimation of the peak river flow for ungauged river sections is a topical issue in applied hydrology. Spatially distributed rainfall-runoff models can be a useful tool to this end, since they are potentially able to simulate the river flow at any location of the watershed drainage network. However, it is not fully clear to what extent these models can provide reliable simulations over a wide range of spatial scales. This issue is investigated here by applying a spatially distributed, continuous simulation rainfall-runoff model to infer the flood frequency distribution of the Riarbero River. This is an ungauged mountain creek located in northern Italy, whose drainage area is 17 km2. The hydrological model is first calibrated by using a 1-year record of hourly meteorological data and river flows observed at the outlet of the 1294 km2 wide Secchia River basin, of which the Riarbero is a tributary. The model is then validated by performing a 100-year long simulation of synthetic river flow data, which allowed us to compare the simulated and observed flood frequency distributions at the Secchia River outlet and the internal cross river section of Cavola Bridge, where the basin area is 337 km2. Finally, another simulation of hourly river flows was performed by referring to the outlet of the Riarbero River, therefore allowing us to estimate the related flood frequency distribution. The results were validated by using estimates of peak river flow obtained by applying hydrological similarity principles and a regional method. The results show that the flood flow estimated through the application of the distributed model is consistent with the estimate provided by the regional procedure as well as the behaviors of the river banks. Conversely, the method based on hydrological similarity delivers an estimate that seems to be not as reliable. The analysis highlights interesting perspectives for the application of

  15. Application of Choi—Williams Reduced Interference Time Frequency Distribution to Machinery Diagnostics

    Directory of Open Access Journals (Sweden)

    Howard A. Gaberson

    1995-01-01

    Full Text Available This article discusses time frequency analysis of machinery diagnostic vibration signals. The short time Fourier transform, the Wigner, and the Choi–Williams distributions are explained and illustrated with test cases. Examples of Choi—Williams analyses of machinery vibration signals are presented. The analyses detect discontinuities in the signals and their timing, amplitude and frequency modulation, and the presence of different components in a vibration signal.

  16. Effect on Stratum Gradient Frequency Distribution of Landslides in the Three Gorges Area of Northeast Chongqing

    Institute of Scientific and Technical Information of China (English)

    FAN Xiaoyi; QIAO Jianping

    2006-01-01

    The landslide data were calculated in the Three Gorges Area of northeast Chongqing. The results showed that landslide frequency distributions of gradients accorded with the Weibull probability density distribution function. The landslide hazard ratios of gradients were acquired by Weibull accumulation probability distribution function in the different geological units. There was discord between landslide hazard ratio of different geological units and variance of landslide gradient. But they were approximate homology in the strata of Jurassic. The results indicate that the Weibull distribution can quantitatively evaluate the landslide hazard ratios of gradients of the different strata in the Three Gorges Area.

  17. Distributed feedback terahertz frequency quantum cascade lasers with dual periodicity gratings

    International Nuclear Information System (INIS)

    We have developed terahertz frequency quantum cascade lasers that exploit a double-periodicity distributed feedback grating to control the emission frequency and the output beam direction independently. The spatial refractive index modulation of the gratings necessary to provide optical feedback at a fixed frequency, and simultaneously, a far-field emission pattern centered at controlled angles, was designed through use of an appropriate wavevector scattering model. Single mode terahertz (THz) emission at angles tuned by design between 0° and 50° was realized, leading to an original phase-matching approach for highly collimated THz quantum cascade lasers

  18. Distributed feedback terahertz frequency quantum cascade lasers with dual periodicity gratings

    CERN Document Server

    Castellano, F; Li, L H; Pitanti, A; Tredicucci, A; Linfield, E H; Davies, A G; Vitiello, M S

    2016-01-01

    We have developed terahertz frequency quantum cascade lasers that exploit a double-periodicity distributed feedback grating to control the emission frequency and the output beam direction independently. The spatial refractive index modulation of the gratings necessary to provide optical feedback at a fixed frequency and, simultaneously, a far-field emission pattern centered at controlled angles, was designed through use of an appropriate wavevector scattering model. Single mode THz emission at angles tuned by design between 0{\\deg} and 50{\\deg} was realized, leading to an original phase-matching approach, lithographically independent, for highly collimated THz QCLs.

  19. Finite Time Control for Fractional Order Nonlinear Hydroturbine Governing System via Frequency Distributed Model

    Directory of Open Access Journals (Sweden)

    Bin Wang

    2016-01-01

    Full Text Available This paper studies the application of frequency distributed model for finite time control of a fractional order nonlinear hydroturbine governing system (HGS. Firstly, the mathematical model of HGS with external random disturbances is introduced. Secondly, a novel terminal sliding surface is proposed and its stability to origin is proved based on the frequency distributed model and Lyapunov stability theory. Furthermore, based on finite time stability and sliding mode control theory, a robust control law to ensure the occurrence of the sliding motion in a finite time is designed for stabilization of the fractional order HGS. Finally, simulation results show the effectiveness and robustness of the proposed scheme.

  20. Beyond word frequency: Bursts, lulls, and scaling in the temporal distributions of words

    CERN Document Server

    Altmann, Eduardo G; Motter, Adilson E

    2009-01-01

    Zipf's discovery that word frequency distributions obey a power law established parallels between biological and physical processes, and language, laying the groundwork for a complex systems perspective on human communication. By considering frequent words in USENET discussion groups and in disparate databases where the language has different levels of formality, here we show that the distributions of distances between successive occurrences of the same word display bursty deviations from a Poisson distribution and are well characterized by a stretched exponential scaling. The extent of this deviation depends strongly on semantic type - a measure of the abstractness of eachword - and only weakly on frequency. We develop a generative model of this behavior, deriving the stretched exponential distribution of recurrence times as a new empirical scaling law that cannot be anticipated from Zipf's law. Our analysis not merely describes deviations from a simple bag-of-words model, it accounts for differential deviat...

  1. Robustness of time frequency distribution based features for automated neonatal EEG seizure detection.

    Science.gov (United States)

    Nagaraj, S B; Stevenson, N J; Marnane, W P; Boylan, G B; Lightbody, G

    2014-01-01

    In this paper we examined the robustness of a feature-set based on time-frequency distributions (TFDs) for neonatal EEG seizure detection. This feature-set was originally proposed in literature for neonatal seizure detection using a support vector machine (SVM). We tested the performance of this feature-set with a smoothed Wigner-Ville distribution and modified B distribution as the underlying TFDs. The seizure detection system using time-frequency signal and image processing features from the TFD of the EEG signal using modified B distribution was able to achieve a median receiver operator characteristic area of 0.96 (IQR 0.91-0.98) tested on a large clinical dataset of 826 h of EEG data from 18 full-term newborns with 1389 seizures. The mean AUC was 0.93. PMID:25570580

  2. Universal spectrum for DNA base CG frequency distribution in Takifugu rubripes (Puffer fish) genome

    CERN Document Server

    Selvam, A M

    2007-01-01

    The frequency distribution of DNA bases A, C, G, T exhibit fractal fluctuations, namely a zigzag pattern of an increase followed by a decrease of all orders of magnitude along the length of the DNA molecule. Selfsimilar fractal fluctuations are ubiquitous to space-time fluctuations of dynamical systems in nature. The power spectra of fractal fluctuations exhibit inverse power law form signifying long-range space-time correlations such that there is two-way communication between local (small-scale) and global (large-scale) perturbations. In this paper it is shown that DNA base CG frequency distribution in Takifugu rubripes (Puffer fish) Genome Release 4 exhibit universal inverse power law form of the statistical normal distribution consistent with a general systems theory model prediction of quantumlike chaos governing fractal space-time distributions. The model predictions are (i) quasicrystalline Penrose tiling pattern for the nested coiled structure thereby achieving maximum packing efficiency for the DNA m...

  3. On the existence of hysteresis in the Kuramoto model with bimodal frequency distributions

    OpenAIRE

    Montbrió, Ernest; Pazó, Diego

    2009-01-01

    We investigate the transition to synchronization in the Kuramoto model with bimodal distributions of the natural frequencies. Previous studies have concluded that the model exhibits a hysteretic phase transition if the bimodal distribution is close to a unimodal one, due to the shallowness the central dip. Here we show that proximity to the unimodal-bimodal border does not necessarily imply hysteresis when the width, but not the depth, of the central dip tends to zero. We draw this conclusio...

  4. Existence of hysteresis in the Kuramoto model with bimodal frequency distributions

    OpenAIRE

    Pazó, Diego; Montbrió, Ernest

    2009-01-01

    We investigate the transition to synchronization in the Kuramoto model with bimodal distributions of the natural frequencies. Previous studies have concluded that the model exhibits a hysteretic phase transition if the bimodal distribution is close to a unimodal one, due to the shallowness the central dip. Here we show that proximity to the unimodal-bimodal border does not necessarily imply hysteresis when the width, but not the depth, of the central dip tends to zero. We draw this conclusion...

  5. Frequency distribution of TATA Box and extension sequences on human promoters

    OpenAIRE

    2006-01-01

    Background TATA box is one of the most important transcription factor binding sites. But the exact sequences of TATA box are still not very clear. Results In this study, we conduct a dedicated analysis on the frequency distribution of TATA Box and its extension sequences on human promoters. Sixteen TATA elements derived from the TATA Box motif, TATAWAWN, are classified into three distribution patterns: peak, bottom-peak, and bottom. Fourteen TATA extension sequences are predicted to be the ne...

  6. Simulation of multi-frequency EPR spectra for a distribution of the zero-field splitting

    Science.gov (United States)

    Azarkh, Mykhailo; Groenen, Edgar J. J.

    2015-06-01

    We present a numerical procedure called 'grid-of-errors' to extract the distribution of magnetic interactions from continuous-wave electron-paramagnetic-resonance (EPR) spectra at multiple microwave frequencies. The approach is based on the analysis of the lineshape of the spectra and explicitly worked out for high-spin systems for which the lineshape is determined by a distribution of the zero-field splitting. Initial principal values of the zero-field splitting tensor are obtained from the EPR spectrum at a microwave frequency in the high-field limit, and the initial distribution is taken Gaussian. Subsequently, the grid-of-errors procedure optimizes this distribution, without any restriction to its shape, taking into account spectra at various microwave frequencies. The numerical procedure is illustrated for the Fe(III)-EDTA complex. An optimized distribution of the zero-field splitting is obtained, which provides a proper description of the EPR spectra at 9.5, 34, 94, and 275 GHz. The proposed approach can be used as well for distributions of magnetic interactions other than the zero-field splitting.

  7. Nonexistence of cross-term free time-frequency distribution with concentration of Wigner-Ville distribution

    Institute of Scientific and Technical Information of China (English)

    邹红星; 卢旭光; 戴琼海; 李衍达

    2002-01-01

    Wigner-Ville distribution (WVD) is recognized as being a powerful tool and a nucleus in time-frequency representation (TFR) which gives an excellent time-frequency concentration, and more importantly, has many desirable properties. A major shortcoming of WVD is the inherent cross-term (CT) interference. Although solutions to this problem from the bulk of contributions to the literature concerning TFR are currently available, none has been able to completely eliminate the CT's in WVD. It is therefore a common belief that if there exists an auxiliary time-frequency distribution (TFD) which has the same auto-terms (AT's) as that in WVD, but has CT's with the opposite sign, then, by adding the auxiliary TFD to WVD, an ideal TFD, which preserves the concentration of WVD while annihilating the CT's, is readily obtained. However, we prove that the auxiliary TFD does not exist. Moreover, it is found that in general, CT free joint distributions with their concentrations close to that of WVD do not exist either.

  8. ESTIMATION OF CARRIER FREQUENCY OFFSETS FOR MIMO SYSTEMS WITH DISTRIBUTED TRANSMIT ANTENNAS

    Institute of Scientific and Technical Information of China (English)

    Deng Kai; Tang Youxi; Lei Xia; Li Shaoqian

    2007-01-01

    The problem of estimating the carrier frequency offsets in Multiple-Input Multiple-Output (MIMO) systems with distributed transmit antennas is addressed. It is supposed that the transmit antennas are distributed while the receive antennas are still centralized, and the general case where both the time delays and the frequency offsets are possibly different for each transmit antenna is considered. The channel is supposed to be frequency flat, and the macroscopic fading is also taken into consideration. A carrier frequency offset estimator based on Maximum Likelihood (ML) is proposed,which can separately estimate the frequency offset for each transmit antenna and exploit the spatial diversity. The Cramer-Rao Bound (CRB) for synchronous MIMO (i.e., the time delays for each transmit antenna are all equal) is also derived. Simulation results are given to illustrate the performance of the estimator and compare it with the CRB. It is shown that the estimator can provide satisfactory frequency offset estimates and its performance is close to the CRB for the Signal-to-Noise Ratio (SNR) below 20dB.

  9. Altered Crossover Distribution and Frequency in Spermatocytes of Infertile Men with Azoospermia.

    Science.gov (United States)

    Ren, He; Ferguson, Kyle; Kirkpatrick, Gordon; Vinning, Tanya; Chow, Victor; Ma, Sai

    2016-01-01

    During meiosis, homologous chromosomes pair to facilitate the exchange of DNA at crossover sites along the chromosomes. The frequency and distribution of crossover formation are tightly regulated to ensure the proper progression of meiosis. Using immunofluorescence techniques, our group and others have studied the meiotic proteins in spermatocytes of infertile men, showing that this population displays a reduced frequency of crossovers compared to fertile men. An insufficient number of crossovers is thought to promote chromosome missegregation, in which case the faulty cell may face meiotic arrest or contribute to the production of aneuploid sperm. Increasing evidence in model organisms has suggested that the distribution of crossovers may also be important for proper chromosome segregation. In normal males, crossovers are shown to be rare near centromeres and telomeres, while frequent in subtelomeric regions. Our study aims to characterize the crossover distribution in infertile men with non-obstructive (NOA) and obstructive azoospermia (OA) along chromosomes 13, 18 and 21. Eight of the 16 NOA men and five of the 21 OA men in our study displayed reduced crossover frequency compared to control fertile men. Seven NOA men and nine OA men showed altered crossover distributions on at least one of the chromosome arms studied compared to controls. We found that although both NOA and OA men displayed altered crossover distributions, NOA men may be at a higher risk of suffering both altered crossover frequencies and distributions compared to OA men. Our data also suggests that infertile men display an increase in crossover formation in regions where they are normally inhibited, specifically near centromeres and telomeres. Finally, we demonstrated a decrease in crossovers near subtelomeres, as well as increased average crossover distance to telomeres in infertile men. As telomere-guided mechanisms are speculated to play a role in crossover formation in subtelomeres, future

  10. Frequency-coded quantum key distribution using amplitude-phase modulation

    Science.gov (United States)

    Morozov, Oleg G.; Gabdulkhakov, Il'daris M.; Morozov, Gennady A.; Zagrieva, Aida R.; Sarvarova, Lutsia M.

    2016-03-01

    Design principals of universal microwave photonics system for quantum key distribution with frequency coding are concerned. Its concept is based on the possibility of creating the multi-functional units to implement the most commonly used technologies of frequency coding: amplitude, phase and combined amplitude-phase modulation and re-modulation of optical carrier. The characteristics of advanced systems based on classical approaches and prospects of their development using a combination of amplitude modulation and phase commutation are discussed. These are the valuations how to build advanced systems with frequency coding quantum key distribution, including at their symmetric and asymmetric constructions, using of the mechanisms of the photon polarization states passive detection, based on the filters for wavelength division multiplexing of modulated optical carrier side components.

  11. Real-Time Analysis of an Active Distribution Network - Coordinated Frequency Control for Islanding Operation

    DEFF Research Database (Denmark)

    Cha, Seung-Tae

    regulation performance is highly improved with fuzzy logic control (FLC) when the system enters into islanding operation. Lastly, an intelligent multi-agent based secondary frequency control strategy for the islanding operation of ADN is proposed. A complete software-in-the-loop (SIL) simula-tion is carried...... out and optimization of the parameters of the secondary controller is achieved in a simple manner through the effective application of particle swarm optimi-zation (PSO) technique. Simulation results show that the proposed multi-agent based secondary frequency control strategy performs well...... is constructed using the real-time digital simulator (RTDS). The resulting model is capable of performing dynamic simulations of the islanded Bornholm distribution system to investigate the frequency regulation performance. In addition, a generic model of Born-holm distribution system is constructed, which can...

  12. Synchronization of the Kuramoto model on the complex networks with bimodal intrinsic frequency distribution

    Directory of Open Access Journals (Sweden)

    N Khodadoostan

    2014-11-01

    Full Text Available In this work, we study the Kuramoto model on scale-free, random and small-world networks with bimodal intrinsic frequency distributions. We consider two models: in one of them, the coupling constant of the ith oscillator is independent of the number of oscillators with which the oscillator interacts, and in the other one the coupling constant is renormalized with the number of oscillators with which the oscillator interacts. For the first model, the time which is required for reaching the stationary state is more than the time which is needed in the second one. Also, for both models the order parameter of the random and scale-free network decreases by increasing the intrinsic frequency with a bimodal distribution. Unlike scale-free and random networks, the order parameter of the small-world network increases by increasing the frequency at first. But later, it decreases and then starts to oscillate.

  13. Allele Workbench: transcriptome pipeline and interactive graphics for allele-specific expression.

    Directory of Open Access Journals (Sweden)

    Carol A Soderlund

    Full Text Available Sequencing the transcriptome can answer various questions such as determining the transcripts expressed in a given species for a specific tissue or condition, evaluating differential expression, discovering variants, and evaluating allele-specific expression. Differential expression evaluates the expression differences between different strains, tissues, and conditions. Allele-specific expression evaluates expression differences between parental alleles. Both differential expression and allele-specific expression have been studied for heterosis (hybrid vigor, where the hybrid has improved performance over the parents for one or more traits. The Allele Workbench software was developed for a heterosis study that evaluated allele-specific expression for a mouse F1 hybrid using libraries from multiple tissues with biological replicates. This software has been made into a distributable package, which includes a pipeline, a Java interface to build the database, and a Java interface for query and display of the results. The required input is a reference genome, annotation file, and one or more RNA-Seq libraries with optional replicates. It evaluates allelic imbalance at the SNP and transcript level and flags transcripts with significant opposite directional allele-specific expression. The Java interface allows the user to view data from libraries, replicates, genes, transcripts, exons, and variants, including queries on allele imbalance for selected libraries. To determine the impact of allele-specific SNPs on protein folding, variants are annotated with their effect (e.g., missense, and the parental protein sequences may be exported for protein folding analysis. The Allele Workbench processing results in transcript files and read counts that can be used as input to the previously published Transcriptome Computational Workbench, which has a new algorithm for determining a trimmed set of gene ontology terms. The software with demo files is available

  14. Application of range imaging lidar for measurement of mechanical vibration and frequency mode distribution

    Science.gov (United States)

    Zhang, Hua A.; Zhu, Yonghao; He, Yun

    1993-05-01

    This article reports the application of laser range imaging radar in the measurement of mechanical vibration frequency and the mode distribution, and the periodic motion of the mechanical parts such as a piston rod. The principle of the laser range imaging radar is based on the phase shift of the reflected amplitude modulated laser beam. The mechanical vibration frequency up to 20 KHZ and the minimal retrieved amplitude (or the motion displacement) of 0.5 mm have been achieved with the laser modulating frequency of 40 MHZ. With appropriate modulating frequency, this laser range system can measure the mechanical vibration amplitude, or the moving displacement, from 10-1 mm up to 102 mm, or even higher to the order of meters, which will be useful to measure the vibration and the periodic motion of machines and their parts for field test.

  15. Algorithms for Blind Components Separation and Extraction from the Time-Frequency Distribution of Their Mixture

    Directory of Open Access Journals (Sweden)

    B. Barkat

    2004-10-01

    Full Text Available We propose novel algorithms to select and extract separately all the components, using the time-frequency distribution (TFD, of a given multicomponent frequency-modulated (FM signal. These algorithms do not use any a priori information about the various components. However, their performances highly depend on the cross-terms suppression ability and high time-frequency resolution of the considered TFD. To illustrate the usefulness of the proposed algorithms, we applied them for the estimation of the instantaneous frequency coefficients of a multicomponent signal and the results are compared with those of the higher-order ambiguity function (HAF algorithm. Monte Carlo simulation results show the superiority of the proposed algorithms over the HAF.

  16. Algorithms for Blind Components Separation and Extraction from the Time-Frequency Distribution of Their Mixture

    Science.gov (United States)

    Barkat, B.; Abed-Meraim, K.

    2004-12-01

    We propose novel algorithms to select and extract separately all the components, using the time-frequency distribution (TFD), of a given multicomponent frequency-modulated (FM) signal. These algorithms do not use any a priori information about the various components. However, their performances highly depend on the cross-terms suppression ability and high time-frequency resolution of the considered TFD. To illustrate the usefulness of the proposed algorithms, we applied them for the estimation of the instantaneous frequency coefficients of a multicomponent signal and the results are compared with those of the higher-order ambiguity function (HAF) algorithm. Monte Carlo simulation results show the superiority of the proposed algorithms over the HAF.

  17. Electron energy distributions and excitation rates in high-frequency argon discharges

    International Nuclear Information System (INIS)

    The electron energy distribution functions and rate coefficients for excitation and ionisation in argon under the action of an uniform high-frequency electric field were calculated by numerically solving the homogeneous Boltzmann equation. Analytic calculations in the limiting cases ω>>νsub(c) and ω<<νsub(c), where ω is the wave angular frequency and νsub(c) is the electron-neutral collision frequency for momentum transfer, are also presented and shown to be in very good agreement with the numerical computations. The results reported here are relevant for the modelling of high-frequency discharges in argon and, in particular, for improving recent theoretical descriptions of a plasma column sustained by surface microwaves. The properties of surface wave produced plasmas make them interesting as possible substitutes for other more conventional plasma sources for such important applications as plasma chemistry laser excitation, plasma etching spectroscopic sources etc...

  18. Radiative equilibrium in Monte Carlo radiative transfer using frequency distribution adjustment

    CERN Document Server

    Baes, M; Davies, J I; Whitworth, A P; Sabatini, S; Roberts, S; Linder, S M; Evans, R; Baes, Maarten; Stamatellos, Dimitris; Davies, Jonathan I.; Whitworth, Anthony P.; Sabatini, Sabina; Roberts, Sarah; Linder, Suzanne M.; Evans, Rhodri

    2005-01-01

    The Monte Carlo method is a powerful tool for performing radiative equilibrium calculations, even in complex geometries. The main drawback of the standard Monte Carlo radiative equilibrium methods is that they require iteration, which makes them numerically very demanding. Bjorkman & Wood recently proposed a frequency distribution adjustment scheme, which allows radiative equilibrium Monte Carlo calculations to be performed without iteration, by choosing the frequency of each re-emitted photon such that it corrects for the incorrect spectrum of the previously re-emitted photons. Although the method appears to yield correct results, we argue that its theoretical basis is not completely transparent, and that it is not completely clear whether this technique is an exact rigorous method, or whether it is just a good and convenient approximation. We critically study the general problem of how an already sampled distribution can be adjusted to a new distribution by adding data points sampled from an adjustment ...

  19. Regional parent flood frequency distributions in Europe - Part 2: Climate and scale controls

    Science.gov (United States)

    Salinas, J. L.; Castellarin, A.; Kohnová, S.; Kjeldsen, T. R.

    2014-11-01

    This study aims to better understand the effect of catchment scale and climate on the statistical properties of regional flood frequency distributions. A database of L-moment ratios of annual maximum series (AMS) of peak discharges from Austria, Italy and Slovakia, involving a total of 813 catchments with more than 25 yr of record length is presented, together with mean annual precipitation (MAP) and basin area as catchment descriptors surrogates of climate and scale controls. A purely data-based investigation performed on the database shows that the generalized extreme value (GEV) distribution provides a better representation of the averaged sample L-moment ratios compared to the other distributions considered, for catchments with medium to higher values of MAP independently of catchment area, while the three-parameter lognormal distribution is probably a more appropriate choice for drier (lower MAP) intermediate-sized catchments, which presented higher skewness values. Sample L-moment ratios do not follow systematically any of the theoretical two-parameter distributions. In particular, the averaged values of L-coefficient of skewness (L-Cs) are always larger than Gumbel's fixed L-Cs. The results presented in this paper contribute to the progress in defining a set of "process-driven" pan-European flood frequency distributions and to assess possible effects of environmental change on its properties.

  20. Anthelmintic resistance in Swedish sheep flocks based on a comparison of the results from the faecal egg count reduction test and resistant allele frequencies of the beta-tubulin gene.

    Science.gov (United States)

    Höglund, Johan; Gustafsson, Katarina; Ljungström, Britt-Louise; Engström, Annie; Donnan, Alison; Skuce, Philip

    2009-04-01

    A faecal egg count reduction test (FECRT) survey was conducted during the grazing season 2006 and 2007 to provide an updated indication of the prevalence of anthelmintic resistance in sheep flocks in Sweden. A total of 1330 faecal samples from 90 flocks on 45 farms, with a minimum of 20 ewes each, was collected by local sheep veterinarians. Per treatment group, approximately 15 lambs were dewormed either with oral suspensions of ivermectin (Ivomec vet.) or albendazole (Valbazen vet.). The efficacy on each farm was investigated either in 2006 or 2007 by faecal egg counts collected on the day of treatment and in a new sample from the same animals 7-10 days later. Third-stage larvae (L3) were initially identified morphologically from pooled cultures. These were then used as the source of genomic DNA template for two molecular tests. The first was a PCR-based test for specific identification of Haemonchus contortus, and the second was a Pyrosequencing assay for the analysis of benzimidazole (BZ) resistance targeting the P200 mutation in the parasite's beta-tubulin gene. Larval cultures indicated that Teladorsagia and Trichostrongylus were the predominant genera, but Haemonchus was diagnosed in 37% of the flocks. The PCR results revealed an almost 100% agreement with those farms that had previously been shown to have Haemonchus present, even when the % prevalence was low (approximately 3%). Only two (4%) of the surveyed farms showed evidence of BZ-resistant worm populations, with H. contortus being the species implicated according to post-treatment larval culture results. The Pyrosequencing assay detected BZ resistant allele frequencies of >40% in the Haemonchus-positive farms and 100% resistant alleles in the clinically most resistant farms. These preliminary results suggest that the FECRT is less sensitive than the molecular test at detecting BZ resistance. However, both tests need to be interpreted carefully, bearing in mind the relative proportions of species

  1. Maximum-likelihood methods for array processing based on time-frequency distributions

    Science.gov (United States)

    Zhang, Yimin; Mu, Weifeng; Amin, Moeness G.

    1999-11-01

    This paper proposes a novel time-frequency maximum likelihood (t-f ML) method for direction-of-arrival (DOA) estimation for non- stationary signals, and compares this method with conventional maximum likelihood DOA estimation techniques. Time-frequency distributions localize the signal power in the time-frequency domain, and as such enhance the effective SNR, leading to improved DOA estimation. The localization of signals with different t-f signatures permits the division of the time-frequency domain into smaller regions, each contains fewer signals than those incident on the array. The reduction of the number of signals within different time-frequency regions not only reduces the required number of sensors, but also decreases the computational load in multi- dimensional optimizations. Compared to the recently proposed time- frequency MUSIC (t-f MUSIC), the proposed t-f ML method can be applied in coherent environments, without the need to perform any type of preprocessing that is subject to both array geometry and array aperture.

  2. Allelic diversity and haplotype frequencies of HLA-A,B,DRB1 loci in Tibet population of China%中国西藏藏族人群HLA-A/B/DRB1座位基因遗传多态性和单体型分析

    Institute of Scientific and Technical Information of China (English)

    刘孟黎; 齐珺; 沈春梅; 刘晟; 王小芳

    2011-01-01

    Objective To investigate the human leukocyte antigen(HLA)-A, B, DRB1 alleles and haplotype frequencies and the distribution characteristics in Tibet population of China. Methods HLA genotype data of 343 unrelated Tibetans were identified by PCR-SSO Luminex. HLA-A, B, DRB1 allele and haplotype frequencies were calculated by computer software named Arleguin which was based on Expectation-Maximization(EM) algorithms. Results 13,24 and 13 specificities of HLA alleles were identified on the HLA-A, B, and DRB1 loci, respectively. The most frequent alleles were A *02 (30.47%) ,A * 24 (29. 74% ), and A * 11 ( 12. 83% ) at the HLA-A locus, B* 51 ( 19. 68% ), B* 15 (62) ( 13. 41% ), and B* 40(61) (12. 54%) at the HLA-B locus and DRB1 *04(24.49% ) ,DRB1*08(17.49%) ,and DRB1 * 11(14.87% ) at HLA-DRB1 locus. There were significant differences in the most frequent allelic distribution of HLA-A, B, DRB1 between Tibetan and Ningxia Hui, Mongol and Han ethnics ( P = 0. 0000). A total of 247 kinds of HLA-A-B-DR haplotypes ( with a theoretical frequency of 32. 89% ), 113 kinds of HLA-A-B haplotypes,82 kinds of A-DR and 126 kinds for B-DR haplotypes were obtained,with a theoretical frequency of 60. 43% ,72. 57% and 64. 62%, respectively. HLA-A11-B15 (HF = 0. 15%,RLD = 100% ) ,A31-B75 ( HF = 0. 15%, RLD = 100% ) ,A3-B63 ( HF = 0. 15%, RLD = 100% ), B18-DR4 ( HF =0. 29%, RLD = 100% ), B15-DR4 ( HF = 0. 15%, RLD = 100% ) and B75-DR15 ( HF = 0. 15%, RLD = 100% ) showed significant positive linkage disequilibrium. Conclusion HLA-A, B, and DRB1 gene and haplotype frequencies and linkage disequilibrium data of Tibeten ethnic population, different from Ningxia Hui, Mongol and Han ethnics, present their own characteristics.%目的 分析西藏藏族HLA-A/B/DRB1座位基因遗传多态性和单体型特征.方法 采用PCR-SSO Luminex流式磁珠分型方法对343名西藏藏族无关个体作HLA-A/B/DRBI座位基因分型.应用直接计数法

  3. Alpha-1 Antitrypsin Deficiency PI*Z and PI*S Gene Frequency Distribution Using on Maps of the World by an Inverse Distance Weighting (IDW) Multivariate Interpolation Method

    OpenAIRE

    Blanco, Ignacio; de Serres, Frederick J; Cárcaba, Victoriano; Lara, Beatríz; Fernández-Bustillo, Enrique

    2012-01-01

    1.Background Currently, there is a remarkable lack of genetic epidemiological studies on alpha 1-antitrypsin (AAT) deficiency in about half of the 193 countries of the World. This fact impedes the establishment of a true prevalence pattern of this deleterious hereditary disorder in extensive regions of human population. 2.Objectives The aim of the present study was to generate detailed maps of the frequency distribution of the two most frequent AAT deficiency alleles (i.e., PI*S and PI*Z) in ...

  4. Local time distribution of the SSC-associated HF-Doppler frequency shifts

    Science.gov (United States)

    Kikuchi, T.; Sugiuchi, H.; Ishimine, T.

    1985-01-01

    The HF-Doppler frequency shift observed at the storm's sudden commencement is composed of a frequency increase (+) and decrease (-), and classified into four types, SCF(+ -), SCF(- +), SCF(+) and SCF(-). Since the latter two types are special cases of the former two types, two different kinds of electrical field exist in the F region and cause the ExB drift motion of plasma. HUANG (1976) interpreted the frequency increase of SCF(+ -) as due to the westward induction electric field proportional to delta H/ delta t and the succeeding frequency decrease due to the eastward conduction electric field which produces ionospheric currents responsible for the magnetic increase on the ground. In spite of his success in interpreting the SCF(+ -), some other interpretations are needed for the explanation of the whole set of SCF's, particularly SCF(- +). Local time distributions of the SCF's are derived from 41 SCF's which are observed on the HF standard signal (JJY) as received in Okinawa (path length =1600 km) and Kokubunji (60 km). It is shown that the SCF(+ -) appears mainly during the day, whereas the SCF(- +) is observed during the night. The results indicate that the preliminary frequency shift (+) of SCF(+ -) and (-) of SCF(- +) is caused by a westward electric field in the dayside hemisphere, while by an eastward electric field in the nightside hemisphere. The main frequency shift (-) of SCF(+ -) and (+) of SCF(- +) is caused by the reversed electric field. Consequently, the preliminary frequency shift is caused by the dusk-to-dawn electric field, while the main frequency shift by the dawn-to-dusk electric field.

  5. Local time distribution of the SSC-associated HF-Doppler frequency shifts

    International Nuclear Information System (INIS)

    The HF-Doppler frequency shift observed at the storm's sudden commencement is composed of a frequency increase (+) and decrease (-), and classified into four types, SCF(+ -), SCF(- +), SCF(+) and SCF(-). Since the latter two types are special cases of the former two types, two different kinds of electrical field exist in the F region and cause the ExB drift motion of plasma. HUANG (1976) interpreted the frequency increase of SCF(+ -) as due to the westward induction electric field proportional to delta H/ delta t and the succeeding frequency decrease due to the eastward conduction electric field which produces ionospheric currents responsible for the magnetic increase on the ground. In spite of his success in interpreting the SCF(+ -), some other interpretations are needed for the explanation of the whole set of SCF's, particularly SCF(- +). Local time distributions of the SCF's are derived from 41 SCF's which are observed on the HF standard signal (JJY) as received in Okinawa (path length =1600 km) and Kokubunji (60 km). It is shown that the SCF(+ -) appears mainly during the day, whereas the SCF(- +) is observed during the night. The results indicate that the preliminary frequency shift (+) of SCF(+ -) and (-) of SCF(- +) is caused by a westward electric field in the dayside hemisphere, while by an eastward electric field in the nightside hemisphere. The main frequency shift (-) of SCF(+ -) and (+) of SCF(- +) is caused by the reversed electric field. Consequently, the preliminary frequency shift is caused by the dusk-to-dawn electric field, while the main frequency shift by the dawn-to-dusk electric field

  6. The Distribution and Frequency of the Terms "Pride" and "Prejudice" in Jane Austen's Pride and Prejudice

    Directory of Open Access Journals (Sweden)

    Tanja Dromnes

    2009-03-01

    Full Text Available In this article we examine the title terms of Jane Austen's Pride and Prejudice (1813 with particular attention to their distribution and frequency in the text. Our method is to connect the statistical material gathered on frequency and distribution to a narratological analysis of the terms, with special emphasis on whether they occur within the focalization of the external narrator, or that of character-focalizers. In order to approach this task, we have availed ourselves of the narratological theories of Mieke Bal. We conclude that there is a differentiation among types of focalization in the novel that enhances the thematic structure of match-making. Although Jane Austen wrote and published her major works two centuries ago, they continue to fascinate literary scholars and general readers alike.

  7. Robust Distributed Model Predictive Load Frequency Control of Interconnected Power System

    OpenAIRE

    Xiangjie Liu; Huiyun Nong; Ke Xi; Xiuming Yao

    2013-01-01

    Considering the load frequency control (LFC) of large-scale power system, a robust distributed model predictive control (RDMPC) is presented. The system uncertainty according to power system parameter variation alone with the generation rate constraints (GRC) is included in the synthesis procedure. The entire power system is composed of several control areas, and the problem is formulated as convex optimization problem with linear matrix inequalities (LMI) that can be solved efficiently. It m...

  8. A two-component generalized extreme value distribution for precipitation frequency analysis

    Czech Academy of Sciences Publication Activity Database

    Rulfová, Zuzana; Buishand, A.; Roth, M.; Kyselý, Jan

    2016-01-01

    Roč. 534, - (2016), s. 659-668. ISSN 0022-1694 R&D Projects: GA ČR(CZ) GA14-18675S Institutional support: RVO:68378289 Keywords : precipitation extremes * two-component extreme value distribution * regional frequency analysis * convective precipitation * stratiform precipitation * Central Europe Subject RIV: DG - Athmosphere Sciences, Meteorology Impact factor: 3.053, year: 2014 http://www.sciencedirect.com/science/article/pii/S0022169416000500

  9. On the distribution of high-frequency stock market traded volume: a dynamical scenario

    OpenAIRE

    Silvio M. Duarte Queiros

    2005-01-01

    This manuscript reports a stochastic dynamical scenario whose associated stationary probability density function is exactly a previously proposed one to adjust high-frequency traded volume distributions. This dynamical conjecture, physically connected to superstatiscs, which is intimately related with the current nonextensive statistical mechanics framework, is based on the idea of local fluctuations in the mean traded volume associated to financial markets agents herding behaviour. The corro...

  10. ABO and Rh-D blood group frequency and distribution: a tertiary care hospital experience

    OpenAIRE

    Pandu Rangarao Sanagapati; Sudhir Kumar Vujhini

    2015-01-01

    Background: This study was carried out to determine the frequency and distribution of ABO and Rhesus (Rh) blood groups in blood donors of tertiary care hospital-attached blood bank. Methods: This study was conducted among the blood donors of Hyderabad Telangana State (India), who donated blood during the period from July 2013 to December 2014. ABO and Rh blood grouping was performed by forward blood grouping (cell grouping) using test tube agglutination method using antisera A, antisera B...

  11. Dynamics of fully coupled rotators with unimodal and bimodal frequency distribution

    OpenAIRE

    Olmi, Simona; Torcini, Alessandro

    2015-01-01

    We analyze the synchronization transition of a globally coupled network of N phase oscillators with inertia (rotators) whose natural frequencies are unimodally or bimodally distributed. In the unimodal case, the system exhibits a discontinuous hysteretic transition from an incoherent to a partially synchronized (PS) state. For sufficiently large inertia, the system reveals the coexistence of a PS state and of a standing wave (SW) solution. In the bimodal case, the hysteretic synchronization t...

  12. Inferential procedures in stable distributions for class frequency data on incomes

    OpenAIRE

    Dijk, Herman; Kloek, Teun

    1980-01-01

    textabstractThis paper discusses inferential procedures for the family of stable distributions, when the data are tabulated in the form of interval frequencies. The estimation criteria used are minimum chi-square and multinomial maximum likelihood. In evaluating the theoretical probabilities corresponding to the intervals, use is made of the inversion theorem for characteristic functions. Chi-square tail probabilities for independent samples are pooled by means of theKolmogorov statistic. As ...

  13. Incorporating Change-Point Detection Updates of Frequency-Magnitude Distributions Within the Taiwan Earthquake Catalog

    OpenAIRE

    Kuei-Pao Chen; Yi-Ben Tsai; Daniel Amorese; and Wen-Yen Chang

    2011-01-01

    Threshold magnitude (M0) is an important factor in determining the magnitude of completeness in calculating seismic b values. Seismic b values can assist in determining the likelihood of earthquake events; therefore, seismic b values should be re-determined repeatedly with ever increasing precision. In this study, we use a median-based analysis of the segment slope (MBASS) to detect change points in Gutenberg-Richter frequency-magnitude distributions (FMDs) to determine M0. Results give the b...

  14. Improving Frequency Stability Based on Distributed Control of Multiple Load Aggregators

    OpenAIRE

    Hu, Jianqiang; Cao, Jinde; Guerrero, Josep M.; Yong, Taiyou; Yu, Jie

    2016-01-01

    In the power demand side, responsive loads can provide fast regulation and ancillary services as reserve capacities in interconnected power systems. This paper presents a distributed pinning demand side control (DSC) strategy for coordinating multiple load aggregators, i.e., aggregated responsive loads, to provide frequency regulation services. Specifically, a leader-following communication protocol is considered for the load aggregators in which there is a centralized pinner (leader) and mul...

  15. Chirplet Wigner-Ville distribution for time-frequency representation and its application

    Science.gov (United States)

    Chen, G.; Chen, J.; Dong, G. M.

    2013-12-01

    This paper presents a Chirplet Wigner-Ville Distribution (CWVD) that is free for cross-term that usually occurs in Wigner-Ville distribution (WVD). By transforming the signal with frequency rotating operators, several mono-frequency signals without intermittent are obtained, WVD is applied to the rotated signals that is cross-term free, then some frequency shift operators corresponding to the rotating operator are utilized to relocate the signal‧s instantaneous frequencies (IFs). The operators‧ parameters come from the estimation of the IFs which are approached with a polynomial functions or spline functions. What is more, by analysis of error, the main factors for the performance of the novel method have been discovered and an effective signal extending method based on the IFs estimation has been developed to improve the energy concentration of WVD. The excellent performance of the novel method was manifested by applying it to estimate the IFs of some numerical signals and the echolocation signal emitted by the Large Brown Bat.

  16. Evidence of increasing L1014F kdr mutation frequency in Anopheles gambiae s.l. pyrethroid resistant following a nationwide distribution of LLINs by the Beninese National Malaria Control Programme

    Institute of Scientific and Technical Information of China (English)

    Nazaire Azoun; Rock Akpon; Martin Akogbto

    2014-01-01

    Objective:To determine the susceptibility status to pyrethroid in Anopheles gambiae s.l. (An. gambiae), the distribution of kdr“Leu-Phe”mutation in malaria vectors in Benin and to compare the current frequency of kdr“Leu-Phe”mutation to the previous frequency after long-lasting insecticide treated nets implementation. Methods: Larvae and pupae of An. gambiae s.l. mosquitoes were collected from the breeding sites in Littoral, Zou, Borgou and Alibori provinces. CDC susceptibility tests were conducted on unfed females mosquitoes aged 2-5 d old. An. gambiae mosquitoes were identified to species using PCR techniques. Molecular assays were also carried out to identify kdr mutations in individual mosquitoes. Results: The results showed that An. gambiae Malanville and Suru-lere populations were resistant to deltamethrin. Regarding An. gambiae Parakou and Bohicon populations, they were resistant to permethrin. PCR revealed 100%of mosquitoes tested were An. gambiae s.s. The L1014F kdr mutation was found in An. gambiae s.s. Malanville and Parakou at various allelic frequencies. The increase of kdr allelic frequency was positively correlated with CDC bioassays data. Conclusions: Pyrethroid resistance is widespread in malaria vector in Benin and kdr mutation is the main resistance mechanism involved. More attention may be paid for the future success of malaria control programmes based on LLINs with pyrethroids in the country.

  17. Frequency and distribution analysis of chromosomal translocations induced by x-ray in human lymphocytes

    International Nuclear Information System (INIS)

    The characteristic of ionizing radiation suggests that induced chromosomal damage in the form of translocations would appear to be randomly distributed. However, the outcome of tests performed in vitro and in vivo (irradiated individuals) are contradictories. The most translocation-related chromosomes, as far as some studies reveal on one hand, appear to be less involved in accordance with others. These data, together with those related to molecular mechanisms involved in translocations production suggest that in G0 -irradiated cells, the frequency and distribution of this kind of chromosomal rearrangement, does not take place at random. They seem to be affected by in-nucleus chromosome distribution, by each chromosome's DNA length and functional features, by the efficiency of DNA repair mechanisms, and by inter individual differences. The objective of this study was to establish the frequency pattern of each human chromosome involved in radio-induced translocations, as well as to analyze the importance the chromosome length, the activity of DNA polymerase- dependant repair mechanisms, and inter individual differences within the scope of such distribution. To achieve the goals, peripheral blood lymphocytes from healthy donors were irradiated in presence and absence of 2'-3' dideoxithimidine (ddThd), a Β - DNA polymerase inhibitor, which takes part in the base repair mechanism (B E R). The results showed that: The presence of ddThd during the irradiation increase the basal frequency of radioinduced translocations in 60 %. This result suggests that ddThd repair synthesis inhibition can be in itself a valid methodology for radiation-induced bases damage assessment, damage which if not BER-repaired may result in translocation-leading double strand breaks. A statistically significant correlation between translocation frequency and chromosome length, in terms of percentage of genome, has been noticed both in (basal) irradiation and in irradiation with ddThd inhibitor

  18. Coastal waters monitoring data: frequency distributions of the principal water quality variables

    Directory of Open Access Journals (Sweden)

    Bianca DI LORENZO

    2006-08-01

    Full Text Available Examining the results of the Italian national programme of marine coastal monitoring, the old problem has arisen about the choice of the most appropriate procedures and methods to validate data and screen preliminary data. Therefore, statistical distributions of water quality parameters have been taken into consideration, in order to assign appropriate frequency distributions to all the routinely measured variables. Each sample distribution has been analysed and defined by a probability density function (p.d.f., by means of a powerful method of data analysis (Johnson 1949 that allows for the computation of statistical parameters of a wide variety of non-normal distributions. The resulting Johnson distributions are then classified depending on four fundamental categories of frequency distributions: normal, log-normal, bounded and unbounded. Theoretical aspects of the method are explained and discussed in an adequate way, so as to allow for practical applications. The shape and nature of these curves require further consideration, in order to understand the behaviour of water quality variables and to make comparison among different coastal zones. To this end, two coastal systems were considered in this work: the Emilia-Romagna coastal area of the NW Adriatic Sea and the Tuscany littoral of the Northern Tyrrhenian Sea. There are notable advantages to the adopted approach. First it offers the possibility to overcome severe constraints requested by the normality assumption, and avoids the troublesome search for the most appropriate transformation function (i.e. for ensuring normality. Second, it avoids searching for other kinds of theoretical distributions that are appropriate for the data. In our approach, the density functions are opportunely integrated, in such a way that, for whatever value assumed by a given variable, the corresponding expected percentage point value under the respective frequency curve, can be calculated, and vice versa. We

  19. Exact results for the Kuramoto model with a bimodal frequency distribution

    DEFF Research Database (Denmark)

    Martens, Erik Andreas; Barreto, E.; Strogatz, S. H.;

    2009-01-01

    We analyze a large system of globally coupled phase oscillators whose natural frequencies are bimodally distributed. The dynamics of this system has been the subject of long-standing interest. In 1984 Kuramoto proposed several conjectures about its behavior; ten years later, Crawford obtained the...... first analytical results by means of a local center manifold calculation. Nevertheless, many questions have remained open, especially about the possibility of global bifurcations. Here we derive the system’s stability diagram for the special case where the bimodal distribution consists of two equally...... bifurcation boundaries between these states. Similar results are also obtained for the case in which the bimodal distribution is given by the sum of two Gaussians....

  20. Transverse Inhomogeneous Carrier-Envelope Phase Distribution of Idler Generated through Difference-Frequency-Generation

    International Nuclear Information System (INIS)

    The transverse inhomogeneous carrier-envelope phase (CEP) distribution of idler generated through difference-frequency-generation (DFG) in quadratic nonlinear crystals is theoretically studied. In practical CEP stabilized DFG setups, the pump and the signal are usually Gaussian beams with non-uniform intensity distribution. Since the idler CEP is dependent on gain, this non-uniform intensity distribution leads to inhomogeneous gain across the aperture of the idler beam, resulting in a varying transverse idler CEP. Simulation results show that in practical settings, in the high-gain regime, transverse inhomogeneous CEP can be much smaller compared with π/2. However, when gain on the propagation axis reaches saturation, CEP difference can well exceed π/2. (fundamental areas of phenomenology (including applications))

  1. A Dynamic Assignment of Extrinsic Information Distribution by a Frequency Means for Iterative Turbo Decoder

    Institute of Scientific and Technical Information of China (English)

    YANGFengfan

    2003-01-01

    In this paper, a new strategy for iterative turbo decoding is proposed, where a Generalized Gaussian distribution (GGD) is applied to model the statistical distributions of the extrinsic information generated by the component decoders. An Euclidean distance criterion is also introduced to choose a most likely candidate of the extrinsic information distribution before the each constituent decoding by a novel frequency means. The simulation results show that performance of an iterative decoder with this new technique surpasses the conventional Gaussian solution for the extrinsic information under the same channel conditions. Meanwhile, the evolution process of the extrinsic information density function can be tracked from iteration to iteration in the sense of the proposed criterion.

  2. 男性冲动攻击行为的15个短串联重复序列基因位点等位基因频率的病例对照研究%Case-control study of allele frequencies of 15 short tandem repeat loci in males with impulsive violent behavior

    Institute of Scientific and Technical Information of China (English)

    杨春; 巴华杰; 高志勤; 赵汉清; 余海鹰; 过伟

    2013-01-01

    背景:遗传多态性短串联重复序列(short tandem repeats, STRs)分析是用于检测基因型和表型之间关联的公认方法,但它以前没有在冲动攻击行为的遗传学研究中使用。  目的:在有冲动攻击行为史的男性和无冲动攻击行为史的男性对照组之间,比较15个STR基因位点(D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818和FGA)不同多态性的发生率。  方法:应用AmpFlSTR®Identifiler™试剂盒比较407个有冲动性攻击行为的案例和415个对照的15个STR基因位点等位基因的分布。  结果:有冲动攻击行为史的男性以下等位基因的平均频率显著低于对照组:TH01的等位基因10(OR=0.29,95%CI=0.16-0.52, p  结论:据我们所知,本项行为遗传学研究首次清楚表明了特定的遗传标记与非精神病罪犯的冲动暴力行为之间的密切关系。进一步的前瞻性工作将需要确定已辨识出的等位基因是否可以被认为是冲动攻击行为的危险因素以及导致这种关系的基本机制。%Background:Analysis of genetic polymorphisms in short tandem repeats (STRs) is an accepted method for detecting associations between genotype and phenotype but it has not previously been used in the study of the genetics of impulsive violent behavior. Objective:Compare the prevalence of different polymorphisms in 15 STR loci (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA) between men with a history of impulsive violence and male control subjects without a history of impulsive violence. Methods:The distributions of the alleles of the 15 STR loci were compared between 407 cases with impulsive violent behavior and 415 controls using AmpFlSTR® Identifiler™kits. Results:Compared to controls, the average frequencies of the following alleles were significantly lower in individuals

  3. Using frequency maps to explore the distribution function of the Milky Way stellar halo

    Directory of Open Access Journals (Sweden)

    Valluri M.

    2012-02-01

    Full Text Available Resolved surveys of the Milky Way's stellar halo can obtain all 6 phase space coordinates of tens of thousands of individual stars, making it possible to compute their 3-dimensional orbits. When frequency mapping is applied to such orbits they also represent the underlying phase space distribution function since the orbits that the are drawn from 3. A frequency maps clearly separates out the major types of orbits that constitute the DF and their relative abundances. The structure of the frequency maps, especially the locations of resonant orbits, reflects the formation history and shape of the dark matter potential and its orientation relative to the disk. The application of frequency analysis to cosmological hydrodynamic simulations of disk galaxies shows that the orbital families occupied by halo stars and dark matter particles are very similar, implying that stellar halo orbits can be used to constrain the DF of the dark matter halo, possibly impacting the interpretation of results from direct dark matter detection experiments. An application of these methods to a sample of ~ 16,000 Milky Way halo and thick disk stars from the SDSS-SEGUE survey yields a frequency map with strong evidence for resonant trapping of halo stars by the Milky Way disk, in a manner predicted by controlled simulations in which the disk grows adiabatically. The application of frequency analysis methods to current and future phase space data for Milky Way halo stars will provide new insights into the formation history of the different components of the Galaxy and the DF of the halo.

  4. Blind Separation of Nonstationary Sources Based on Spatial Time-Frequency Distributions

    Directory of Open Access Journals (Sweden)

    Zhang Yimin

    2006-01-01

    Full Text Available Blind source separation (BSS based on spatial time-frequency distributions (STFDs provides improved performance over blind source separation methods based on second-order statistics, when dealing with signals that are localized in the time-frequency (t-f domain. In this paper, we propose the use of STFD matrices for both whitening and recovery of the mixing matrix, which are two stages commonly required in many BSS methods, to provide robust BSS performance to noise. In addition, a simple method is proposed to select the auto- and cross-term regions of time-frequency distribution (TFD. To further improve the BSS performance, t-f grouping techniques are introduced to reduce the number of signals under consideration, and to allow the receiver array to separate more sources than the number of array sensors, provided that the sources have disjoint t-f signatures. With the use of one or more techniques proposed in this paper, improved performance of blind separation of nonstationary signals can be achieved.

  5. Constructing the frequency and wave normal distribution of whistler-mode wave power

    Science.gov (United States)

    Watt, C. E. J.; Degeling, A. W.; Rankin, R.

    2013-05-01

    We introduce a new methodology that allows the construction of wave frequency distributions due to growing incoherent whistler-mode waves in the magnetosphere. The technique combines the equations of geometric optics (i.e., raytracing) with the equation of transfer of radiation in an anisotropic lossy medium to obtain spectral energy density as a function of frequency and wavenormal angle. We describe the method in detail and then demonstrate how it could be used in an idealized magnetosphere during quiet geomagnetic conditions. For a specific set of plasma conditions, we predict that the wave power peaks off the equator at ˜15° magnetic latitude. The new calculations predict that wave power as a function of frequency can be adequately described using a Gaussian function, but as a function of wavenormal angle, it more closely resembles a skew normal distribution. The technique described in this paper is the first known estimate of the parallel and oblique incoherent wave spectrum as a result of growing whistler-mode waves and provides a means to incorporate self-consistent wave-particle interactions in a kinetic model of the magnetosphere over a large volume.

  6. Allelic losses in mouse skin tumors induced by {gamma}-irradiation of p53 heterozygotes

    Energy Technology Data Exchange (ETDEWEB)

    Miyazawa, Tomonori; Sato, Hiroki; Hatakeyama, Katsuyoshi; Kominami, Ryo [Niigata Univ. (Japan). Graduate School of Medical and Dental Sciences; Kitagawa, Tomoyuki [Cancer Inst., Tokyo (Japan)

    2002-09-01

    Skin tumors were induced by {gamma}-irradiation in F{sub 1} mice between C3H/He or BALB/c and MSM carrying a p53-deficient allele. The incidence was 39.1% (34/87) in p53(KO/+) mice of the C3H/MSM genetic background and 14.3% (19/133) in those of the BALB/MSM background. Interestingly, most of the tumors (82%) lost the wild-type p53 allele and no skin tumor was found in p53(+/+) F{sub 1} mice. This suggests a requirement of p53 loss for the skin cancer development. Genome scan localized a chromosomal locus showing frequent allelic losses near D12Mit2, which may harbor a tumor suppressor gene. In addition, 23 loci distributed on 13 chromosomes exhibited allelic losses at frequencies of more than 20%. The genome-wide occurrence of allelic losses suggests that genomic instability of the skin tumors may be implicated in radiation-induced carcinogenesis. The present study is the first to report a mouse model system useful for the analysis of radiation induction of skin cancer in man. (author)

  7. ELSTAB-Fiber-Optic Time and Frequency Distribution Technology: A General Characterization and Fundamental Limits.

    Science.gov (United States)

    Krehlik, Przemyslaw; Sliwczynski, Lukasz; Buczek, Lukasz; Kolodziej, Jacek; Lipinski, Marcin

    2016-07-01

    In this paper, we present an overview of the electronically stabilized (thus named ELSTAB) fiber-optic time and frequency (T&F) distribution system based on our idea of using variable electronic delay lines as compensating elements. Various extensions of the basic system, allowing building a long-haul, multiuser network are described. The fundamental limitations of the method arising from fiber chromatic dispersion and system dynamics are discussed. We briefly characterize the main hardware challenge of the system, which is the design of a pair of low-noise, precisely matched delay lines. Finally, we present experimental results with T&F distribution over up to 615 km of fiber, where we demonstrate frequency stability in the range of 1-7 ×10(-17) for 10(5) s averaging and time calibration with accuracy well below 50 ps. Also, practical implementation of the ELSTAB in the Polish T&F distribution network is shown. PMID:26599816

  8. Dynamics of two populations of phase oscillators with different frequency distributions

    CERN Document Server

    Terada, Yu

    2014-01-01

    A large variety of rhythms have been observed in nature. These rhythms can be often regarded to interact with each other, such as electroencephalogram (EEG) in the brain. To investigate the dynamical properties of such systems, in this paper, we consider two populations of phase oscillators with different frequency distributions, particularly under the condition that the average frequency of fast oscillators is almost equal to the integral multiple of that of slow oscillators. What is the most important point is that we have to use the specific type of the coupling function derived from the phase reduction theory. Under some additional assumption, moreover, we can reduce the system consisting of two populations of coupled phase oscillators to a low-dimensional system in the continuum limit. As a result, we find chimera states in which clustering and incoherent states coexist. We also confirm that the behaviors of the derived low-dimensional model fairly agree with that of the original one.

  9. Distributed vibration sensing with time-resolved optical frequency-domain reflectometry.

    Science.gov (United States)

    Zhou, Da-Peng; Qin, Zengguang; Li, Wenhai; Chen, Liang; Bao, Xiaoyi

    2012-06-01

    The distributed vibration or dynamic strain information can be obtained using time-resolved optical frequency-domain reflectometry. Time-domain information is resolved by measuring Rayleigh backscatter spectrum in different wavelength ranges which fall in successive time sequence due to the linear wavelength sweep of the tunable laser source with a constant sweeping rate. The local Rayleigh backscatter spectrum shift of the vibrated state with respect to that of the non-vibrated state in time sequence can be used to determine dynamic strain information at a specific position along the fiber length. Standard single-mode fibers can be used as sensing head, while the measurable frequency range of 0-32 Hz with the spatial resolution of 10 cm can be achieved up to the total length of 17 m. PMID:22714342

  10. Dynamics of two populations of phase oscillators with different frequency distributions

    Science.gov (United States)

    Terada, Yu; Aoyagi, Toshio

    2016-07-01

    A large variety of rhythms are observed in nature. Rhythms such as electroencephalogram signals in the brain can often be regarded as interacting. In this study, we investigate the dynamical properties of rhythmic systems in two populations of phase oscillators with different frequency distributions. We assume that the average frequency ratio between two populations closely approximates some small integer. Most importantly, we adopt a specific coupling function derived from phase reduction theory. Under some additional assumptions, the system of two populations of coupled phase oscillators reduces to a low-dimensional system in the continuum limit. Consequently, we find chimera states in which clustering and incoherent states coexist. Finally, we confirm consistent behaviors of the derived low-dimensional model and the original model.

  11. Selection and Semi-Dwarf Allele Mutants Segregation Pattern as the Result of Gamma Ray Irradiation of West Sumatera Black Rice

    Directory of Open Access Journals (Sweden)

    Benny Warman

    2015-01-01

    Full Text Available Black rice is a local rice originating from East Pasaman which has a low yield potential, long panicles, too high of longevity and plant height and soeasily fall. To reduce  plant height has been irradiated rice seedsas much as 200 grams of black rice with a dose of 200 Gy of gamma rays. This study aimed to obtain information about the frequency of mutant semi-dwarf/dwarf and segregation patterns in mutant alleles black rice as the genetic improvement of West Sumatra local rice through mutation induction.  From the selection of the M2 generation gained 31 candidates dwarf/semi dwarf mutant frequency of 0.062%. also obtained information that the segregation of alleles that make up the character ofthe semi dwarf/dwarf rodon rice mutant semi dwarf/dwarf trunked together with the distribution pattern of segregation according to Mendel's Law. On the character of the semi-dwarf/dwarf stem is influenced by one or two groups of alleles, where one of the alleles controlling the properties of semi-dwarf/dwarf stem, while the other controls the high stemproperties. Alleles from each group are in a locus that its chromosomes separate.It is evident that the semi-dwarf/dwarf on the mutant is occured due to one or more alleles is dominant on the high stem properties controlling alleles group toward the recessive.

  12. Colony size-frequency distribution of pocilloporid juvenile corals along a natural environmental gradient in the Red Sea

    KAUST Repository

    Lozano-Cortes, Diego

    2015-10-29

    Coral colony size-frequency distributions can be used to assess population responses to local environmental conditions and disturbances. In this study, we surveyed juvenile pocilloporids, herbivorous fish densities, and algal cover in the central and southern Saudi Arabian Red Sea. We sampled nine reefs with different disturbance histories along a north–south natural gradient of physicochemical conditions (higher salinity and wider temperature fluctuations in the north, and higher turbidity and productivity in the south). Since coral populations with negatively skewed size-frequency distributions have been associated with unfavorable environmental conditions, we expected to find more negative distributions in the southern Red Sea, where corals are potentially experiencing suboptimal conditions. Although juvenile coral and parrotfish densities differed significantly between the two regions, mean colony size and size-frequency distributions did not. Results suggest that pocilloporid colony size-frequency distribution may not be an accurate indicator of differences in biological or oceanographic conditions in the Red Sea.

  13. Robust Distributed Model Predictive Load Frequency Control of Interconnected Power System

    Directory of Open Access Journals (Sweden)

    Xiangjie Liu

    2013-01-01

    Full Text Available Considering the load frequency control (LFC of large-scale power system, a robust distributed model predictive control (RDMPC is presented. The system uncertainty according to power system parameter variation alone with the generation rate constraints (GRC is included in the synthesis procedure. The entire power system is composed of several control areas, and the problem is formulated as convex optimization problem with linear matrix inequalities (LMI that can be solved efficiently. It minimizes an upper bound on a robust performance objective for each subsystem. Simulation results show good dynamic response and robustness in the presence of power system dynamic uncertainties.

  14. Temperature distribution in an ohmic-heated electrical contact at high signal frequencies

    Science.gov (United States)

    Timsit, Roland S.; Luttgen, Andrea

    2016-03-01

    In classical contact theory, the temperature T of contact spots in an electrical interface passing a DC current is determined by the voltage drop V across the contact, i.e., the V-T relation. This paper reports on evaluations of the temperature distribution in a single circular contact spot in a copper-copper contact heated by an AC current. The steady-state maximum temperature was computed numerically for an AC electrical current of fixed amplitude and a frequency ranging from 100 Hz to 100 MHz. The computed temperature was compared with the predictions of the V-T relation.

  15. Low noise buffer amplifiers and buffered phase comparators for precise time and frequency measurement and distribution

    Science.gov (United States)

    Eichinger, R. A.; Dachel, P.; Miller, W. H.; Ingold, J. S.

    1982-01-01

    Extremely low noise, high performance, wideband buffer amplifiers and buffered phase comparators were developed. These buffer amplifiers are designed to distribute reference frequencies from 30 KHz to 45 MHz from a hydrogen maser without degrading the hydrogen maser's performance. The buffered phase comparators are designed to intercompare the phase of state of the art hydrogen masers without adding any significant measurement system noise. These devices have a 27 femtosecond phase stability floor and are stable to better than one picosecond for long periods of time. Their temperature coefficient is less than one picosecond per degree C, and they have shown virtually no voltage coefficients.

  16. Temporal aspects and frequency distributions of solar soft X-ray flares

    OpenAIRE

    Veronig, A.; Temmer, M.; Hanslmeier, A.; Otruba, W.; Messerotti, M.

    2002-01-01

    A statistical analysis of almost 50000 soft X-ray (SXR) flares observed by GOES during the period 1976-2000 is presented. On the basis of this extensive data set, statistics on temporal properties of soft X-ray flares, such as duration, rise and decay times with regard to the SXR flare classes is presented. Correlations among distinct flare parameters, i.e. SXR peak flux, fluence and characteristic times, and frequency distributions of flare occurrence as function of the peak flux, the fluenc...

  17. Low Frequency Oscillations of the Heat Distribution in the Global Upper Ocean Layers

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    The heat distributions in the upper layers of the ocean have been studied and some important low frequency oscillations (LFOs) are already found and quantified by using various characteristic factors. In this paper, the 'heat center' of a sea area is defined with a simple method. Then the temperature data set of the upper layer of the global ocean (from surface down to 400 m, 1955 - 2003) is analyzed to detect the possible LFOs. Not only some zonal LFOs, which were reported early, but also some strong LFOs of the vertical and meridional heat distribution, which might imply some physical sense, are detected. It should be noted that the similar vertical oscillation pattern can be found in the Pacific Ocean, Atlantic Ocean and Indian Ocean. Results from some preliminary studies show that the vertical LFO might be caused by the solar irradiance anomalies. This study may help reveal some unknown dynamical processes in the global oceans and may also benefit other related studies.

  18. Performance of low-cost commercial fiber-optic transceivers for reference frequency distribution

    Science.gov (United States)

    Dragonette, Richard; Suter, Joseph J.

    1993-01-01

    Precision time and frequency reference signals were effectively disseminated using high-quality intricate fiber-optic distribution systems. The quality of signals distributed by such systems is excellent, but the cost of these systems makes them unavailable to many potential users. A study of signal quality maintained using inexpensive commercial transmitter/receiver pairs is undertaken. Seven different transmitter/receiver pairs obtained from four different manufacturers were thoroughly tested using a 5 MHz sinusoid derived from a precision, temperature controlled, crystal-controlled oscillator. The electrical signal output from each fiber-optic receiver was tested for spectral purity, single-sideband phase noise, and AM noise, and the results are tabulated and discussed without identification of the manufacturer or the equipment model number.

  19. Universal spectrum for DNA base C+G frequency distribution in Human chromosomes 1 to 24

    CERN Document Server

    Selvam, A M

    2007-01-01

    Power spectra of human DNA base C+G frequency distribution in all available contiguous sections exhibit the universal inverse power law form of the statistical normal distribution for the 24 chromosomes. Inverse power law form for power spectra of space-time fluctuations is generic to dynamical systems in nature and indicate long-range space-time correlations. A recently developed general systems theory predicts the observed non-local connections as intrinsic to quantumlike chaos governing space-time fluctuations of dynamical systems. The model predicts the following. (1) The quasiperiodic Penrose tiling pattern for the nested coiled structure of the DNA molecule in the chromosome resulting in maximum packing efficiency. (2) The DNA molecule functions as a unified whole fuzzy logic network with ordered two-way signal transmission between the coding and non-coding regions. Recent studies indicate influence of non-coding regions on functions of coding regions in the DNA molecule.

  20. Observations on the magnitude-frequency distribution of Earth-crossing asteroids

    International Nuclear Information System (INIS)

    During the past decade, discovery of Earth-crossing asteroids has continued at the pace of several per year; the total number of known Earth crossers reached 70 as of September, 1986. The sample of discovered Earth crossers has become large enough to provide a fairly strong statistical basis for calculations of mean probabilities of asteroid collision with the Earth, the Moon, and Venus. It is also now large enough to begin to address the more difficult question of the magnitude-frequency distribution and size distribution of the Earth-crossing asteroids. Absolute V magnitude, H, was derived from reported magnitudes for each Earth crosser on the basis of a standard algorithm that utilizes a physically realistic phase function. The derived values of H range from 12.88 for (1627) Ivar to 21.6 for the Palomar-Leiden object 6344, which is the faintest and smallest asteroid discovered

  1. Size-frequency distribution of boulders ≥10 m on comet 103P/Hartley 2

    Science.gov (United States)

    Pajola, Maurizio; Lucchetti, Alice; Bertini, Ivano; Marzari, Francesco; A'Hearn, Michael F.; La Forgia, Fiorangela; Lazzarin, Monica; Naletto, Giampiero; Barbieri, Cesare

    2016-01-01

    Aims: We derive the size-frequency distribution of boulders on comet 103P/Hartley 2, which are computed from the images taken by the Deep Impact/HRI-V imaging system. We indicate the possible physical processes that lead to these boulder size distributions. Methods: We used images acquired by the High Resolution Imager-Visible CCD camera on 4 November 2010. Boulders ≥10 m were identified and manually extracted from the datasets with the software ArcGIS. We derived the global size-frequency distribution of the illuminated side of the comet (~50%) and identified the power-law indexes characterizing the two lobes of 103P. The three-pixel sampling detection, together with the shadowing of the surface, enables unequivocally detection of boulders scattered all over the illuminated surface. Results: We identify 332 boulders ≥10 m on the imaged surface of the comet, with a global number density of nearly 140/km2 and a cumulative size-frequency distribution represented by a power law with index of -2.7 ± 0.2. The two lobes of 103P show similar indexes, i.e., -2.7 ± 0.2 for the bigger lobe (called L1) and -2.6+ 0.2/-0.5 for the smaller lobe (called L2). The similar power-law indexes and similar maximum boulder sizes derived for the two lobes both point toward a similar fracturing/disintegration phenomena of the boulders as well as similar lifting processes that may occur in L1 and L2. The difference in the number of boulders per km2 between L1 and L2 suggests that the more diffuse H2O sublimation on L1 produce twice the boulders per km2 with respect to those produced on L2 (primary activity CO2 driven). The 103P comet has a lower global power-law index (-2.7 vs. -3.6) with respect to 67P. The global differences between the two comets' activities, coupled with a completely different surface geomorphology, make 103P hardly comparable to 67P. A shape distribution analysis of boulders ≥30 m performed on 103P suggests that the cometary boulders show more elongated shapes

  2. The Time Analysis and Frequency Distribution of Caesium-137 Fall-Out in Muscle Samples

    International Nuclear Information System (INIS)

    For low concentrations of artificial radioactivity in the body, detrimental effect will be most likely in that fraction of the population having many times the average amount. A meaningful evaluation of the nuclear fall-out hazard can only be made if the frequency distribution of radioactivity in the population is known. Attempts to determine the shape of the distribution curve from Kulp's data on strontium-90 concentration in children's bones have met limited success because of the small sample size and lack of strontium-90-calcium equilibrium in bone. To overcome these limitations, we have measured the caesium-137 content in approximately 900 muscle samples. These tissue samples were removed during post-mortem operations from January 1959 to August 1963. The use of caesium-137 as a fission product monitor assures that all members of the group, regardless of their age, were essentially in equilibrium with the radioactive environment at the time of death. The period of investigation coincides with the first weapon test moratorium and the resumption of large- scale testing in the fall of 1961. Average caesium-137 in the samples was relatively constant throughout 1959, decreased a factor of two during 1960, and remained relatively stable until the early summer of 1962. Since mid-1962 the average level of caesium-137 radioactivity in the sample population has steadily increased and was four times greater than the 1962 minimum by the summer of 1963. Time-independent histograms of the data have been assembled by fitting a polynomial to the raw data (sample radioactivity as a function of data of death). This pooled data has been tested statistically against normal, log-normal, and gamma frequency distributions. Results indicate that the experimental distribution is definitely not Gaussian and is best fitted by a gamma distribution. By using the empirically derived gamma distribution it is possible to predict the fraction of the population having N times the average

  3. Allelic variants of the genes of apolipoproteins B and CII in patients with coronary heart disease and in healthy individuals from the Moscow population

    Energy Technology Data Exchange (ETDEWEB)

    Pogoda, T.V.; Kolosova, T.V.; Lyudvikova, E.K. [Institute of Molecular Genetics, Moscow (Russian Federation)] [and others

    1995-07-01

    Allelic frequencies of a microsatellite of the apolipoprotein CII gene (APOCII) and a minisatellite of the apolipoprotein B gene (APOB) were studied by using polymerase chain reaction (PCR). The study was conducted on a random sample of male Moscow inhabitants and a sample of patients with coronary heart disease (CHD) from the same population. Fourteen variants of the APOB minisatellite (the 82% heterozygosity level) and 13 alleles of the APOCII microsatellite (the 85% heterozygosity level) were found. CHD patients significantly differed from the control group in the distributions of alleles in these loci: APOB 32, APOB 46, APOB 48, and APOB 50 as well as APOCII 17 and APOCII 29 were found more frequently. A relationship was found between the distributions of APOB and APOCII in the CHD patients. The CHD patients with alleles APOCII 21 and APOCII 30 very often had the allele APOB 32; and patients with the genotype APOB 34, 36 had the allele APOCII 29 even more often than affected individuals in general. Individuals of the control group with the allele APOCII30 exhibited hypertriglyceridemia without increased levels of total cholesterol and apolipoprotein B in plasma. 14 refs., 3 figs., 6 tabs.

  4. 春化、光周期和矮秆基因在不同国家小麦品种中的分布及其效应%Distribution of Allelic Variation for Vernalization, Photoperiod, and Dwarfing Genes and Their Effects on Growth Period and Plant Height among Cultivars from Major Wheat Producing Countries

    Institute of Scientific and Technical Information of China (English)

    杨芳萍; 李式昭; 何中虎; 夏先春; 张勇; 张晓科; 刘建军; 唐建卫; 杨学明; 张俊儒; 刘茜

    2012-01-01

    To efficiently use exotic resources in Chinese wheat breeding programs, we investigated the heading date, maturity date, and plant height of 100 representative cultivars collected from 14 countries at eight locations in China, and detected the allelic variations of vernalization loci VRN-1 and VRN-B3, photoperiod gene Ppd-Dla, and dwarfing genes Rht-Bib and Rht-Dib by means of molecular markers. The frequencies of vernalization loci were 8.0% for Vrn-Ala, 21.0% for Vrn-BI, 21.0% for Vrn-DI and 64.0% for vrn-AI+vm-BI+ vrn-Dl, except for the absence of dominant allele Vrn-B3 in all tested materials. Dominant vernalization alleles Vrn-Ala, Vm-BI, and Vm-DI were mainly observed in cultivars from Chinese spring wheat region, Italy, India, Canada, Mexico, and Australia; whereas, cultivars carrying all recessive alleles at the four vernalization loci and vm-AI+ vrn-DI+Vm-BI+vm-B3 genotype were mostly found in cultivars from Chinese winter wheat region, United States (US) winter wheat region, Russia winter wheat region, United Kingdom (UK), France, Germany, Romania, Turkey, and Hungary. All cultivars headed normally when sown in autumn. Cultivars with dominant alleles showed earlier heading date than those with recessive alleles, and genotypes with two or more dominant alleles showed additive effects. Some European and US cultivars with recessive genes at the four vernalization loci could not mature in Yangling and Chengdu. Under spring-sown condition, the cultivars with dominant vernalization alleles showed high heading frequency; in contrast, most cultivars with recessive alleles failed to head. Gene Ppd-Dla was distributed mainly in cultivars from China, France, Romania, Russia, Mexico, Australia, and India with the total frequency of 68%. Most cultivars with Ppd-Dlb were from high latitude regions, such as UK, Germany, Hungary, and Canada. The Ppd-Dla genotypes appeared to head earlier than the Ppd-Dlb genotypes. Daylight condition had no effect on maturity of most Ppd

  5. The frequency and distribution of canine leishmaniosis diagnosed by veterinary practitioners in Europe.

    Science.gov (United States)

    Mattin, M J; Solano-Gallego, L; Dhollander, S; Afonso, A; Brodbelt, D C

    2014-06-01

    This study aimed to evaluate the frequency and spatial distribution of canine leishmaniosis (CanL) in France, Greece, Italy, Portugal and Spain. An online questionnaire investigated the location and frequency of CanL cases diagnosed by veterinary practitioners. Further data from the practice management systems of veterinary clinics in France were provided by a financial benchmarking company in relation to all treatment and test invoice data from participating practices. The geographical and temporal web interest in leishmaniosis was explored using Google Trends. Veterinary practitioners from France, Greece, Italy, Portugal and Spain completed 1231 questionnaires. The percentage of practice-attending dogs with a veterinary diagnosis of CanL ranged from 0.71% in France to 7.80% in Greece. However, due to regional differences in response rates, particularly in France, the mean regional estimates may better reflect the disease burden. Benchmarking data relating to approximately 180,000 dogs estimated that 0.05% of dogs attending veterinary clinics were treated for CanL or euthanased with suspected CanL in France. The regional frequency of Google web queries for leishmaniosis generally reflected the spatial patterns of disease identified from the other data sources. In conclusion, CanL was a relatively common diagnosis in veterinary clinics in many regions of the countries studied. Knowledge of CanL in endemic areas can direct the use of preventative measures and help estimate the likelihood of infection in dogs visiting or inhabiting these countries. PMID:24767097

  6. Weak-coherent-state-based time-frequency quantum key distribution

    Science.gov (United States)

    Zhang, Yequn; Djordjevic, Ivan B.; Neifeld, Mark A.

    2015-11-01

    We study large-alphabet quantum key distribution (QKD) based on the use of weak-coherent states and the time-frequency uncertainty relation. The large alphabet is achieved by dividing time and spectrum into M bins resulting in a frame similar to traditional pulse-position modulation (in time domain). However, the non-uniform occurrence of a photon prepared in a time/frequency bin creates the space for eavesdropping. By analysis, we show that a new intercept-resend attack strategy exists, which is stronger than that has been reported in the literature and hence the secret key rate of time-frequency QKD (TF-QKD) can be more tightly bounded. We then analyse the secret key rates of TF-QKD under various practical issues, such as channel loss, background noise, jitter and atmospheric turbulence in order to better understand the applicability of TF-QKD. Further, we discuss the information reconciliation for TF-QKD. Specifically, we investigate the layered coding scheme for TF-QKD based on quasi-cyclic low-density parity-check codes against jitter and atmospheric turbulence. By simulation, we demonstrate that information reconciliation can be efficiently achieved.

  7. Magnitude-Frequency Distribution of Hummocks on Rockslide-Debris Avalanche Deposits and Its Geomorphological Significance

    Directory of Open Access Journals (Sweden)

    Hidetsugu Yoshida

    2016-01-01

    Full Text Available A magnitude-frequency analysis of rockslide-debris avalanche deposits was performed. Hummocks are conical mounds formed in debris avalanche deposits from the catastrophic sector collapse of a mountain (often volcanic that represent relatively cohesive fragments of the mountain edifice. Examination of 17 debris avalanche deposits in Japan and the Philippines showed that, in general, the larger the magnitude of the hummocks, the smaller their frequency. Hummocks followed an exponential distribution: log10N(x = a – bx, where N(x is the cumulative number of hummocks with magnitude ≥ x and a and b are constants; x is equal to log10A, where A is the area of a hummock. The constants a and b were positively correlated. The value of b, which differs among avalanches and in this analysis ranged between 1 and 3, may be controlled by the mobility of the debris avalanche. Avalanches with higher mobility (relatively longer runout have higher b and potentially produce more numerous fragments forming hummocks (i.e., higher a. From the above correlation, the magnitude-frequency relationship can be used to roughly estimate the original height of the collapsed volcanic body, if the runout distance of the rockslide–debris avalanche can be estimated with sufficient accuracy.

  8. Study of electric field distribution and low frequency noise of CdZnTe radiation detectors

    International Nuclear Information System (INIS)

    Polarization phenomena in a metal-semiconductor-metal (M-S-M) structure of metallic Schottky contacts deposited on CdZnTe radiation detectors were studied. We evaluate the distribution of the electric field along the biased M-S-M structure by Pockels measurements. The results show that almost all the electric field is developed across the depletion layer of the reverse-biased contact. The noise measurements of the CdZnTe detectors studied show that the dominant noise is 1/fm noise. The 1/fm noise, with the parameter m close to one, is present at frequencies below 100 Hz and its bandwidth decreases in the course of the polarization process. At higher frequencies, we observed an increase of the m parameter to 2, which indicates a strengthened effect of the generation-recombination processes. In the frequency band of dominating 1/fm=1 noise, the increase of magnitude of the noise spectral density was proportional to the power of 6, in relation to the current through the detector. This high value is explained as a result of a screening effect of the space charge buildup during the polarization.

  9. NODC Standard Product: International ocean atlas Volume 4 - Atlas of temperature / salinity frequency distributions (2 disc set) (NODC Accession 0101473)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This Atlas presents more than 80,000 plots of the empirical frequency distributions of temperature and salinity for each 5-degree square area of the North Atlantic...

  10. Impact of protection settings of the distributed generation frequency under 1MW in the national electric system

    International Nuclear Information System (INIS)

    A literature review is conducted to understand the distributed generation, the reason for the introduction into modern power systems and other distributed generation technologies based on renewable energies that have been installed around the country. The frequency protections of distributed generation equipment under 1MW are studied according to international standards like IEEE-1547 and specifications of equipment manufacturers. The influence of the recommended international standards settings are investigated for systems of distributed generation, the performance in frequency that have presented under some frequency perturbation, as well as the influence that can have on the national and regional electrical system, with different amounts of technologies included in the national system. The recommended settings are evaluated through simulations in PSSE program in the context of the behavior of the frequency in the national electric system

  11. Combining Saturnian Craters and Kuiper Belt Observations to Build an Outer Solar System Impactor Size-Frequency Distribution

    Science.gov (United States)

    Minton, D. A.; Richardson, J. E.; Thomas, P.; Kirchoff, M.; Schwamb, M. E.

    2012-05-01

    Using Cassini mission imagery of the icy satellites of Saturn, numerical simulations, and telescopic observation data we produce a model size frequency distribution for outer solar system impactors spanning tens of meters to thousands of kilometers.

  12. The Distribution and Frequency of the Terms "Pride" and "Prejudice" in Jane Austen's Pride and Prejudice

    OpenAIRE

    Tanja Dromnes; Sandra Lee Kleppe; Kenneth Mikalsen; Sigrid Solhaug

    2009-01-01

    In this article we examine the title terms of Jane Austen's Pride and Prejudice (1813) with particular attention to their distribution and frequency in the text. Our method is to connect the statistical material gathered on frequency and distribution to a narratological analysis of the terms, with special emphasis on whether they occur within the focalization of the external narrator, or that of character-focalizers. In order to approach this task, we have availed ourselves of the narratologi...

  13. Magnitude-frequency distribution of submarine landslides in the Gioia Basin (southern Tyrrhenian Sea)

    Science.gov (United States)

    Casas, D.; Chiocci, F.; Casalbore, D.; Ercilla, G.; de Urbina, J. Ortiz

    2016-07-01

    Regional inventories and magnitude-frequency relationships provide critical information about landslides and represent a first step in landslide hazard assessment. Despite this, the availability of accurate inventories in the marine environment remains poor because of the commonly low accessibility of high-resolution data at regional scales. Evaluating high-resolution bathymetric data spanning the time interval 2007-2011 for the Gioa Basin of the southern Tyrrhenian Sea yielded a landslide inventory of 428 events affecting an area of >85 km2 and mobilizing approximately 1.4 km3 of sediment. This is the first time that this area is studied in such detail, justifying comparison with other areas both onland and offshore. Statistical analyses revealed that the cumulative distribution of the dataset is characterized by two right-skewed probability distributions with a heavy tail. Moreover, evidence of a rollover for smaller landslide volumes is consistent with similar trends reported in other settings worldwide. This may reflect an observational limitation and the site-specific geologic factors that influence landslide occurrence. The robust validation of both power-law and log-normal probability distributions enables the quantification of a range of probabilities for new extreme events far from the background landslide sizes defined in the area. This is a useful tool at regional scales, especially in geologically active areas where submarine landslides can occur frequently, such as the Gioia Basin.

  14. Plug-in hybrid electric vehicles as a source of distributed frequency regulation

    Science.gov (United States)

    Mullen, Sara Kathryn

    The movement to transform the North American power grid into a smart grid may be accomplished by expanding integrated sensing, communications, and control technologies to include every part of the grid to the point of end-use. Plug-in hybrid electric vehicles (PHEV) provide an opportunity for small-scale distributed storage while they are plugged-in. With large numbers of PHEV and the communications and sensing associated with the smart grid, PHEV could provide ancillary services for the grid. Frequency regulation is an ideal service for PHEV because the duration of supply is short (order of minutes) and it is the highest priced ancillary service on the market offering greater financial returns for vehicle owners. Using Simulink a power system simulator modeling the IEEE 14 Bus System was combined with a model of PHEV charging and the controllers which facilitate vehicle-to-grid (V2G) regulation supply. The system includes a V2G controller for each vehicle which makes regulation supply decisions based on battery state, user preferences, and the recommended level of supply. A PHEV coordinator controller located higher in the system has access to reliable frequency measurements and can determine a suitable local automatic generation control (AGC) raise/lower signal for participating vehicles. A first step implementation of the V2G supply system where battery charging is modulated to provide regulation was developed. The system was simulated following a step change in loading using three scenarios: (1) Central generating units provide frequency regulation, (2) PHEV contribute to primary regulation analogous to generator speed governor control, and (3) PHEV contribute to primary and secondary regulation using an additional integral term in the PHEV control signal. In both cases the additional regulation provided by PHEV reduced the area control error (ACE) compared to the base case. Unique contributions resulting from this work include: (1) Studied PHEV energy systems

  15. Monetizing Leakage Risk of Geologic CO2 Storage using Wellbore Permeability Frequency Distributions

    Science.gov (United States)

    Bielicki, Jeffrey; Fitts, Jeffrey; Peters, Catherine; Wilson, Elizabeth

    2013-04-01

    Carbon dioxide (CO2) may be captured from large point sources (e.g., coal-fired power plants, oil refineries, cement manufacturers) and injected into deep sedimentary basins for storage, or sequestration, from the atmosphere. This technology—CO2 Capture and Storage (CCS)—may be a significant component of the portfolio of technologies deployed to mitigate climate change. But injected CO2, or the brine it displaces, may leak from the storage reservoir through a variety of natural and manmade pathways, including existing wells and wellbores. Such leakage will incur costs to a variety of stakeholders, which may affect the desirability of potential CO2 injection locations as well as the feasibility of the CCS approach writ large. Consequently, analyzing and monetizing leakage risk is necessary to develop CCS as a viable technological option to mitigate climate change. Risk is the product of the probability of an outcome and the impact of that outcome. Assessment of leakage risk from geologic CO2 storage reservoirs requires an analysis of the probabilities and magnitudes of leakage, identification of the outcomes that may result from leakage, and an assessment of the expected economic costs of those outcomes. One critical uncertainty regarding the rate and magnitude of leakage is determined by the leakiness of the well leakage pathway. This leakiness is characterized by a leakage permeability for the pathway, and recent work has sought to determine frequency distributions for the leakage permeabilities of wells and wellbores. We conduct a probabilistic analysis of leakage and monetized leakage risk for CO2 injection locations in the Michigan Sedimentary Basin (USA) using empirically derived frequency distributions for wellbore leakage permeabilities. To conduct this probabilistic risk analysis, we apply the RISCS (Risk Interference of Subsurface CO2 Storage) model (Bielicki et al, 2013a, 2012b) to injection into the Mt. Simon Sandstone. RISCS monetizes leakage risk

  16. New classification scheme for ozone monitoring stations based on frequency distribution of hourly data.

    Science.gov (United States)

    Tapia, O; Escudero, M; Lozano, Á; Anzano, J; Mantilla, E

    2016-02-15

    According to European Union (EU) legislation, ozone (O3) monitoring sites can be classified regarding their location (rural background, rural, suburban, urban) or based on the presence of emission sources (background, traffic, industrial). There have been attempts to improve these classifications aiming to reduce their ambiguity and subjectivity, but although scientifically sound, they lack the simplicity needed for operational purposes. We present a simple methodology for classifying O3 stations based on the characteristics of frequency distribution curves which are indicative of the actual impact of combustion sources emitting NO that consumes O3 via titration. Four classes are identified using 1998-2012 hourly data from 72 stations widely distributed in mainland Spain and the Balearic Islands. Types 1 and 2 present unimodal bell-shaped distribution with very low amount of data near zero reflecting a limited influence of combustion sources while Type 4 has a primary mode close to zero, showing the impact of combustion sources, and a minor mode for higher concentrations. Type 3 stations present bimodal distributions with the main mode in the higher levels. We propose a quantitative metric based on the Gini index with the objective of reproducing this classification and finding empirical ranges potentially useful for future classifications. The analysis of the correspondence with the EUROAIRNET classes for the 72 stations reveals that the proposed scheme is only dependent on the impact of combustion sources and not on climatic or orographic aspects. It is demonstrated that this classification is robust since in 87% of the occasions the classification obtained for individual years coincide with the global classification obtained for the 1998-2012 period. Finally, case studies showing the applicability of the new classification scheme for assessing the impact on O3 of a station relocation and performing a critical evaluation of an air quality monitoring network are

  17. Frequency of inhibitors of daphnid trypsin in the widely distributed cyanobacterial genus Planktothrix

    DEFF Research Database (Denmark)

    Rohrlack, T.; Christoffersen, K.; Friberg-Jensen, U.

    2005-01-01

    Recent findings showed that inhibition of the digestive enzyme trypsin by cyanobacterial metabolites can result in the death of the microcrustacean Daphnia. Compounds that are active against daphnid trypsin can therefore be considered as potentially toxic to Daphnia. Here we reported on the...... frequency of such compounds in the widely distributed cyanobacterial genus Planktothrix. Of the 89 Planktothrix strains analysed, about 70% produced inhibitors of daphnid trypsin. The strains tested positive represented three common Planktothrix species and were isolated from diverse localities and...... geographical regions. Our findings suggest therefore that inhibitors of daphnid trypsin are common in Planktothrix and maybe other cyanobacterial genera. These compounds should therefore be considered in future studies on the chemical ecology of cyanobacteria....

  18. LARGE SCALE DISTRIBUTED PARAMETER MODEL OF MAIN MAGNET SYSTEM AND FREQUENCY DECOMPOSITION ANALYSIS

    Energy Technology Data Exchange (ETDEWEB)

    ZHANG,W.; MARNERIS, I.; SANDBERG, J.

    2007-06-25

    Large accelerator main magnet system consists of hundreds, even thousands, of dipole magnets. They are linked together under selected configurations to provide highly uniform dipole fields when powered. Distributed capacitance, insulation resistance, coil resistance, magnet inductance, and coupling inductance of upper and lower pancakes make each magnet a complex network. When all dipole magnets are chained together in a circle, they become a coupled pair of very high order complex ladder networks. In this study, a network of more than thousand inductive, capacitive or resistive elements are used to model an actual system. The circuit is a large-scale network. Its equivalent polynomial form has several hundred degrees. Analysis of this high order circuit and simulation of the response of any or all components is often computationally infeasible. We present methods to use frequency decomposition approach to effectively simulate and analyze magnet configuration and power supply topologies.

  19. Frequency doubling of a passively mode-locked monolithic distributed Bragg reflector diode laser.

    Science.gov (United States)

    Jedrzejczyk, D; Prziwarka, T; Klehr, A; Brox, O; Wenzel, H; Paschke, K; Erbert, G

    2014-05-20

    In this work, frequency doubling of a passively mode-locked 3.5 mm long monolithic distributed Bragg reflector diode laser is investigated experimentally. At 1064 nm, optical pulses with a duration of 12.4 ps are generated at a repetition rate of 13 GHz and a peak power of 825 mW, resulting in an average power of 133 mW. Second-harmonic generation is carried out in a periodically poled MgO-doped LiNbO₃ ridge waveguide at a normalized nonlinear conversion efficiency of 930%/W. A maximum average second-harmonic power of 40.9 mW, corresponding to a pulse energy of 3.15 pJ, is reached in the experiment at an opto-optical conversion efficiency of 30.8%. The normalized nonlinear conversion efficiency in mode-locked operation is more than 2 times larger compared to continuous-wave operation. PMID:24922212

  20. Frequency and distribution of leakages in steam generators of gas-cooled reactors

    International Nuclear Information System (INIS)

    In gas cooled reactors with graphitic primary circuit structures - such as HTR, AGR or Magnox - the water ingress is an event of great safety concern. Water or steam entering the primary circuit react with the hot graphite and carbon-oxide and hydrogen are produced. As the most important initiating event a leak in a steam generator must be taken into account. From the safety point of view as well as for availability reasons it is necessary to construct reliable boilers. Thus the occurrence of a boiler leak should be a rare event. In the context of a probabilistic safety study for an HTR-Project much effort was invested to get information about the frequency and the size distribution of tube failures in steam generators of gas cooled reactors. The main data base was the boiler tube failure statistics of United Kingdom gas cooled reactors. The data were selected and applied to a modern HTR steam generator design. A review of the data showed that the failure frequency is not connected with the load level (pressures, temperatures) or with the geometric size of the heating surface of the boiler. Design, construction, fabrication, examination and operation conditions have the greatest influence an the failure frequency but they are practically not to be quantified. The typical leak develops from smallest size. By erosion effects of the entering water or steam it is enlarged to perhaps some mm2, then usually it is detected by moisture monitors. Sudden tube breaks were not reported in the investigated period. As a rule boiler leaks in gas cooled reactors are much more, rare then leaks in steam generators of light water reactors and fossil fired boilers. (author)

  1. HLA Dr beta 1 alleles in Pakistani patients with rheumatoid arthritis

    International Nuclear Information System (INIS)

    Objective: To determine frequencies of HLA DR beta 1 alleles in rheumatoid arthritis in Pakistani patients. Study Design: Cross sectional / analytical study. Place and Duration of Study: Department of Immunology, Armed Forces Institute of Pathology, Rawalpindi in collaboration with Rheumatology departments of Military Hospital, Rawalpindi and Fauji Foundation Hospital, Rawalpindi, from January 2009 to January 2010. Methodology: HLA DR beta 1 genotyping of one hundred Pakistani patients, diagnosed as having RA as per American College of Rheumatology revised criteria 1987, was done. HLA DR beta 1 genotyping was carried out at allele group level (DR beta 1*01-DR beta 1*16) by sequence specific primers in RA patients. Comparison of HLA DR beta 1 allele frequencies between patients and control groups was made using Pearson's chi-square test to find possible association of HLA DR?1 alleles with RA in Pakistani rheumatoid patients. Results: HLA DR beta 1*04 was expressed with significantly increased frequency in patients with rheumatoid arthritis (p <0.05). HLA DR?1*11 was expressed statistically significantly more in control group as compared to rheumatoid patients indicating a possible protective effect. There was no statistically significant difference observed in frequencies of HLA DR beta 1 allele *01, DR beta 1 allele *03, DR beta 1 allele *07, DR beta 1 allele *08, DR beta 1 allele *09, DR beta 1 allele *10, DR beta 1 allele *12, DR beta 1 allele *13, DR beta 1 allele *14, DR?1 allele *15 and DR beta 1 allele *16 between patients and control groups. Conclusion: The identification of susceptible HLA DR beta 1 alleles in Pakistani RA patients may help physicians to make early decisions regarding initiation of early intensive therapy with disease modifying anti rheumatic medicines and biological agents decreasing disability in RA patients. (author)

  2. Implications of the shape of design hyetograph in the derived flood frequency distribution

    Science.gov (United States)

    Sordo-Ward, A.; Bianucci, P.; Garrote, L.

    2012-04-01

    Hydrometeorological methods for rainfall-runoff transformation are frequently used when the hydrological design of hydraulic infrastructures is considered. These methods imply to determinate the design storm which is usually characterised by the return period of its total depth of precipitation. In the other hand, the shape of the hyetograph, i.e. the temporal pattern of the storm, has a relevant implication in the resulting hydrograph. In this work we analysed the influence that the within-storm rainfall intensity distribution has on the derived flood frequency (DFF) law. This was addressed by comparing the DFF's obtained from two different ensembles of hyetographs with the same total depth frequency distribution and constant total duration. One ensemble of hyetograph (BA) was determined using the alternating blocks method which is usually assumed to provide more adverse hydrological load. The second ensemble (MC) was obtained using a stochastic storm generator developed in a Monte Carlo framework. The ratios between corresponding maximum flows were calculated for selected return periods (RP) as a measure of the difference between both DFF's. The variation of this quotient was analysed regarding the return period and basin configuration. We considered three different discretization scales for the 1241-km2 Manzanares River basin with outlet near Rivas-Vaciamadrid, in the Region of Madrid (Spain). The three levels correspond to high resolution (HR, basin divided into 62 sub-catchments), medium resolution (MR, 33 sub-catchments), and low resolution (LR, 14 sub-catchments). For the case studied, and for the three configuration considered, the DFF obtained from the alternating blocks hyetograph was not such adverse as it was expected to be. The flow peak ratio kept practically constant across the RP range. While the BA-quantiles for each subbasin's DFF were higher than MC-quantiles in a 10% to 40%; the peak flow ratios at the catchment outlet took values close to one

  3. Analysis and applications of a frequency selective surface via a random distribution method

    International Nuclear Information System (INIS)

    A novel frequency selective surface (FSS) for reducing radar cross section (RCS) is proposed in this paper. This FSS is based on the random distribution method, so it can be called random surface. In this paper, the stacked patches serving as periodic elements are employed for RCS reduction. Previous work has demonstrated the efficiency by utilizing the microstrip patches, especially for the reflectarray. First, the relevant theory of the method is described. Then a sample of a three-layer variable-sized stacked patch random surface with a dimension of 260 mm×260 mm is simulated, fabricated, and measured in order to demonstrate the validity of the proposed design. For the normal incidence, the 8-dB RCS reduction can be achieved both by the simulation and the measurement in 8 GHz–13 GHz. The oblique incidence of 30° is also investigated, in which the 7-dB RCS reduction can be obtained in a frequency range of 8 GHz–14 GHz. (condensed matter: electronic structure, electrical, magnetic, and optical properties)

  4. Separating cognitive processes with principal components analysis of EEG time-frequency distributions

    Science.gov (United States)

    Bernat, Edward M.; Nelson, Lindsay D.; Holroyd, Clay B.; Gehring, William J.; Patrick, Christopher J.

    2008-08-01

    Measurement of EEG event-related potential (ERP) data has been most commonly undertaken in the time-domain, which can be complicated to interpret when separable activity overlaps in time. When the overlapping activity has distinct frequency characteristics, however, time-frequency (TF) signal processing techniques can be useful. The current report utilized ERP data from a cognitive task producing typical feedback-related negativity (FRN) and P300 ERP components which overlap in time. TF transforms were computed using the binomial reduced interference distribution (RID), and the resulting TF activity was then characterized using principal components analysis (PCA). Consistent with previous work, results indicate that the FRN was more related to theta activity (3-7 Hz) and P300 more to delta activity (below 3 Hz). At the same time, both time-domain measures were shown to be mixtures of TF theta and delta activity, highlighting the difficulties with overlapping activity. The TF theta and delta measures, on the other hand, were largely independent from each other, but also independently indexed the feedback stimulus parameters investigated. Results support the view that TF decomposition can greatly improve separation of overlapping EEG/ERP activity relevant to cognitive models of performance monitoring.

  5. Study of the Frequency Distribution in Unstretched and Stretched Rubber by Neutron Inelastic Scattering

    International Nuclear Information System (INIS)

    A neutron inelastic scattering study of unvulcanized natural rubber in the normal state and stretched to about five times its original length was performed using time-of-flight techniques in the pulsed reactor IBR at JINR, Dubna. The energy analysis was performed with a beryllium filter and in some of the experiments with the additional Bragg reflection from a large single-crystal of zinc to obtain a better resolution. Scattering together with the strain of the sample both parallel and perpendicular to the scattering vector was studied. The results were analysed in terms of the frequency distribution function, assuming single-phonon scattering to be dominant. The density of the low-energy modes was found to be reduced by stretching. This may be attributed to the unlinear change of elastic constants in stretching, making the initial slope of the dispersion curves more steep. The high-energy modes were found to stay almost unchanged. An additional band of frequencies was found in the region of 10-12 meV in the case of the strain parallel to the scattering vector. This can be attributed to flattening of the dispersion curves in this energy region. Summarizing, one may say that the stretching of the sample shifts part of the low-energy modes to higher energies, probably by making the dispersion curves more steep in the beginning and bending them more flat in the 10-12 meV region for phonons travelling in the direction of the strain. (author)

  6. Population genetics of the vitamin D binding protein (GC) subtypes in the Asian-Pacific area: description of new alleles at the GC locus.

    Science.gov (United States)

    Kamboh, M I; Ranford, P R; Kirk, R L

    1984-01-01

    Isoelectric focussing (IEF) in thin layer polyacrylamide gels pH range 4-6.5 has been used to analyse the GC phenotypes of 4233 individuals from 28 different population groups in the Asian, Pacific, and Australian area. Because this technique reveals subtypes of the common GC*1 allele, there is almost a two-fold increase in the mean heterozygosity at the GC locus using IEF compared with conventional electrophoresis. The highest frequency (above 50%) of the GC*1S allele was encountered in Indian populations, reflecting genetic affinities with Europeans. By comparison, east and south east Asians are unique offing maximum values of the GC*1F allele (50%). With the exception of a few Pacific populations which show similar frequencies to east Asians, all other groups in the Pacific area, including Australia, have values of GC*1F similar to GC*1S ranging from 27% to 40%. The GC*2 frequency in most populations varies from 20% to 30%. However, some Polynesian groups have values up to 40% and Australian Aborigines less than 10%. Among other alleles, GC*1A1 is found to be widely distributed among Australian Aborigines and Melanesians and occurs sporadically in Polynesians, Micronesians, and in the Lesser Sunda Islands. Four new alleles, GC*1C24, GC*1C35 Aborigine, GC*1A21, and GC*1A22 are described. The gene frequency data at the GC locus has been used to calculate Nei genetic distances between the populations studied. PMID:6541632

  7. Accurate fault location technique for distribution system using fault-generated high-frequency transient voltage signals

    Energy Technology Data Exchange (ETDEWEB)

    Bo, Z.Q.; Weller, G. [Alstom T and D Protection Control Ltd., Stafford (United Kingdom); Redfern, M.A. [University of Bath (United Kingdom). Dept. of Electronic and Electrical Engineering

    1999-01-01

    A technique is presented for accurate fault location on distribution overhead lines and underground cables. A specially designed fault locator unit is used to capture the high-frequency voltage transient signal generated by faults on the distribution line/cable. The travelling time of the high-frequency components is used to determine the fault position. The technique is insensitive to fault type, fault resistance, fault inception angle and system source configuration, and is able to offer very high accuracy in fault location in a distribution system. (author)

  8. Correlation between carboxylesterase alleles and insecticide resistance in Culex pipiens complex from China

    Directory of Open Access Journals (Sweden)

    Liu Yangyang

    2011-12-01

    Full Text Available Abstract Background In China, large amounts of chemical insecticides are applied in fields or indoors every year, directly or indirectly bringing selection pressure on vector mosquitoes. Culex pipiens complex has evolved to be resistant to all types of chemical insecticides, especially organophosphates, through carboxylesterases. Six resistant carboxylesterase alleles (Ester were recorded previously and sometimes co-existed in one field population, representing a complex situation for the evolution of Ester genes. Results In order to explore the evolutionary scenario, we analyzed the data from an historical record in 2003 and a recent investigation on five Culex pipiens pallens populations sampled from north China in 2010. Insecticide bioassays showed that these five populations had high resistance to pyrethroids, medium resistance to organophosphates, and low resistance to carbamates. Six types of Ester alleles, EsterB1, Ester2, Ester8, Ester9, EsterB10, and Ester11 were identified, and the overall pattern of their frequencies in geographic distribution was consistent with the report seven years prior to this study. Statistical correlation analysis indicated that Ester8 and Ester9 positively correlated with resistance to four insecticides, and EsterB10 to one insecticide. The occurrences of these three alleles were positively correlated, while the occurrence of EsterB1 was negatively correlated with Ester8, indicating an allelic competition. Conclusion Our analysis suggests that one insecticide can select multiple Ester alleles and one Ester allele can work on multiple insecticides. The evolutionary scenario of carboxylesterases under insecticide selection is possibly "one to many".

  9. Effect of low frequency MHD instability on fast ion distribution in NSTX

    Science.gov (United States)

    Hao, G.; Liu, D.; Heidbrink, W. W.; Podesta, M.; Fredrickson, E. D.; Bortolon, A.; White, R.; Darrow, D.; Fu, G. Y.; Wang, Z. R.; Kramer, G. J.; Liu, Y. Q.; Tritz, K.

    2015-11-01

    In NSTX spherical tokamak plasmas, the onset of low-frequency MHD modes cause a rapid ~ 25% reduction in the fast-ion D-alpha (FIDA) signal. These, 5-20 kHz instabilities are commonly observed in the early phase of neutral beam heated plasmas that often have reversed magnetic shear in the plasma core. The collapse of the core fast ion density is measured by the vertical FIDA diagnostic. Although the profile flattens, changes in spectral shape are modest, suggesting that much of the distribution function is affected. Meanwhile, a modest increase of fast-ion losses is indicated by the measurements from neutron and fast-ion loss detectors. Moreover, this mode is always accompanied by Compressional Alfven Eigenmode (CAE). This suggests that low-f MHD instabilities can cause the redistribution of fast ions in both real and velocity space. Preliminary simulation results from the MARS-F code suggest that the low-f instability is a coupled infernal-peeling mode. The dependence of the mode's onset on the equilibrium parameters and its effect on the fast ion distribution will be computed, and compared with experimental measurements. Work supported by U.S. DOE DE-AC0209CH11466, DE-FG02-06ER54867, and DE-FG03-02ER54681.

  10. Ion energy distribution functions behind the sheaths of magnetized and non-magnetized radio frequency discharges

    International Nuclear Information System (INIS)

    The effect of a magnetic field on the characteristics of capacitively coupled radio frequency discharges is investigated and found to be substantial. A one-dimensional particle-in-cell simulation shows that geometrically symmetric discharges can be asymmetrized by applying a spatially inhomogeneous magnetic field. This effect is similar to the recently discovered electrical asymmetry effect. Both effects act independently, they can work in the same direction or compensate each other. Also the ion energy distribution functions at the electrodes are strongly affected by the magnetic field, although only indirectly. The field influences not the dynamics of the sheath itself but rather its operating conditions, i.e. the ion flux through it and voltage drop across it. To support this interpretation, the particle-in-cell results are compared with the outcome of the recently proposed ensemble-in-spacetime algorithm. Although that scheme resolves only the sheath and neglects magnetization, it is able to reproduce the ion energy distribution functions with very good accuracy, regardless of whether the discharge is magnetized or not. (paper)

  11. Random survey for RH allele polymorphism among 50 native Tibetans

    OpenAIRE

    Wei, Qing

    2006-01-01

    Rhesus D (RHD) allele distribution varied significantly among different population. However, no data are available for people, like Tibetans, living at extreme altitudes, where the oxygen density is decreased. A comprehensive study has been performed to define the Rhesus (RH) allele polymorphism and RH haplotype distribution in 50 native Tibetans. Nucleotide sequencing from genomic deoxyribonucleic acid (DNA) for 10 Rhesus D gene (RHD) exons in all of 50 samples plus 10 Rhesus CE gene (RHCE) ...

  12. Tuning and optimization of the field distribution for 4-rod Radio Frequency Quadrupole linacs

    International Nuclear Information System (INIS)

    In this thesis, the tuning process of the 4-rod Radio Frequency Quadrupole has been analyzed and a theory for the prediction of the tuning plate's influence on the longitudinal voltage distribution was developed together with RF design options for the optimization of the fringe fields. The basic principles of the RFQ's particle dynamics and resonant behavior are introduced in the theory part of this thesis. All studies that are presented are based on the work on four RFQs of recent linac projects. These RFQs are described in one chapter. Here, the projects are introduced together with details about the RFQ parameters and performance. In the meantime two of these RFQs are in full operation at NSCL at MSU and FNAL. One is operating in the test phase of the MedAustron Cancer Therapy Center and the fourth one for LANL is about to be built. The longitudinal voltage distribution has been studied in detail with a focus on the influence of the RF design with tuning elements and parameters like the electrodes overlap or the distance between stems. The theory for simulation methods for the field flatness that were developed as part of this thesis, as well as its simulation with CST MWS have been analyzed and compared to measurements. The lumped circuit model has proven to predict results with an accuracy that can be used in the tuning process of 4-rod RFQs. Together with results from the tuning studies, the studies on the fringe fields of the 4-rod structure lead to a proposal for a 4-rod RFQ model with an improved field distribution in the transverse and longitudinal electric field.

  13. Functional shape of the earthquake frequency-magnitude distribution and completeness magnitude

    Science.gov (United States)

    Mignan, A.

    2012-08-01

    We investigated the functional shape of the earthquake frequency-magnitude distribution (FMD) to identify its dependence on the completeness magnitude Mc. The FMD takes the form N(m) ∝ exp(-βm)q(m) where N(m) is the event number, m the magnitude, exp(-βm) the Gutenberg-Richter law and q(m) a detection function. q(m) is commonly defined as the cumulative Normal distribution to describe the gradual curvature of bulk FMDs. Recent results however suggest that this gradual curvature is due to Mc heterogeneities, meaning that the functional shape of the elemental FMD has yet to be described. We propose a detection function of the form q(m) = exp(κ(m - Mc)) for m FMD of angular shape. The two FMD models are compared in earthquake catalogs from Southern California and Nevada and in synthetic catalogs. We show that the angular FMD model better describes the elemental FMD and that the sum of elemental angular FMDs leads to the gradually curved bulk FMD. We propose an FMD shape ontology consisting of 5 categories depending on the Mc spatial distribution, from Mc constant to Mc highly heterogeneous: (I) Angular FMD, (II) Intermediary FMD, (III) Intermediary FMD with multiple maxima, (IV) Gradually curved FMD and (V) Gradually curved FMD with multiple maxima. We also demonstrate that the gradually curved FMD model overestimates Mc. This study provides new insights into earthquake detectability properties by using seismicity as a proxy and the means to accurately estimate Mc in any given volume.

  14. Allele coding in genomic evaluation

    Directory of Open Access Journals (Sweden)

    Christensen Ole F

    2011-06-01

    Full Text Available Abstract Background Genomic data are used in animal breeding to assist genetic evaluation. Several models to estimate genomic breeding values have been studied. In general, two approaches have been used. One approach estimates the marker effects first and then, genomic breeding values are obtained by summing marker effects. In the second approach, genomic breeding values are estimated directly using an equivalent model with a genomic relationship matrix. Allele coding is the method chosen to assign values to the regression coefficients in the statistical model. A common allele coding is zero for the homozygous genotype of the first allele, one for the heterozygote, and two for the homozygous genotype for the other allele. Another common allele coding changes these regression coefficients by subtracting a value from each marker such that the mean of regression coefficients is zero within each marker. We call this centered allele coding. This study considered effects of different allele coding methods on inference. Both marker-based and equivalent models were considered, and restricted maximum likelihood and Bayesian methods were used in inference. Results Theoretical derivations showed that parameter estimates and estimated marker effects in marker-based models are the same irrespective of the allele coding, provided that the model has a fixed general mean. For the equivalent models, the same results hold, even though different allele coding methods lead to different genomic relationship matrices. Calculated genomic breeding values are independent of allele coding when the estimate of the general mean is included into the values. Reliabilities of estimated genomic breeding values calculated using elements of the inverse of the coefficient matrix depend on the allele coding because different allele coding methods imply different models. Finally, allele coding affects the mixing of Markov chain Monte Carlo algorithms, with the centered coding being

  15. MHC-DAB allele polymorphism in Japanese flounders Paralichthys olivaceus

    OpenAIRE

    XU Tian-Jun; Chen, Song-Lin; Tian, Yong-Sheng

    2008-01-01

    Polymorphism of the major histocompatibility complex DAB gene in Japanese flounder (Paralichthys olivaceus) was investigated using sequences analysis. In this study, 24 individuals were selected to amplify partial exon1 and intron2, complete intron1 and exon2 of DAB gene. 131 sequences were subsequently used to analyze genetic variation and revealed 31 different sequences, which presented 31 novel alleles belonging to 19 allele major types according to accepted nomenclature rules. Frequency o...

  16. M-protein gene-type distribution and hyaluronic acid capsule in group A Streptococcus clinical isolates in Chile: association of emm gene markers with csrR alleles.

    Science.gov (United States)

    Wozniak, A; Rojas, P; Rodríguez, C; Undabarrena, A; Garate, C; Riedel, I; Román, J C; Kalergis, A M; García, P

    2012-07-01

    Streptococcus pyogenes causes a variety of infections because of virulence factors such as capsular hyaluronic acid and M protein. The aim of this study was to determine emm types and capsule phenotype in 110 isolates of S. pyogenes from patients with invasive (sterile sites) and non-invasive (mainly pharyngitis) infections in Chile, and the relationship between both virulence factors. The most abundant types found were emm12, emm1, emm4 and emm28 and their distribution was similar to that seen in Latin America and developed countries, but very different from that in Asia and Pacific Island countries. Ten of 16 emm types identified in pharyngeal isolates were found in sterile-site isolates, and three of nine emm types of sterile-site isolates occurred in pharyngeal isolates; three emm subtypes were novel. The amount of hyaluronic acid was significantly higher in sterile-site isolates but did not differ substantially among emm types. Only three isolates were markedly capsulate and two of them had mutations in the csrR gene that codes for a repressor of capsule synthesis genes. We found a non-random association between emm types and csrR gene alleles suggesting that horizontal gene transfer is not freely occurring in the population. PMID:21906413

  17. Impact of Channel-like Erosion Patterns on the Frequency-Magnitude Distribution of Earthquakes

    Science.gov (United States)

    Rohmer, J.; Aochi, H.

    2015-12-01

    Reactive flow at depth (either related to underground activities like enhancement of hydrocarbon recovery, CO2 storage or to natural flow like in hydrothermal zones) can alter fractures' topography, which might in turn change their seismic responses. Depending on the flow and reaction rates, instability of the dissolution front can lead to a wormhole-like pronounced erosion pattern (Szymczak & Ladd, JGR, 2009). In a fractal structure of rupture process (Ide & Aochi, JGR, 2005), we question how the perturbation related to well-spaced long channels alters rupture propagation initiated on a weak plane and eventually the statistical feature of rupture appearance in Frequency-Magnitude Distribution FMD (Rohmer & Aochi, GJI, 2015). Contrary to intuition, a spatially uniform dissolution is not the most remarkable case, since it affects all the events proportionally to their sizes leading to a downwards translation of FMD: the slope of FMD (b-value) remains unchanged. An in-depth parametric study was carried out by considering different pattern characteristics: spacing S varying from 0 to 100 and length L from 50 to 800 and fixing the width w=1. The figure shows that there is a region of optimum channels' characteristics for which the b-value of the Gutenberg Richter law is significantly modified with p-value ~10% (corresponding to area with red-coloured boundaries) given spacing to length ratio of the order of ~1/40: large magnitude events are more significantly affected leading to an imbalanced distribution in the magnitude bins of the FMD. The larger the spacing, the lower the channel's influence. The decrease of the b-value between intact and altered fractures can reach values down to -0.08. Besides, a spatial analysis shows that the local seismicity anomaly concentrates in a limited zone around the channels: this opens perspective for detecting these eroded regions through high-resolution imaging surveys.

  18. Allelic diversity within the high frequency Mamu-A2*05/Mane-A2*05 (Mane-A*06)/Mafa-A2*05 family of macaque MHC-A loci

    OpenAIRE

    Wu, Jin; Bassinger, Sue; Montoya, George D.; Chavez, Leonard; Jones, Carrie E.; Holder-Lockyer, Brigitte; Masten, Barbara; Williams, Thomas M.; Prilliman, Kiley R.

    2008-01-01

    Macaque species serve as important animal models of human infection and immunity. To more fully scrutinize their potential in both the analysis of disease pathogenesis and vaccine development, it is necessary to characterize the Major Histocompatibility Complex (MHC) class I loci of Macaca mulatta (Mamu), Macaca nemestrina (Mane), and Macaca fascicularis (Mafa) at the genomic level. The oligomorphic Mamu-A2*05/Mane-A2*05 (previously known as Mane-A*06) family of macaque MHC-A alleles has rece...

  19. Sporadic inclusion body myositis: HLA-DRB1 allele interactions influence disease risk and clinical phenotype.

    Science.gov (United States)

    Mastaglia, Frank L; Needham, Merrilee; Scott, Adrian; James, Ian; Zilko, Paul; Day, Timothy; Kiers, Lynette; Corbett, Alastair; Witt, Campbell S; Allcock, Richard; Laing, Nigel; Garlepp, Michael; Christiansen, Frank T

    2009-11-01

    Susceptibility to sIBM is strongly associated with the HLA-DRB1*03 allele and the 8.1 MHC ancestral haplotype (HLA-A1, B8, DRB1*03) but little is known about the effects of allelic interactions at the DRB1 locus or disease-modifying effects of HLA alleles. HLA-A, B and DRB1 genotyping was performed in 80 Australian sIBM cases and the frequencies of different alleles and allele combinations were compared with those in a group of 190 healthy controls. Genotype-phenotype correlations were also investigated. Amongst carriers of the HLA-DRB1*03 allele, DRB1*03/*01 heterozygotes were over-represented in the sIBM group (pHLA-DRB1*03 allele and other alleles at the DRB1 locus can influence disease susceptibility and the clinical phenotype in sIBM. PMID:19720533

  20. Frequencies and geographic distributions of genetic mutations in transthyretin- and non-transthyretin-related familial amyloidosis.

    Science.gov (United States)

    Zhen, D B; Swiecicki, P L; Zeldenrust, S R; Dispenzieri, A; Mauermann, M L; Gertz, M A

    2015-10-01

    Inherited forms of amyloidosis are rare; of these, transthyretin-related (ATTR) is the most common, but non-ATTR has been described as well. We studied a large case series of ATTR and a small series of non-ATTR to better determine the mutation frequencies and geographic distributions of these inherited forms of amyloidosis in the United States. We performed a retrospective cross-sectional study of 284 ATTR and non-ATTR patients seen at Mayo Clinic in Rochester, Minnesota, from 1 January 1970 through 29 January 2013. Mutations were identified by DNA sequencing, restriction fragment length polymorphism, or mass spectroscopy. The genetic testing method was unknown for several patients, but a small proportion were identified by family history or by classical clinical presentation associated with a specific mutation. The most common ATTR mutations were Thr60Ala (24%), Val30Met (15%), Val122Ile (10%), and Ser77Tyr (5%). Non-ATTR mutations included gelsolin (n = 3), apolipoprotein A-I (n = 6), apolipoprotein A-II (n = 1), fibrinogen A-α (n = 9), and lysozyme (n = 1). Although rare, ATTR and, to a lesser extent, non-ATTR are prevalent in the United States and should be considered for patients presenting in the appropriate clinical context. PMID:25211232

  1. Blind Identification of Distributed Antenna Systems with Multiple Carrier Frequency Offsets

    CERN Document Server

    Yu, Yuanning; Poor, H Vincent

    2007-01-01

    In spatially distributed multiuser antenna systems, the received signal contains multiple carrier-frequency offsets (CFOs) arising from mismatch between the oscillators of transmitters and receivers. This results in a time-varying rotation of the data constellation, which needs to be compensated at the receiver before symbol recovery. In this paper, a new approach for blind CFO estimation and symbol recovery is proposed. The received base-band signal is over-sampled, and its polyphase components are used to formulate a virtual Multiple-Input Multiple-Output (MIMO) problem. By applying blind MIMO system estimation techniques, the system response can be estimated and decoupled versions of the user symbols can be recovered, each one of which contains a distinct CFO. By applying a decision feedback Phase Lock Loop (PLL), the CFO can be mitigated and the transmitted symbols can be recovered. The estimated MIMO system response provides information about the CFOs that can be used to initialize the PLL, speed up its ...

  2. Influence of electrode material on measured ion kinetic-energy distributions in radio-frequency discharges

    International Nuclear Information System (INIS)

    The measurement of ion kinetic energies is important for understanding processes that occur in discharges, e.g., the influence of ions on the etching of semiconductor materials in plasma reactors. Direct measurements of ion kinetic energies striking surfaces exposed to the discharge requires sampling through an orifice in a surface. Difficulties with ion sampling through a small aperture, manifested by errors or distortions in measured ion kinetic-energy distributions (IEDs) have been encountered in previous investigations of both dc and radio-frequency (rf) discharges. The errors are usually most significant at relatively low ion energies. Previous measurements in our laboratory of IEDs for ions sampled through a 0.1-mm hole in a grounded, aluminum electrode for rf discharges in argon showed evidence of reduced detection efficiency (discrimination) for low energy ions (<10 eV), and apparent shifts in the measured ion energies for plasmas generated in other gases. It has been suggested that surface charging at or near the sampling orifice can cause both discrimination and energy shifts. The existence of an insulating, or partially insulating, layer of aluminum oxide on the surface of an electrode allows the possibility of surface-charge accumulation. In the present work, IEDs were measured at both aluminum and 304 stainless-steel grounded electrodes with 0.1 mm sampling orifices in rf plasmas generated in argon and oxygen

  3. Langmuir probe and electron energy distribution function measurements of radio frequency ion source

    International Nuclear Information System (INIS)

    In this work a single langmuir probe is used to investigate the low pressure radio-frequency (RF) discharge in argon. The current-voltage characteristic of the probe is used to provide the fundamental plasma parameters, including the electron temperature (Te), electron density (ne), floating potential (vf) and plasma potential (vp).The data are collected at plasma source pressure varying from 1 to 80 mtorr and the discharge powers in the range of 25-250 w. The measurements give an electron density and temperature of ne=1.8 x 1010 to 9.2 x 1011 cm-3 and Te=1.75 to 4.5 eV, respectively. The electron energy distribution function (EEDF) and some elementary processes involved in the RF gas discharge is deduced. The influence of the RF power and plasma cell pressure on ne,Te and vp of the plasma has been examined. The evaluation of the EEDF and its behavior with the pressure in the plasma source is also revealed.

  4. Quantifying the spatiotemporal distribution of Ultralow Frequency waves in global simulations

    Science.gov (United States)

    Komar, C. M.; Glocer, A.; Hartinger, M.; Fok, M. C. H.; Murphy, K. R.

    2015-12-01

    It is well known that relativistic electrons in the outer radiation belt are highly dynamic and respond to impulsive interplanetary structures interacting with Earth's magnetic field. Two known mechanisms that contribute to the observed dynamics of these electron populations are: Ultralow Frequency (ULF) waves and magnetopause shadowing. The former causes the electrons to change their radial location in order to conserve the quantity associated with the electrons' azimuthal drift around Earth; the latter describes the process by which these electrons leave Earth's inner magnetosphere and are lost to interplanetary space. The present work couples the bounce-averaged kinetic Comprehensive Inner Magnetosphere-Ionosphere (CIMI) model to simulate the ring current and radiation belt populations with the Block Adaptive Tree Solar wind Roe-type Upwind Scheme (BATS-R-US) global magnetospheric MHD and ionospheric potential models in order to quantify the radial, azimuthal, and temporal distribution of ULF waves generated by the interaction between impulsive solar wind structures and Earth's magnetic field. Changes to and losses of relativistic (1-5 MeV) electron populations resulting from the aforementioned mechanisms are investigated.

  5. High-frequency oscillations in distributed neural networks reveal the dynamics of human decision making

    Directory of Open Access Journals (Sweden)

    Adrian G Guggisberg

    2008-03-01

    Full Text Available We examine the relative timing of numerous brain regions involved in human decisions that are based on external criteria, learned information, personal preferences, or unconstrained internal considerations. Using magnetoencephalography (MEG and advanced signal analysis techniques, we were able to non-invasively reconstruct oscillations of distributed neural networks in the high-gamma frequency band (60–150 Hz. The time course of the observed neural activity suggested that two-alternative forced choice tasks are processed in four overlapping stages: processing of sensory input, option evaluation, intention formation, and action execution. Visual areas are activated fi rst, and show recurring activations throughout the entire decision process. The temporo-occipital junction and the intraparietal sulcus are active during evaluation of external values of the options, 250–500 ms after stimulus presentation. Simultaneously, personal preference is mediated by cortical midline structures. Subsequently, the posterior parietal and superior occipital cortices appear to encode intention, with different subregions being responsible for different types of choice. The cerebellum and inferior parietal cortex are recruited for internal generation of decisions and actions, when all options have the same value. Action execution was accompanied by activation peaks in the contralateral motor cortex. These results suggest that high-gamma oscillations as recorded by MEG allow a reliable reconstruction of decision processes with excellent spatiotemporal resolution.

  6. Seasonal Variation and Frequency Distribution of Ectoparasites in Crossbreed Cattle in Southeastern Brazil

    Directory of Open Access Journals (Sweden)

    Maria do Socorro Ferraz da Costa

    2014-01-01

    Full Text Available The aims of this study were to evaluate the seasonal variation and frequency distribution of Rhipicephalus (Boophilus microplus, Haematobia irritans, and Dermatobia hominis on crossbred heifers under field conditions in the northeast of Minas Gerais state, southeastern Brazil. From November 2007 to September 2009 (23 months, 40 heifers aged 16.6±2.4 months were divided into groups A (1/4 Holstein × 3/4 Gir and B (1/2 Holstein × 1/2 Gir and had the monthly infestation estimated along with the climatic conditions. The mean maximum and minimum temperatures were 28.5 and 19°C, respectively. The ectoparasites were present on animals in all months of the year. The levels of ticks on the animals were low (3.0±0.2 ticks/animal, with the highest density in midwinter. The temperature was the climatic factor that most influenced the tick levels. The population of H. irritans (13.9±0.3 flies/animal and D. hominis (1.5±0.2 larvae/animal on heifers was more influenced by rainfall and exhibited two population peaks during the year. 1/2 Holstein heifers harbored significantly more H. irritans and D. hominis than 1/4 Holstein heifers. The results are discussed considering the most appropriate periods to apply ectoparasiticides and the genetic make-up of the animals.

  7. Earthquake frequency-magnitude distribution and fractal dimension in mainland Southeast Asia

    Science.gov (United States)

    Pailoplee, Santi; Choowong, Montri

    2014-12-01

    The 2004 Sumatra and 2011 Tohoku earthquakes highlighted the need for a more accurate understanding of earthquake characteristics in both regions. In this study, both the a and b values of the frequency-magnitude distribution (FMD) and the fractal dimension ( D C ) were investigated simultaneously from 13 seismic source zones recognized in mainland Southeast Asia (MLSEA). By using the completeness earthquake dataset, the calculated values of b and D C were found to imply variations in seismotectonic stress. The relationships of D C -b and D C -( a/ b) were investigated to categorize the level of earthquake hazards of individual seismic source zones, where the calibration curves illustrate a negative correlation between the D C and b values ( D c = 2.80 - 1.22 b) and a positive correlation between the D C and a/ b ratios ( D c = 0.27( a/ b) - 0.01) with similar regression coefficients ( R 2 = 0.65 to 0.68) for both regressions. According to the obtained relationships, the Hsenwi-Nanting and Red River fault zones revealed low-stress accumulations. Conversely, the Sumatra-Andaman interplate and intraslab, the Andaman Basin, and the Sumatra fault zone were defined as high-tectonic stress regions that may pose risks of generating large earthquakes in the future.

  8. Crater size-frequency distribution measurements and age of the Compton-Belkovich Volcanic Complex

    Science.gov (United States)

    Shirley, K. A.; Zanetti, M.; Jolliff, B.; van der Bogert, C. H.; Hiesinger, H.

    2016-07-01

    The Compton-Belkovich Volcanic Complex (CBVC) is a 25 × 35 km feature on the lunar farside marked by elevated topography, high albedo, high thorium concentration, and high silica content. Morphologies indicate that the complex is volcanic in origin and compositions indicate that it represents rare silicic volcanism on the Moon. Constraining the timing of silicic volcanism at the complex is necessary to better understand the development of evolved magmas and when they were active on the lunar surface. We employ image analysis and crater size-frequency distribution (CSFD) measurements on several locations within the complex and at surrounding impact craters, Hayn (87 km diameter), and Compton (160 km diameter), to determine relative and absolute model ages of regional events. Using CSFD measurements, we establish a chronology dating regional resurfacing events and the earliest possible onset of CBVC volcanism at ∼3.8 Ga, the formation of Compton Crater at 3.6 Ga, likely resurfacing by volcanism at the CBVC at ∼3.5 Ga, and the formation of Hayn Crater at ∼1 Ga. For the CBVC, we find the most consistent results are obtained using craters larger than 300 m in diameter; the small crater population is affected by their approach to an equilibrium condition and by the physical properties of regolith at the CBVC.

  9. Frequency Distribution of Opportunistic Avian Pathogens in Respiratory Distress Cases of Poultry

    Directory of Open Access Journals (Sweden)

    Abu Baker Siddique*, Sajjad-ur-Rahman, Iftikhar Hussain and Ghulam Muhammad1

    2012-06-01

    Full Text Available Involvement of opportunistic pathogens in the respiratory distress cases of poultry was detected from the poultry flocks scattered in some districts of Punjab, Pakistan. Serum plate agglutination (SPA test for serological screening of Mycoplasma gallisepticum (MG and Mycoplasma synoviae (MS were performed separately and it revealed 80% flocks were sero-positive among respiratory distress cases. Specimen samples including trachea (n=157, lungs (n=40, spleen (n=93, oral (n=201 and nasal swabs (n=147 were collected from both sero-positive and sero-negative flocks. On the basis of multiplex PCR, the percentage of opportunistic pathogens in sero-positive flocks was found maximum with Newcastle disease virus (28.6%, followed by E. coli (24.4%, Avibacterium paragallinarum (5.7%, Infectious bronchitis virus (4.7% and Avian Influenza (1.6%, while in case of sero-negative flocks highest distribution was found in NDV (12.6%, followed by E. coli (8.4%, Av. Paragallinarum (3.8%, IBV (3.1% and AIV (1.1%. The Frequency of respiratory tract pathogens including NDV and E. coli in combination with MG and MS was recorded significantly high.

  10. Distributed Control of Inverter-Based Lossy Microgrids for Power Sharing and Frequency Regulation Under Voltage Constraints

    OpenAIRE

    Chang, Chin-Yao; Zhang, Wei

    2015-01-01

    This paper presents a new distributed control framework to coordinate inverter-interfaced distributed energy resources (DERs) in island microgrids. We show that under bounded load uncertainties, the proposed control method can steer the microgrid to a desired steady state with synchronized inverter frequency across the network and proportional sharing of both active and reactive powers among the inverters. We also show that such convergence can be achieved while respecting constraints on volt...

  11. Life History, Diet, Abundance and Distribution, and Length-Frequencies of Selected Invertebrates in Florida Bay, Everglades National Park, Florida

    OpenAIRE

    Powell, Allyn B.; LaCroix, Michael W.; Cheshire, Robin T.; Thayer, Gordon W.

    2006-01-01

    This report presents information on the life history, diet, abundance and distribution, and length-frequency distributions of five invertebrates in Florida Bay, Everglades National Park. Collections were made with an otter trawl in basins on a bi-monthly basis. Non-parametric statistics were used to test spatial and temporal differences in the abundance of invertebrates when numbers were appropriate (i. e., $25). Invertebrate species are presented in four sections. The sections on Life H...

  12. Polymorphism Trp64Arg of beta 3 adrenoreceptor gene: allelic frequencies and influence on insulin resistance in a multicenter study of Castilla-León Polimorfismo TRP64ARG del gen receptor beta 3: frecuencia alélica e influencia en la resistencia a la insulina en un estudio multicéntrico de Castilla y León

    Directory of Open Access Journals (Sweden)

    D. A. de Luis

    2010-04-01

    Full Text Available Background and objective: The genetic variant (Trp64Arg is a missense mutation located within the beta3 adrenoreceptor (Beta3AR. The aim of our study was to investigate the influence of Trp64Arg polymorphism in the Beta3AR gene on insulin resistance in obese patients and the allelic distribution of this polymorphismin a geographic area of Spain. Design: A population of 264 obese patients was analyzed. A bioimpedance, blood pressure, an assessment of nutritional intake, and biochemical parameters were measured. The beta 3 adrenoreceptor gene polymorphism(Trp64Arg was genotyped. Results: Two hundred and twenty six patients (77 males/149 females (85.6% had the genotype Trp64/Trp64 (wild type group with and average age of 41.12 ± 13.1 years and 38 patients (16 males/22 females Trp64/Arg64 (14.4% (mutant type group with an average age of 40.5 ± 12.7 years. High frequencies of Arg64 allele were observed in Salamanca and Valladolid. In the mutant type group, HOMA (3.75 ± 2.77 vs 5.27 ± 5.4; p Introducción y objetivos: La variante genética (Trp64Arg es una mutación localizada en el adrenoreceptor Beta 3 (Beta3AR. El objetivo de nuestro trabajo es evaluar la influencia de el polimorfismo Trp64Arg del gen de Beta3AR sobre la resistencia a la insulina en pacientes obesos, así como la distribución alélica de este polimorfismo en un área geográfica de España. Diseño: Una muestra de 264 pacientes obesos fue analizada. Se realizó una bioimpedancia, evaluación nutricional y análisis bioquímico. Se genotiparon a los pacientes en función delpolimorfismos Tr64Arg del gen adrenoreceptor-beta 3. Resultados: Un total de 227 pacientes (77 varones/149 mujeres (85,6% presentaron el genotipo Trp64/Trp64 (grupo genotipo salvaje, con una media de edad de 41,12 ± 13,1 años y un total de 38 pacientes (16 varones/22 mujeres Trp64/Arg64 (14,4% (grupo genotipo mutante con una edad media de 40,5 ± 12,7 años. Se detectó una alta frecuencia alélica (Arg64

  13. Characterization of the eigenmode frequency spectrum influenced by the polarization states and light field distribution in a nonplanar ring resonator.

    Science.gov (United States)

    Li, Dong; Bi, Chao; Zhao, Jianlin

    2016-04-20

    We present the evolution of the eigenmode frequency spectrum in a nonplanar ring resonator based on the Jones matrix and the Fresnel-Kirchhoff diffraction integral. Taking the modes TEM(q+1)01 and TEMq10 with different polarization states as examples, we numerically derive the frequency difference between them versus the folding angles of the resonator by considering the polarization and the light field distribution of the eigenmodes synchronously. It can be found that the extreme values of frequency difference between TEM(q+1)01 and TEMq10 are particularly affected by the polarization states of the eigenmode, and the locations of these consecutive extreme values correspond to the total image rotation angle with values of the integer multiple of 90°. Moreover, the influence of the resonator structure on the frequency difference of eigenmodes with the identical polarization state is also analyzed. The results prove that the frequency difference between the fundamental mode and higher order modes declines with the increase of the spherical mirrors' radius of curvature but increases with the augmentation of the resonator's total length. These interesting findings are important for the mode selection in high-accuracy ring laser gyroscopes with nonplanar structure by modulating the polarization states and the light field distribution of the eigenmodes to control the frequency difference between them. PMID:27140100

  14. Frequency distributions of Escherichia coli in the confectionery products offered in retail market in Isfahan

    Directory of Open Access Journals (Sweden)

    Rasoul Rezaei

    2016-06-01

    Full Text Available Introduction: Raw ingredients used in confectionary carry high risk of infection with Escherichia coli. Since confectionaries are offered in the market in quite varied forms and types and there is a great difference in the sanitary status of the confectionaries, this study aimed at evaluation of E.coli   frequency distribution in different types of confectionery products in Isfahan market. In addition, the effect of moisture content, products category and the sanitary level of the confectionaries as well as product types (Industrially or traditionally produced on the contamination level were studied. Materials and methods: A total of 200 samples were randomly collected from confectioneries in Isfahan city through simple random sampling method. Preparation and dilution procedures were conducted under sterile conditions. Samples were cultured on EMB agar medium. Later, some of the positive isolates were randomly selected and confirmed by TSI and IMVIC test. Data analysis was performed using descriptive indices. Also, one way ANOVA and LSD test or independent t test were applied to determine the statistically significant difference between the mean E.coli cell numbers in the categorized groups of sweets. Results: It was found that 19% of the total tested samples were contaminated with E.coli strains. The mean, median and maximum of contamination were (35±.5, (0 and (3.4 CFU/gr, respectively. Moisture content, products category and being traditionally or industrially produced have significant effects on the level of contamination; while, the sanitary status of the traditional confectionaries as graded in this study has no impact on the average E.coli cell count. Discussion and conclusion: Regarding the microbial quality, at least about 25% of the sweets in the market do not meet the national standards of confectionary products. Implementation of strict hygiene regulation in the traditional confectionaries is in need to provide the public with

  15. Spatial variability of erosion rates from frequency distribution of cosmogenic 3He in olivine grains from Hawaiian river sediments

    International Nuclear Information System (INIS)

    Full text: To constrain the spatial distribution of erosion rates in a drainage basin we constructed a frequency distribution of cosmogenic 3He concentrations (3Hec) from helium isotopic measurements in olivine grains from a single sample of river sediment. The sediment sample is from the Waimea River, on the western side of the island of Kauai, Hawaii. Helium measurements were made in 26 aliquots of ∼ 30 olivine grains each. The 3Hec concentrations were calculated using: the 3He/4He ratio measured by crushing and the 3He and 4He concentrations measured by melting the resulting powder. The average 3Hec concentration from the 26 aliquots was used to estimate a basin wide average erosion rate of 0.056 mm/yr. However, forward models of sediment generation rates suggest that the observed 3Hec frequency distribution is unlikely to be explained by a single, basin wide erosion rate. Instead, a distribution of erosion rates, ranging from ∼ 0 to 4 mm/yr, may account for the observed frequency distribution. The variation in erosion rates can be modeled by both nonlinear slope- and curvature dependent erosion rates with power law exponents ranging from 2.0-2.5. Nevertheless, the spatial distribution of predicted cosmogenic nuclide concentrations for slope- and curvature-dependent erosion rates are distinct, and we propose strategies to test further the extent to which erosion rates may be partially controlled by macroscale topographic features. Our study indicates that constructing frequency distribution of cosmogenic nuclides in river sediments combined with numerical modeling of erosion rates, can provide unique insights into both the spatial variability of erosion rates in a drainage basin and constraints on the form of parameterized erosion laws. (author)

  16. Allele coding in genomic evaluation

    DEFF Research Database (Denmark)

    Standen, Ismo; Christensen, Ole Fredslund

    2011-01-01

    Genomic data are used in animal breeding to assist genetic evaluation. Several models to estimate genomic breeding values have been studied. In general, two approaches have been used. One approach estimates the marker effects first and then, genomic breeding values are obtained by summing marker...... effects. In the second approach, genomic breeding values are estimated directly using an equivalent model with a genomic relationship matrix. Allele coding is the method chosen to assign values to the regression coefficients in the statistical model. A common allele coding is zero for the homozygous...... estimates and estimated marker effects in marker-based models are the same irrespective of the allele coding, provided that the model has a fixed general mean. For the equivalent models, the same results hold, even though different allele coding methods lead to different genomic relationship matrices...

  17. HLA-DRB1 alleles in four Amerindian populations from Argentina and Paraguay.

    Science.gov (United States)

    Parolín, Maria L; Carnese, Francisco R

    2009-04-01

    The major histocompatibility complex (MHC) is one of the biological systems of major polymorphisms. The study of HLA class II variability has allowed the identification of several alleles that are characteristic to Amerindian populations, and it is an excellent tool to define the relations and biological affinities among them. In this work, we analyzed the allelic distribution of the HLA-DRB1 class II locus in four Amerindian populations: Mapuche (n = 34) and Tehuelche (n = 23) from the Patagonian region of Argentina, and Wichi SV (n = 24) and Lengua (n = 17) from the Argentinean and Paraguayan Chaco regions, respectively. In all of these groups, relatively high frequencies of Amerindian HLA-DRB1 alleles were observed (DRB1*0403, DRB1*0407, DRB1*0411, DRB1*0417, DRB1*0802, DRB1*0901, DRB1*1402, DRB1*1406 and DRB1*1602). However, we also detected the presence of non-Amerindian variants in Mapuche (35%) and Tehuelche (22%). We compared our data with those obtained in six indigenous groups of the Argentinean Chaco region and in a sample from Buenos Aires City. The genetic distance dendrogram showed a clear-cut division between the Patagonian and Chaco populations, which formed two different clusters. In spite of their linguistic differences, it can be inferred that the biological affinities observed are in concordance with the geographic distributions and interethnic relations established among the groups studied. PMID:21637670

  18. On the role of electron energy distribution function in double frequency heating of electron cyclotron resonance ion source plasmas.

    Science.gov (United States)

    Schachter, L; Stiebing, K E; Dobrescu, S

    2014-02-01

    Double frequency heating (DFH) is a tool to improve the output of highly charged ions particularly from modern electron cyclotron resonance ion source installations with very high RF-frequencies. In order to gain information on the DFH-mechanism and on the role of the lower injected frequency we have carried out a series of dedicated experiments where we have put emphasis on the creation of a discrete resonance surface also for this lower frequency. Our well-established method of inserting an emissive MD (metal-dielectric) liner into the plasma chamber of the source is used in these experiments as a tool of investigation. In this way, the electron temperature and density for both ECR zones is increased in a controlled manner, allowing conclusions on the role of the change of the electron-energy-distribution function with and without DFH. PMID:24593498

  19. A Frequency-List of Sentence Structures: Distribution of Kernel Sentences

    Science.gov (United States)

    Geens, Dirk

    1974-01-01

    A corpus of 10,000 sentences extracted from British theatrical texts was used to construct a frequency list of kernel sentence structures. Thirty-one charts illustrate the analyzed results. The procedures used and an interpretation of the frequencies are given. Such lists might aid foreign language teachers in course organization. Available from…

  20. Investigation of the type, frequency, and sex distribution of fistulas in Crohn's disease

    International Nuclear Information System (INIS)

    Various types of fistula development are described in a population of 206 patients with a pravious diagnosis of Crohn's disease. In addition, the frequency of occurence of Crohn's disease in a population and the frequency of Crohn's reoccurrence for a given patient is reported. Furthermore a subdivision of patients with respect to sex is possible. (orig.)

  1. Scale-invariance of soil moisture variability and its implications for the frequency-size distribution of landslides

    CERN Document Server

    Pelletier, J D

    1997-01-01

    Power spectral analyses of soil moisture variability are carried out from scales of 100 m to 10 km on the microwave remotely-sensed data from the Washita experimental watershed during 1992. The power spectrum S(k) has an approximately power-law dependence on wave number k with exponent -1.8. This behavior is consistent with the behavior of a stochastic differential equation for soil moisture at a point. This behavior has important consequences for the frequency-size distribution of landslides. We present the cumulative frequency-size distributions of landslides induced by precipitation in Japan and Bolivia as well as landslides triggered by the 1994 Northridge, California earthquake. Large landslides in these regions, despite being triggered by different mechanisms, have a cumulative frequency-size distribution with a power-law dependence on area with an exponent ranging from -1.5 to -2. We use a soil moisture field with the above statistics in conjunction with a slope stability analysis to model the frequenc...

  2. Collective properties of injection-induced earthquake sequences: 2. Spatiotemporal evolution and magnitude frequency distributions

    Science.gov (United States)

    Dempsey, David; Suckale, Jenny; Huang, Yihe

    2016-05-01

    Probabilistic seismic hazard assessment for induced seismicity depends on reliable estimates of the locations, rate, and magnitude frequency properties of earthquake sequences. The purpose of this paper is to investigate how variations in these properties emerge from interactions between an evolving fluid pressure distribution and the mechanics of rupture on heterogeneous faults. We use an earthquake sequence model, developed in the first part of this two-part series, that computes pore pressure evolution, hypocenter locations, and rupture lengths for earthquakes triggered on 1-D faults with spatially correlated shear stress. We first consider characteristic features that emerge from a range of generic injection scenarios and then focus on the 2010-2011 sequence of earthquakes linked to wastewater disposal into two wells near the towns of Guy and Greenbrier, Arkansas. Simulations indicate that one reason for an increase of the Gutenberg-Richter b value for induced earthquakes is the different rates of reduction of static and residual strength as fluid pressure rises. This promotes fault rupture at lower stress than equivalent tectonic events. Further, b value is shown to decrease with time (the induced seismicity analog of b value reduction toward the end of the seismic cycle) and to be higher on faults with lower initial shear stress. This suggests that faults in the same stress field that have different orientations, and therefore different levels of resolved shear stress, should exhibit seismicity with different b-values. A deficit of large-magnitude events is noted when injection occurs directly onto a fault and this is shown to depend on the geometry of the pressure plume. Finally, we develop models of the Guy-Greenbrier sequence that captures approximately the onset, rise and fall, and southwest migration of seismicity on the Guy-Greenbrier fault. Constrained by the migration rate, we estimate the permeability of a 10 m thick critically stressed basement

  3. The Impact Crater Size-Frequency Distribution on Pluto Follows a Truncated Pareto Distribution: Results from a First Data Set Based on the Recent New Horizons' Flyby

    CERN Document Server

    Zaninetti, L

    2015-01-01

    Recently it could be shown ( that the impact crater size-frequency distribution of Pluto (based on an analysis of first images obtained by the recent New Horizons flyby) follows a power law alpha = 2.4926 in the interval of diameter (D) values ranging from 3.75 km to the largest determined value of 37.77 km. A reanalysis of this data set revealed that the whole crater SFD (i.e., with values in the interval of 1.2-37.7 km) can be described by a truncated Pareto distribution.

  4. The role of human demographic history in determining the distribution and frequency of transferase-deficient galactosaemia mutations.

    LENUS (Irish Health Repository)

    Flanagan, J M

    2010-02-01

    Classical or transferase-deficient galactosaemia is an inherited metabolic disorder caused by mutation in the human Galactose-1-phosphate uridyl transferase (GALT) gene. Of some 170 causative mutations reported, fewer than 10% are observed in more than one geographic region or ethnic group. To better understand the population history of the common GALT mutations, we have established a haplotyping system for the GALT locus incorporating eight single nucleotide polymorphisms and three short tandem repeat markers. We analysed haplotypes associated with the three most frequent GALT gene mutations, Q188R, K285N and Duarte-2 (D2), and estimated their age. Haplotype diversity, in conjunction with measures of genetic diversity and of linkage disequilibrium, indicated that Q188R and K285N are European mutations. The Q188R mutation arose in central Europe within the last 20 000 years, with its observed east-west cline of increasing relative allele frequency possibly being due to population expansion during the re-colonization of Europe by Homo sapiens in the Mesolithic age. K285N was found to be a younger mutation that originated in Eastern Europe and is probably more geographically restricted as it arose after all major European population expansions. The D2 variant was found to be an ancient mutation that originated before the expansion of Homo sapiens out of Africa.

  5. Practical implementation and evaluation of a quantum-key-distribution scheme based on the time-frequency uncertainty

    Science.gov (United States)

    Leifgen, Matthias; Elschner, Robert; Perlot, Nicolas; Weinert, Carl; Schubert, Colja; Benson, Oliver

    2015-10-01

    We implement a quantum-key-distribution protocol which works in analogy to the BB84 protocol with two discrete states each in frequency and time. Its security relies on the frequency-time uncertainty. We show how the protocol is realized with commercial telecom components and discuss technical constraints of existing equipment. In order to evaluate the performance and the security of the protocol against specific attacks we explore quantitatively a large set of parameters. Based on these studies we suggest how further enhancement of security can be obtained with existing technology.

  6. Distributed Raman optical amplification in phase coherent transfer of optical frequencies

    CERN Document Server

    Clivati, Cecilia; Calonico, Davide; Faralli, Stefano; Levi, Filippo; Mura, Alberto; Poli, Nicola

    2012-01-01

    We describe the application of Raman Optical-fiber Amplification (ROA) for the phase coherent transfer of optical frequencies in an optical fiber link. ROA uses the transmission fiber itself as a gain medium for bi-directional coherent amplification. In a test setup we evaluated the ROA in terms of on-off gain, signal-to-noise ratio, and phase noise added to the carrier. We transferred a laser frequency in a 200 km optical fiber link with an additional 16 dB fixed attenuator (equivalent to 275 km of fiber on a single span), and evaluated both co-propagating and counter-propagating amplification pump schemes, demonstrating nonlinear effects limiting the co-propagating pump configuration. The frequency at the remote end has a fractional frequency instability of 3e-19 over 1000 s with the optical fiber link noise compensation.

  7. On the Binning and Associated Uncertainty of Crater Diameter Size-Frequency Distributions

    Science.gov (United States)

    Weaver, B. P.; Robbins, S. J.; Plesko, C. S.; Riggs, J. D.

    2015-05-01

    The tabulation and graphical display of crater size-frequency data (crater diameters) is a critical part of analyzing crater populations, but despite a landmark 1979 paper, standardization remains elusive. We will discuss recommendations.

  8. Radio-frequency properties of stacked long Josephson junctions with nonuniform bias current distribution

    DEFF Research Database (Denmark)

    Filatrella, G; Pedersen, Niels Falsig

    1999-01-01

    We have numerically investigated the behavior of stacks of long Josephson junctions considering a nonuniform bias profile. In the presence of a microwave field the nonuniform bias, which favors the formation of fluxons, can give rise to a change of the sequence of radio-frequency induced steps. The...... amplitude of the steps is enhanced when the external frequency matches the fluxon shuttling regime. ©1999 American Institute of Physics....

  9. Frequency distribution of HCV genotypes among chronic hepatitis C patients of Khyber Pakhtunkhwa

    OpenAIRE

    Azam Sadiq; Ali Ijaz; Ali Sajid; Ahmad Bashir

    2011-01-01

    Abstract Background Hepatitis C Virus (HCV) genotypes frequency is important for the predication of response to therapy and duration of treatment. Despite variable response rates experienced in the case of Interferon (IFN) -based therapies, there was scarcity of data on HCV genotypes frequency in Khyber Pakhtunkhwa (KPK). Study Design A total of 200 blood samples were collected from chronic HCV patients prior to the initiation of anti-viral therapy. The study population included patients from...

  10. Magnitude-Frequency Distribution of Hummocks on Rockslide-Debris Avalanche Deposits and Its Geomorphological Significance

    OpenAIRE

    Hidetsugu Yoshida

    2016-01-01

    A magnitude-frequency analysis of rockslide-debris avalanche deposits was performed. Hummocks are conical mounds formed in debris avalanche deposits from the catastrophic sector collapse of a mountain (often volcanic) that represent relatively cohesive fragments of the mountain edifice. Examination of 17 debris avalanche deposits in Japan and the Philippines showed that, in general, the larger the magnitude of the hummocks, the smaller their frequency. Hummocks followed an exponential distrib...

  11. Controller design for flexible, distributed parameter mechanical arms via combined state space and frequency domain techniques

    Science.gov (United States)

    Book, W. J.; Majett, M.

    1982-01-01

    The potential benefits of the ability to control more flexible mechanical arms are discussed. A justification is made in terms of speed of movement. A new controller design procedure is then developed to provide this capability. It uses both a frequency domain representation and a state variable representation of the arm model. The frequency domain model is used to update the modal state variable model to insure decoupled states. The technique is applied to a simple example with encouraging results.

  12. Dynamics of insecticide resistance alleles in house fly populations from New York and Florida.

    Science.gov (United States)

    Rinkevich, Frank D; Hamm, Ronda L; Geden, Christopher J; Scott, Jeffrey G

    2007-06-01

    The frequency of insecticide-resistance alleles for two genes (Vssc1 and CYP6D1) was studied in field collected populations of house flies from two different climates. While the frequency of these resistance alleles in flies at dairies from four states has recently been reported, there is no information on the relative change of these allele frequencies over time. House flies were collected during the 2003-2004 season from New York and Florida before the first application of permethrin, during the middle of the field season, after the final application, and again the following spring (following months without permethrin use). Bioassay results indicated that homozygous susceptible and extremely resistant flies were rare, while moderately and highly resistant individuals were relatively common at all times in both states. The frequency of resistance alleles at the New York dairy rose during the season and declined over the winter, suggesting an overwintering fitness cost associated with these alleles. The super-kdr allele was detected for the first time in North America at the end of 2003. In Florida the frequency of the resistance alleles did not increase during the spray season or decrease during the winter, suggesting there is substantial immigration of susceptible alleles to the Florida dairy and no overwintering fitness cost associated with resistance alleles in this climate. Resistance to permethrin correlated well with the frequency of the Vssc1 and CYP6D1 resistance alleles in flies from New York, but not as well in the population from Florida. This suggests there may be a new resistance mechanism or allele evolving in Florida. PMID:17517332

  13. Allele frequencies of 5 short tandem repeat loci of Kashin-Beck disease patients on chromosome 12%大骨节病患者12号染色体5个短串联重复序列位点基因频率分析

    Institute of Scientific and Technical Information of China (English)

    平智广; 刘莉; 郭雄

    2008-01-01

    Objective To analyze the allele frequencies of 5 short tandem repeat(STR)loci(D12S313,D12S304,D12S1640,D12S1708 and D12S1583)on chromosome 12 among Kashin-Beck disease(KBD)patients and the control population living in the area suffered from KBD.Methods Fifty KBD patient8 and 50 non-KBD patients were chosen in endemic afea of Shaanxi Province,5 STR loci on chromosome 12 were genotyped by the technology of polymerase chain reacfion(PCR)and capillary electmphoresis.The pelymorphisms of STR in these popIllations were analyzed.The allele and genotype frequencies of each STR in the corresponding groups were caleulated and compared. Results In KBD group,the 5 STR loci had 8,6,7,5 and 11 types ofalleles and 17,11,15,8 and 28 genotypes, respectively;while in the control group,the number of aUele types of 5 STR loci were 6,8,6,4 and 10,the number of genotype of those loci were 13,21,14,8 and 23,respectively The allele frequence of D12S304 locus was statiBtically significant between KBD patients and controls(P<0.05),especially for the 319 bp allele(P<0.006 25). Conclusion There is an association between D12S304 locus and KBD.The 319 bp allele might play the key role.%目的 分析大骨节病(Kashin-Beck disease,KBD)病区患者与非患者在12号染色体上5个短串联重复序列(short tandem repeat,STR)位点的多态性并比较其差异.方法 在陕西省KBD病区选择KBD患者(病例组)和非KBD患者(对照组)各50人,采集静脉血,利用PCR扩增和毛细管电泳技术,对12号染色体上5个STR位点(D12S313、D12S304、D12S1640、D12S1708和D12S1583)进行分型,分析各位点在上述人群中的多态性,计算5个位点在相应人群中等位基因与基因型频率,对各位点的等位基冈及基因型频率进行比较.结果 上述5种位点,病例组分别检出8,6、7、5和11种等位基因以及17、11、15、8和28种基因型;在对照组中检出6、8、6、4和10种等位基因以及13、21、14、8和23种基因型;在D12S304位点,病

  14. A simple marriage model for the power-law behaviour in the frequency distributions of family names

    Science.gov (United States)

    Wu, Hao-Yun; Chou, Chung-I.; Tseng, Jie-Jun

    2011-01-01

    In many countries, the frequency distributions of family names are found to decay as a power law with an exponent ranging from 1.0 to 2.2. In this work, we propose a simple marriage model which can reproduce this power-law behaviour. Our model, based on the evolution of families, consists of the growth of big families and the formation of new families. Preliminary results from the model show that the name distributions are in good agreement with empirical data from Taiwan and Norway.

  15. Deka-keV X-ray observations of solar bursts with WATCH/GRANAT: frequency distributions of burst parameters

    DEFF Research Database (Denmark)

    Crosby, N.; Vilmer, N.; Lund, Niels;

    1998-01-01

    Solar flare observations in the deka-keV range are performed by the WATCH experiment on board the GRANAT satellite. The WATCH experiment is presented, including the energy calibration as applied in the present work. The creation of the solar burst catalogue covering two years of observation...... is described and some examples of solar observations are given. The estimated energy releases in the flares presented here are found to extend below the range of hard X-ray flares which were previously studied by ISEE-3 and HXRBS/SMM detectors. The X-ray emitting component cannot be exclusively explained...... be observed as low as 10 keV. A statistical study is performed on the total WATCH solar database and frequency distributions are built on measured X-ray flare parameters. It is also investigated how the properties of these frequency distributions behave when subgroups of events defined by different ranges...

  16. Association of apolipoprotein E allele {epsilon}4 with late-onset sporadic Alzheimer`s disease

    Energy Technology Data Exchange (ETDEWEB)

    Lucotte, G.; David, F.; Berriche, S. [Regional Center of Neurogenetics, Reims (France)] [and others

    1994-09-15

    Apolipoprotein E, type {epsilon}4 allele (ApoE {epsilon}4), is associated with late-onset sporadic Alzheimer`s disease (AD) in French patients. The association is highly significant (0.45 AD versus 0.12 controls for {epsilon}4 allele frequencies). These data support the involvement of ApoE {epsilon}4 allele as a very important risk factor for the clinical expression of AD. 22 refs., 1 fig., 3 tabs.

  17. Intensity-modulated linear-frequency-modulated continuous-wave lidar for distributed media: fundamentals of technique

    OpenAIRE

    Batet Torrell, Óscar; Dios Otín, Víctor Federico; Comerón Tejero, Adolfo; Agishev, Ravil R.

    2010-01-01

    We analyze the intensity-modulation frequency-modulated continuous-wave (FMCW) technique for lidar remote sensing in the context of its application to distributed media. The goal of the technique is the reproduction of the sounded-medium profile along the emission path. A conceptual analysis is carried out to show the problems the basic version of the method presents for this application. The principal point is the appearance of a bandpass filtering effect, which seems to hinder its use in...

  18. Estimation of the Publication Potential in 50 U.S. States and in the District of Columbia Based on the Frequency Distribution of Scientific Productivity.

    Science.gov (United States)

    Schubert, Andras; Telcs, Andras

    1989-01-01

    Demonstrates the use of the Waring distribution as a model for the frequency distribution of scientific productivity. Methods for testing the fit at both ends of the distribution, as well as for estimating the parameters of the distribution and the total number of scientists, are outlined. (16 references) (Author/CLB)

  19. Altered Frequency Distribution in the Electroencephalogram is Correlated to the Analgesic Effect of Remifentanil

    DEFF Research Database (Denmark)

    Graversen, Carina; Malver, Lasse P; Kurita, Geana P;

    2015-01-01

    Opioids alter resting state brain oscillations by multiple and complex factors, which are still to be elucidated. To increase our knowledge, multi-channel electroencephalography (EEG) was subjected to multivariate pattern analysis (MVPA), to identify the most descriptive frequency bands and scalp...... individual changes in heat pain in the delta (p = 0.045), theta (p = 0.038) and alpha (p = 0.039) bands and to bone pain in the alpha band (p = 0.0092). Hence, MVPA of multi-channel EEG was able to identify frequency bands and corresponding channels most sensitive to altered brain activity during...... locations altered by remifentanil in healthy volunteers. Sixty-two channels of resting EEG followed by independent measures of pain scores to heat and bone pain were recorded in 21 healthy males before and during remifentanil infusion in a placebo-controlled, double-blind crossover study. EEG frequency...

  20. Distributed Raman optical amplification in phase coherent transfer of optical frequencies

    OpenAIRE

    Clivati, Cecilia; Bolognini, Gabriele; Calonico, Davide; Faralli, Stefano; Levi, Filippo; Mura, Alberto; Poli, Nicola

    2012-01-01

    We describe the application of Raman Optical-fiber Amplification (ROA) for the phase coherent transfer of optical frequencies in an optical fiber link. ROA uses the transmission fiber itself as a gain medium for bi-directional coherent amplification. In a test setup we evaluated the ROA in terms of on-off gain, signal-to-noise ratio, and phase noise added to the carrier. We transferred a laser frequency in a 200 km optical fiber link with an additional 16 dB fixed attenuator (equivalent to 27...

  1. Association between HLA class I and class II alleles and the outcome of West Nile virus infection: an exploratory study.

    Directory of Open Access Journals (Sweden)

    Marion C Lanteri

    Full Text Available BACKGROUND: West Nile virus (WNV infection is asymptomatic in most individuals, with a minority developing symptoms ranging from WNV fever to serious neuroinvasive disease. This study investigated the impact of host HLA on the outcome of WNV disease. METHODS: A cohort of 210 non-Hispanic mostly white WNV(+ subjects from Canada and the U.S. were typed for HLA-A, B, C, DP, DQ, and DR. The study subjects were divided into three WNV infection outcome groups: asymptomatic (AS, symptomatic (S, and neuroinvasive disease (ND. Allele frequency distribution was compared pair-wise between the AS, S, and ND groups using χ2 and Fisher's exact tests and P values were corrected for multiple comparisons (Pc. Allele frequencies were compared between the groups and the North American population (NA used as a control group. Logistic regression analysis was used to evaluate the potential synergistic effect of age and HLA allele phenotype on disease outcome. RESULTS: The alleles HLA-A*68, C*08 and DQB*05 were more frequently associated with severe outcomes (ND vs. AS, P(A*68 = 0.013/Pc = 0.26, P(C*08 = 0.0075/Pc = 0.064, and P(DQB1*05 = 0.029/Pc = 0.68, However the apparent DQB1*05 association was driven by age. The alleles HLA-B*40 and C*03 were more frequently associated with asymptomatic outcome (AS vs. S, P(B*40 = 0.021/Pc = 0.58 and AS vs. ND P(C*03 = 0.039/Pc = 0.64 and their frequencies were lower within WNV(+ subjects with neuroinvasive disease than within the North American population (NA vs. S, P(B*40 = 0.029 and NA vs. ND, P(C*03 = 0.032. CONCLUSIONS: Host HLA may be associated with the outcome of WNV disease; HLA-A*68 and C*08 might function as "susceptible" alleles, whereas HLA-B*40 and C*03 might function as "protective" alleles.

  2. All-Optical Frequency Modulated High Pressure MEMS Sensor for Remote and Distributed Sensing

    DEFF Research Database (Denmark)

    Reck, Kasper; Thomsen, Erik Vilain; Hansen, Ole

    2011-01-01

    We present the design, fabrication and characterization of a new all-optical frequency modulated pressure sensor. Using the tangential strain in a circular membrane, a waveguide with an integrated nanoscale Bragg grating is strained longitudinally proportional to the applied pressure causing a sh...

  3. Vehicle-to-Grid Systems for Frequency Regulation in an Islanded Danish Distribution Network

    DEFF Research Database (Denmark)

    Pillai, Jayakrishnan Radhakrishna; Bak-Jensen, Birgitte

    2010-01-01

    Electric vehicles (EVs) have gained significant attention in the recent years due to their prospects in reducing greenhouse gas emissions benefitting the transportation sector directly and the electricity sector indirectly. Vehicle-to-grid (V2G) systems using the battery storages of electric...... systems can be considered as a flexible solution for frequency regulation in future electric power systems....

  4. The ventricular depolarization distribution measured by Ultra-High-Frequency Electrocardiograph

    Czech Academy of Sciences Publication Activity Database

    Jurák, Pavel; Leinveber, Pavel; Halámek, Josef; Plešinger, Filip; Reichlova, T.; Veselý, P.; Vondra, Vlastimil; Klimeš, Petr; Viščor, Ivo

    Brno : Society for Medical Innovation and Technology, 2015. s. 50. [SMIT 2015. International Conference of the Society for Medical Innovation and Technology/27./. 10.09.2015-12.09.2015, Brno] Institutional support: RVO:68081731 Keywords : Ultra high frequency electrocardiograph * QRS morphology * ventricular depolarisation Subject RIV: BH - Optics, Masers, Lasers

  5. Improving Frequency Stability Based on Distributed Control of Multiple Load Aggregators

    DEFF Research Database (Denmark)

    Hu, Jianqiang; Cao, Jinde; Guerrero, Josep M.;

    2016-01-01

    loads, to provide frequency regulation services. Specifically, a leader-following communication protocol is considered for the load aggregators in which there is a centralized pinner (leader) and multiple load aggregators (followers). The regulation objective is generated from the pinner and only shared...

  6. Distributed Control of Inverter-Based Lossy Microgrids for Power Sharing and Frequency Regulation Under Voltage Constraints

    Energy Technology Data Exchange (ETDEWEB)

    Chang, Chin-Yao; Zhang, Wei

    2016-01-19

    This paper presents a new distributed control framework to coordinate inverter-interfaced distributed energy resources (DERs) in island microgrids. We show that under bounded load uncertainties, the proposed control method can steer the microgrid to a desired steady state with synchronized inverter frequency across the network and proportional sharing of both active and reactive powers among the inverters. We also show that such convergence can be achieved while respecting constraints on voltage magnitude and branch angle differences. The controller is robust under various contingency scenarios, including loss of communication links and failures of DERs. The proposed controller is applicable to lossy mesh microgrids with heterogeneous R/X distribution lines and reasonable parameter variations. Simulations based on various microgrid operation scenarios are also provided to show the effectiveness of the proposed control method.

  7. Relation between the shape of high frequency heating coil and the temperature distribution in specimen during thermal fatigue test

    International Nuclear Information System (INIS)

    The high frequency heating apparatus used for thermal fatigue tests, the relation between the shape of heating coils, and the temperature distribution of specimens was experimentally examined for SUS 304 stainless steel. Relations between heating coil dimensions and heating rate, the most ideal coil shape for various specimen types, and the effects of temperature range and specimen shape on temperature distribution are described. Results show that the heating rate increases with decreasing distance from specimen surface to heating coil and with increasing coil tube diameter. For the general cylindrical and hour glass type specimens, the most ideal coil shapes are a separate type and a parallel type coil, respectively, as judged from the point of temperature distribution. (U.S.)

  8. Distribution of Earthquakes as Described by the Generalized Logistic Equation and the Gutenberg-Richter Magnitude-Frequency Formula

    CERN Document Server

    Maslov, Lev A

    2012-01-01

    In this work we developed a new differential equation to study the statistics of earthquake distributions. We call this equation the generalized logistic equation. We used the solution of this equation to analyze earthquake data from the following regions: the Central Atlantic, the Canary Islands, the Magellan Mountains, and the Sea of Japan. Our solution showed excellent correspondence with the observed cumulative distribution of earthquakes for all magnitudes. Historically, the Gutenberg-Richter frequency-magnitude formula has been used to study the distribution of earthquakes. However, the Gutenberg-Richter formula is only accurate for large magnitudes. As shown in our analysis, the Gutenberg-Richter formula is a special case of the solution to our generalized logistic equation for large magnitudes.

  9. Inferring Protective CD8+ T-Cell Epitopes for NS5 Protein of Four Serotypes of Dengue Virus Chinese Isolates Based on HLA-A, -B and -C Allelic Distribution: Implications for Epitope-Based Universal Vaccine Design.

    Directory of Open Access Journals (Sweden)

    Jiandong Shi

    Full Text Available Dengue is one of the most globally serious vector-borne infectious diseases in tropical and subtropical areas for which there are currently no effective vaccines. The most highly conserved flavivirus protein, NS5, is an indispensable target of CD8+ T-cells, making it an ideal vaccine design target. Using the Immune Epitope Database (IEDB, CD8+ T-cell epitopes of the dengue virus (DENV NS5 protein were predicted by genotypic frequency of the HLA-A,-B, and-C alleles in Chinese population. Antigenicity scores of all predicted epitopes were analyzed using VaxiJen v2.0. The IEDB analysis revealed that 116 antigenic epitopes for HLA-A (21,-B (53, and-C (42 had high affinity for HLA molecules. Of them, 14 had 90.97-99.35% conversancy among the four serotypes. Moreover, five candidate epitopes, including 200NS5210 (94.84%, A*11:01, 515NS5525 (98.71%, A*24:02, 225NS5232 (99.35%, A*33:03, 516NS5523 (98.71%, A*33:03, and 284NS5291 (98.06%, A*33:03, were presented by HLA-A. Four candidate epitopes, including 234NS5241 (96.77%, B*13:01, 92NS599 (98.06%, B*15:01, B*15:02, and B*46:01, 262NS5269 (92.90%, B*38:02, and 538NS5547 (90.97%, B*51:01, were presented by HLA-B. Another 9 candidate epitopes, including 514NS5522 (98.71%, C*01:02, 514NS5524 (98.71%, C*01:02 and C*14:02, 92NS599 (98.06%, C*03:02 and C*15:02, 362NS5369 (44.84%, C*03:04 and C*08:01, 225NS5232 (99.35%, C*04:01, 234NS5241(96.77%, C*04:01, 361NS5369 (94.84%, C*04:01, 515NS5522 (98.71%, C*14:02, 515NS5524 (98.71%, C*14:02, were presented by HLA-C. Further data showed that the four-epitope combination of 92NS599 (B*15:01, B*15:02, B*46:01, C*03:02 and C*15:02, 200NS5210 (A*11:01, 362NS5369 (C*03:04, C*08:01, and 514NS5524 (C*01:02, C*14:02 could vaccinate >90% of individuals in China. Further in vivo study of our inferred novel epitopes will be needed for a T-cell epitope-based universal vaccine development that may prevent all four China-endemic DENV serotypes.

  10. Spatial variations in the frequency-magnitude distribution of earthquakes in the southwestern Okinawa Trough

    OpenAIRE

    Lin, Jing-yi; Sibuet, Jean-claude; Lee, Chao-Shing; Hsu, Shu-kun; Klingelhoefer, Frauke

    2007-01-01

    The relations between the frequency of occurrence and the magnitude of earthquakes are established in the southern Okinawa Trough for 2823 relocated earthquakes recorded during a passive ocean bottom seismometer experiment. Three high b-values areas are identified: (1) for an area offshore of the Ilan Plain, south of the andesitic Kueishantao Island from a depth of 50 km to the surface, thereby confirming the subduction component of the island andesites; (2) for a body lying along the 123.3 d...

  11. Multiple-view time-frequency distribution based on the empirical mode decomposition

    OpenAIRE

    Stevenson, Nathan J.; Mesbah, Mostefa; Boashash, Boualem

    2010-01-01

    This paper proposes a composite TFD based on a multiple-view Approach where the IMFs of an EMD are used to construct a series of views in the ambiguity domain by highlighting concentrations of energy in the ambiguity domain and overcoming interferences in TFDs. (Additional details can be found in the comprehensive book on Time-Frequency Signal Analysis and Processing (see http://www.elsevier.com/locate/isbn/0080443354). In addition, the most recent upgrade of the original so...

  12. Experimental and numerical assessment of low-frequency current distributions from UMTS and GSM mobile phones

    International Nuclear Information System (INIS)

    The evaluation of the exposure from mobile communication devices requires consideration of electromagnetic fields (EMFs) over a broad frequency range from dc to GHz. Mobile phones in operation have prominent spectral components in the low-frequency (LF) and radio-frequency (RF) ranges. While the exposure to RF fields from mobile phones has been comprehensively assessed in the past, the LF fields have received much less attention. In this study, LF fields from mobile phones are assessed experimentally and numerically for the global system for mobile (GSM) and universal mobile telecommunications system (UMTS) communication systems and conclusions about the global (LF and RF) EMF exposure from both systems are drawn. From the measurements of the time-domain magnetic fields, it was found that the contribution from the audio signal at a normal speech level, i.e., −16 dBm0, is the same order of magnitude as the fields induced by the current bursts generated from the implementation of the GSM communication system at maximum RF output level. The B-field induced by currents in phones using the UMTS is two orders of magnitude lower than that induced by GSM. Knowing that the RF exposure from the UMTS is also two orders of magnitude lower than from GSM, it is now possible to state that there is an overall reduction of the exposure from this communication system. (paper)

  13. Regional parent flood frequency distributions in Europe – Part 1: Is the GEV model suitable as a pan-European parent?

    OpenAIRE

    J. L. Salinas; Castellarin, A.; A. Viglione; S. Kohnová; T. R. Kjeldsen

    2014-01-01

    This study addresses the question of the existence of a parent flood frequency distribution on a European scale. A new database of L-moment ratios of flood annual maximum series (AMS) from 4105 catchments was compiled by joining 13 national data sets. Simple exploration of the database presents the generalized extreme value (GEV) distribution as a potential pan-European flood frequency distribution, being the three-parameter statistical model that with the closest resem...

  14. Progress on the Size Frequency Distribution of Small Main-belt Asteroids

    Science.gov (United States)

    Burt, Brian; Trilling, D. E.; Hines, D. C.; Stapelfeldt, K. R.; Rebull, L. M.; Fuentes, C. I.; Hulsebus, A.

    2012-10-01

    The asteroid size distribution informs us about the formation and composition of the Solar System. We build on our previous work in which we harvest serendipitously obtained Spitzer data of the Taurus region and measure the brightness and size distributions of Main-belt asteroids. This is accomplished with the highly sensitive MIPS 24 micron channel. We expect to catalog 104 asteroids, giving us a statistically significant data set. Results from this investigation will allow us to characterize the total population of small, Main-belt asteroids. Here we will present new results on the completeness of our study and the presence of size distribution variations with inclination and radial distance in the belt. We acknowledge and thank funding from PMDAP through NASA.

  15. Extended parametric gain range in photonic crystal fibers with strongly frequency-dependent field distributions

    DEFF Research Database (Denmark)

    Petersen, Sidsel Rübner; Alkeskjold, Thomas Tanggaard; Olausson, Christina Bjarnal Thulin; Lægsgaard, Jesper

    2014-01-01

    The parametric gain range of a degenerate four-wave mixing process is determined in the undepleted pump regime. The gain range is considered with and without taking the mode field distributions of the four-wave mixing components into account. It is found that the mode field distributions have to be...... included to evaluate the parametric gain correctly in dispersion-tailored speciality fibers and that mode profile engineering can provide a way to increase the parametric gain range. (C) 2014 Optical Society of America...

  16. Radarclinometry: Bootstrapping the radar reflectance function from the image pixel-signal frequency distribution and an altimetry profile

    Science.gov (United States)

    Wildey, R.L.

    1988-01-01

    A method is derived for determining the dependence of radar backscatter on incidence angle that is applicable to the region corresponding to a particular radar image. The method is based on enforcing mathematical consistency between the frequency distribution of the image's pixel signals (histogram of DN values with suitable normalizations) and a one-dimensional frequency distribution of slope component, as might be obtained from a radar or laser altimetry profile in or near the area imaged. In order to achieve a unique solution, the auxiliary assumption is made that the two-dimensional frequency distribution of slope is isotropic. The backscatter is not derived in absolute units. The method is developed in such a way as to separate the reflectance function from the pixel-signal transfer characteristic. However, these two sources of variation are distinguishable only on the basis of a weak dependence on the azimuthal component of slope; therefore such an approach can be expected to be ill-conditioned unless the revision of the transfer characteristic is limited to the determination of an additive instrumental background level. The altimetry profile does not have to be registered in the image, and the statistical nature of the approach minimizes pixel noise effects and the effects of a disparity between the resolutions of the image and the altimetry profile, except in the wings of the distribution where low-number statistics preclude accuracy anyway. The problem of dealing with unknown slope components perpendicular to the profiling traverse, which besets the one-to-one comparison between individual slope components and pixel-signal values, disappears in the present approach. In order to test the resulting algorithm, an artificial radar image was generated from the digitized topographic map of the Lake Champlain West quadrangle in the Adirondack Mountains, U.S.A., using an arbitrarily selected reflectance function. From the same map, a one-dimensional frequency

  17. The Impact Crater Size-Frequency Distribution on Pluto Follows a Truncated Pareto Distribution: Results from a First Data Set Based on the Recent New Horizons' Flyby

    Directory of Open Access Journals (Sweden)

    Zaninetti L.

    2016-01-01

    Full Text Available Recently it could be shown (Scholkmann, Prog. in Phys. , 2016, v. 12(1, 26-29 that the impact crater size-frequency distribution of Pluto (based on an analysis of first images obtained by the recent New Horizons’ flyby follows a power law (α =2.4926±0.3309 in the interval of diameter ( D values ranging from 3.75±1.14 km to the largest deter- mined value of 37.77 km. A reanalysis of this data set revealed that the whole crater SFD (i.e., with values in the interval of 1.2–37.7 km can be described by a truncated Pareto distribution.

  18. Estimating allele age and selection coefficient from Time-serial data

    DEFF Research Database (Denmark)

    Malaspinas, Anna Sapfo; Malaspinas, Orestis; Evans, Steven N.;

    2012-01-01

    age of an allele from time-serial data. Our method can be used for allele frequencies sampled from a single diallelic locus. The transition probabilities are calculated by approximating the standard diffusion equation of the Wright–Fisher model with a one-step process. We show that our method...... the age of the allele, it is possible to gain traction on the important problem of distinguishing selection on new mutations from selection on standing variation. In this coat color example for instance, we estimate the age of this allele, which is found to predate domestication....

  19. THE CHARACTERISTICS OF THUNDERSTORM FREQUENCY VARIATION AND THEIR POSSIBLE RELATION WITH THE ADJUSTMENT OF CROP DISTRIBUTION IN THE LEIZHOU PENINSULA

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yu; NIU Sheng-jie

    2009-01-01

    In order to research possible influences of the adjustment of plant distribution on the development frequency of thunderstorms over the Leizhou Peninsula,mathematic statistic methods, including correlation analyses,11 kinds of fitting models and all-variable regression methods,were used for analyses and research. The results show that the average trend of the number of annual thunderstorm days is descending obviously,and there are thunderstorms in all seasons,in which warm post-midday thunderstorms have taken up the most part,and high frequency is found from May to September,and the starting and ending dates of thunderstorms have a great annual discrepancy. The vegetation structure has been improved along with the reduction of rice fields and the area increment of sugarcane and fruits planting,which results in the decrease of the number of thunderstorm days; the change in the characteristics of winter spare fields,which is caused by the planting of vegetables,limits the formation of thunderstorms in early winter and late spring. Meanwhile,the area adjustment of peanut planting has little influence on the variation of thunderstorm days. The adjustment of principal crop distribution,such as rice, sugarcane,fruits and vegetables,may have obvious influence on the formation of thunderstorms,and sugarcane has the largest effect,followed in turn by rice,vegetables and fruits,and the adjustment of crop distribution has little influence on the starting and ending dates of thunderstorms.

  20. Agent based Particle Swarm Optimization for Load Frequency Control of Distribution Grid

    DEFF Research Database (Denmark)

    Cha, Seung-Tae; Saleem, Arshad; Wu, Qiuwei;

    2012-01-01

    This paper presents a Particle Swarm Optimization (PSO) based on multi-agent controller. Real-time digital simulator (RTDS) is used for modelling the power system, while a PSO based multi-agent LFC algorithm is developed in JAVA for communicating with resource agents and determines the scenario...... to stabilize the frequency and voltage after the system enters into the islanding operation mode. The proposed algorithm is based on the formulation of an optimization problem using agent based PSO. The modified IEEE 9-bus system is employed to illustrate the performance of the proposed controller via RTDS...

  1. Distributed demand side management via smart appliances contributing to frequency control

    Institute of Scientific and Technical Information of China (English)

    ZHANG Wei-chen

    2015-01-01

    Nowadays renewable energy has become a trend for energy production but its variable nature has made balancing of demand and supply of the power grid difficult. Dynamic demand management using smart appliances is proposed to serve as a way that part of the regulation burden of balancing demand and supply is shifted to the demand side. However, if all appliances respond to the same frequency deviation, they may start to synchronize, causing large power overshoots and instability of the power grid. Therefore, the idea of implementing randomness into the frequency control of the appliances is proposed and this is what we call a stochastic approach. Simulators are built from scratch to model both scenarios. The effect of synchronization is analyzed and the parameters that can affect the synchronization are investigated. It has been found that the larger the contribution from the smart appliances to the power grid, the easier and faster the synchronization takes place. The stochastic approach solves the problem of synchronization and averages out the large power overshoot. However, the overall performance of stochastic operations is unacceptable due to the randomness in the operation though the mean and variance are as expected. More advanced feedback policies and schemes may be designed to achieve a better performance.

  2. Matrix factorization to time-frequency distribution for structural health monitoring

    Science.gov (United States)

    Chang, Chia-Ming; Huang, Shieh-Kung

    2016-04-01

    Structural health monitoring enables structural information to be acquired through sensing technology, and is of need to early detect problems and damages in structures. Health monitoring strategies are often realized through a combination of qualitative sensing systems and high-performance structural integrity assessment methods. Structural deviations can be then effectively identified by interpreting the raw sensor measurements using signal processing techniques. The objective of this study is to develop a new structural health monitoring method that applies a matrix factorization algorithm to a time-frequency representation of multi-channel signals measured from a structure. This method processes vibrational input and/or output responses of structures to improve raw data quality, to estimate structural responses, to derive signal features, and to detect structural variations. For example, the proposed method can reduce the signal noise by utilizing first few principle vectors to reconstruct the measured signals. For frequency-domain responses, this method can smooth the phase to obtain a better input-output relationship of a structure. Additionally, the method removes abnormal signals in time series, allowing better understanding of structural behavior. Due to communication loss, this method is able to recover lost data from other channel measurements in a structure. Moreover, the proposed method transforms the signal components into a specific domain and then yield meaningful characteristics. All these features are numerically verified using experimental data, and the proposed method permits more detailed investigation of structural behavior.

  3. Age of an allele and gene genealogies of nested subsamples for populations admitting large offspring numbers

    OpenAIRE

    Eldon, Bjarki

    2012-01-01

    Coalescent processes, including mutation, are derived from Moran type population models admitting large offspring numbers. Including mutation in the coalescent process allows for quantifying the turnover of alleles by computing the distribution of the number of original alleles still segregating in the population at a given time in the past. The turnover of alleles is considered for specific classes of the Moran model admitting large offspring numbers. Versions of the Kingman coalescent are a...

  4. Low-frequency vibration energy harvester using a spherical permanent magnet with controlled mass distribution

    Science.gov (United States)

    Choi, Yunhee; Ju, Suna; Chae, Song Hee; Jun, Sangbeom; Ji, Chang-Hyeon

    2015-06-01

    This paper presents a vibration energy harvester using a springless spherical permanent magnet with a non-uniform mass distribution as a proof mass. The magnet has been designed to have the center of mass below the geometrical center, which generates a roly-poly-like motion in response to external vibrations and maintains the upright position. Utilizing this roly-poly-like magnet, proof-of-concept electromagnetic energy harvesters have been fabricated, tested and analyzed. An analytical model which explains the motion of the magnet assembly and resulting output voltage has been developed by finite element analysis of the magnetic field distribution and motion analysis of the magnet assembly. With the fabricated device, a maximum open-circuit voltage of 48.85 mVrms and an output power of 9.03 μW have been obtained in response to a 20 Hz sinusoidal vibration at 3 g acceleration.

  5. HLA Class II Alleles Susceptibility Markers of Type 1 Diabetes Fail to Specify Phenotypes of Ketosis-Prone Diabetes in Adult Tunisian Patients

    Directory of Open Access Journals (Sweden)

    Lilia Laadhar

    2011-01-01

    Full Text Available We aimed to characterize the different subgroups of ketosis-prone diabetes (KPD in a sample of Tunisian patients using the Aβ scheme based on the presence or absence of β-cell autoantibodies (A+ or A− and β-cell functional reserve (β+ or β− and we investigated whether HLA class II alleles could contribute to distinct KPD phenotypes. We enrolled 43 adult patients with a first episode of ketosis. For all patients we evaluated clinical parameters, β-cell autoimmunity, β-cell function and HLA class II alleles. Frequency distribution of the 4 subgroups was 23.3% A+β−, 23.3% A−β−, 11.6% A+β+ and 41.9% A−β+. Patients from the group A+β− were significantly younger than those from the group A−β− (P=.002. HLA susceptibility markers were significantly more frequent in patients with autoantibodies (P=.003. These patients also had resistance alleles but they were more frequent in A+β+ than A+β− patients (P=.04. Insulin requirement was not associated to the presence or the absence of HLA susceptibility markers. HLA class II alleles associated with susceptibility to autoimmune diabetes have not allowed us to further define Tunisian KPD groups. However, high prevalence of HLA resistance alleles in our patients may reflect a particular genetic background of Tunisian KPD population.

  6. Quantumlike chaos in the frequency distributions of bases A, C, G, T in human chromosome1 DNA

    OpenAIRE

    Selvam, A. M.

    2002-01-01

    Recent studies of DNA sequence of letters A, C, G and T exhibit the inverse power law form. Inverse power-law form of the power spectra of fractal space-time fluctuations is generic to the dynamical systems in nature and is identified as self-organized criticality. In this study it is shown that the power spectra of the frequency distributions of bases A, C, G, T in the Human chromosome 1 DNA exhibit self-organized criticality. DNA is a quasicrystal possessing maximum packing efficiency in a ...

  7. Frequency dependence of the Hall-potential distribution in quantum Hall systems: Roles of edge channels and current contacts

    OpenAIRE

    Shima, Kousuke; Akera, Hiroshi

    2014-01-01

    The spatial dependence of the Hall potential induced in a two-dimensional electron system (2DES) by AC source-drain voltage is studied theoretically in the incoherent linear transport in the strong-magnetic-field regime. The local capacitance approximation is employed in which the potential at each point of the 2DES is proportional to the induced charge at the same point It is shown that the frequency dependence of the induced charge distribution is described by three time constants, tau(e) f...

  8. Tetra-allelic SNPs: Informative forensic markers compiled from public whole-genome sequence data.

    Science.gov (United States)

    Phillips, C; Amigo, J; Carracedo, Á; Lareu, M V

    2015-11-01

    Multiple-allele single nucleotide polymorphisms (SNPs) are potentially useful for forensic DNA analysis as they can provide more discrimination power than normal binary SNPs. In addition, the presence in a profile of more than two alleles per marker provides a clearer indication of mixed DNA than assessments of imbalanced signals in the peak pairs of binary SNPs. Using the 1000 Genomes Phase III human variant data release of 2014 as the starting point, this study collated 961 tetra-allelic SNPs that pass minimum sequence quality thresholds and where four separate nucleotide substitution alleles were detected. Although most of these loci had three of the four alleles in combined frequencies of 2% or less, 160 had high heterozygosities with 50 exceeding those of 'ideal' 0.5:0.5 binary SNPs. From this set of most polymorphic tetra-allelic SNPs, we identified markers most informative for forensic purposes and explored these loci in detail. Subsets of the most polymorphic tetra-allelic SNPs will make useful additions to current panels of forensic identification SNPs and ancestry-informative SNPs. The 24 most discriminatory tetra-allelic SNPs were estimated to detect more than two alleles in at least one marker per profile in 99.9% of mixtures of African contributors. In European contributor mixtures 99.4% of profiles would show multiple allele patterns, but this drops to 92.6% of East Asian contributor mixtures due to reduced levels of polymorphism for the 24 SNPs in this population group. PMID:26209763

  9. Intensity-modulated linear-frequency-modulated continuous-wave lidar for distributed media: fundamentals of technique.

    Science.gov (United States)

    Batet, Oscar; Dios, Federico; Comeron, Adolfo; Agishev, Ravil

    2010-06-10

    We analyze the intensity-modulation frequency-modulated continuous-wave (FMCW) technique for lidar remote sensing in the context of its application to distributed media. The goal of the technique is the reproduction of the sounded-medium profile along the emission path. A conceptual analysis is carried out to show the problems the basic version of the method presents for this application. The principal point is the appearance of a bandpass filtering effect, which seems to hinder its use in this context. A modified version of the technique is proposed to overcome this problem. A number of computer simulations confirm the ability of the modified FMCW technique to sound distributed media. PMID:20539357

  10. Frequency distribution of zinc in leaves with and without zinc-deficiency symptoms, all collected from a single orange tree

    Energy Technology Data Exchange (ETDEWEB)

    Wallace, A. (Univ. of Caifornia, Los Angeles); Alexander, G.V.; Kinnear, J.; Procopiou, J.; Haritou-Andriotaki, A.; Papanicolaou, X.

    1982-07-01

    Leaves with zinc-deficiency symptoms had a lower Zn concentration than corresponding leaves without symptoms and of the same age from the same orange (Citrus senensis L.) tree on sour orange (C. aurantium L.) rootstock grown in Rhodes, Greece. There was considerable overlap, however, with the frequency distribution of each group approximating a normal curve. But both kinds of leaves combined showed a more normal distribution. Some leaves with symptoms had higher zinc concentrations than some without symptoms. There was a threefold range in Zn concentration for each group of leaves. Zinc-deficient leaves had less phosphorus, calcium, and manganese and more iron, aluminum, silicon, and titanium (the so-called dust elements) than did leaves with no deficiency symptoms. Some of these elements gave normal curves for both Zn-deficient and non-Zn-deficient leaves.

  11. Non-extensive statistical physics applied to heat flow and the earthquake frequency-magnitude distribution in Greece

    Science.gov (United States)

    Papadakis, Giorgos; Vallianatos, Filippos; Sammonds, Peter

    2016-08-01

    This study investigates seismicity in Greece and its relation to heat flow, based on the science of complex systems. Greece is characterised by a complex tectonic setting, which is represented mainly by active subduction, lithospheric extension and volcanism. The non-extensive statistical physics formalism is a generalisation of Boltzmann-Gibbs statistical physics and has been successfully used for the analysis of a variety of complex systems, where fractality and long-range interactions are important. Consequently, in this study, the frequency-magnitude distribution analysis was performed in a non-extensive statistical physics context, and the non-extensive parameter, qM, which is related to the frequency-magnitude distribution, was used as an index of the physical state of the studied area. Examination of the spatial distribution of qM revealed its relation to the spatial distribution of seismicity during the period 1976-2009. For focal depths ≤40 km, we observe that strong earthquakes coincide with high qM values. In addition, heat flow anomalies in Greece are known to be strongly related to crustal thickness; a thin crust and significant heat flow anomalies characterise the central Aegean region. Moreover, the data studied indicate that high heat flow is consistent with the absence of strong events and consequently with low qM values (high b-values) in the central Aegean region and around the volcanic arc. However, the eastern part of the volcanic arc exhibits strong earthquakes and high qM values whereas low qM values are found along the North Aegean Trough and southwest of Crete, despite the fact that strong events are present during the period 1976-2009 in both areas.

  12. Spatial Genetic Structure of Two HIV-I-resistant Polymorphisms (CCR2-64Ⅰand SDF1-3'A) Alleles in Population of Shandong Province, China

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Objective To explore the spatial genetic structure of two HIV-I-resistant polymorphisms (CCR2-64Ⅰand SDF1-3'A) alleles in the population of Shandong Province, China. Methods Using the techniques of spatial stratified sampling and spatial statistics, the spatial genetic structure of the locus (CCR2-64Ⅰand SDF1-3'A), which was shown to be important co-receptor for HIV infection, was quantified from the populations of 36 sampled counties of Shandong Province, and a total of 3147 and 3172 samples were taken for testing CCR2-64I and SDF1-3'A respectively from individuals without known history of HIV-I infection and AIDS symptoms. Results There were significantly spatial genetic structures of the two alleles at different spatial distance classes on the scale of populations, but on the scale of individuals, no spatial structure was found in either the whole area of Shandong Province or the area of each sampled county. Although the change of frequencies of the two alleles with geographic locations in Shandong Province both showed gradual increase trends, their changing directions were inverse. The frequency of CCR2-64I allele gradually increased from the southwest to the northeast, while the frequency of SDF1-3'A allele gradually increased from the northeast to the southwest. However the RH to AIDS of combined types of their different genotypes did not represent obvious geographic diversity on the whole area of the Province. Conclusion The frequency of allele usually has some spatial genetic structures or spatial autocorrelation with different spatial distance classes, but the genotypes of individuals have random distribution in the same geographic area. Evaluating spatial distribution of the genetic susceptibility of HIV (AIDS) to CCR2-64I and SDF1-3'A alleles, should focus on the frequencies of combined genotypes of CCR2 and SDF1 based on the two-locus genotypes of each individual rather than the frequencies of CCR2-64I and SDF1-3'A alleles.

  13. Protective effect of the AT137RQ and ARQK176 PrP alleles against classical scrapie in Sarda breed sheep

    Science.gov (United States)

    Vaccari, Gabriele; Scavia, Gaia; Sala, Marcello; Cosseddu, Gianmario; Chiappini, Barbara; Conte, Michela; Esposito, Elena; Lorenzetti, Raniero; Perfetti, Gabriella; Marconi, Paola; Scholl, Francesco; Barbaro, Katia; Bella, Antonino; Nonno, Romolo; Agrimi, Umberto

    2009-01-01

    The susceptibility of sheep to scrapie is under the control of the host’s prion protein (PrP) gene and is also influenced by the strain of the agent. PrP polymorphisms at codons 136 (A/V), 154 (R/H) and 171 (Q/R/H) are the main determinants of susceptibility/resistance of sheep to classical scrapie. They are combined in four main variants of the wild-type ARQ allele: VRQ, AHQ, ARH and ARR. Breeding programmes have been undertaken on this basis in the European Union and the USA to increase the frequency of the resistant ARR allele in sheep populations. Herein, we report the results of a multi-flock study showing the protective effect of polymorphisms other than those at codons 136, 154 and 171 in Sarda breed sheep. All ARQ/ARQ affected sheep (n = 154) and 378 negative ARQ/ARQ controls from four scrapie outbreaks were submitted to sequencing of the PrP gene. The distribution of variations other than those at the standard three codons, between scrapie cases and negative controls, was statistically different in all flocks. In particular, the AT137RQ and ARQK176 alleles showed a clear protective effect. This is the first study demonstrating a protective influence of alleles other than ARR under field conditions. If further investigations in other sheep breeds and with other scrapie sources confirm these findings, the availability of various protective alleles in breeding programmes of sheep for scrapie resistance could be useful in breeds with a low frequency of the ARR allele and would allow maintaining a wider variability of the PrP gene. PMID:19171116

  14. Invasive Allele Spread under Preemptive Competition

    OpenAIRE

    Yasi, J. A.; Korniss, G.; Caraco, T.

    2005-01-01

    We study a discrete spatial model for invasive allele spread in which two alleles compete preemptively, initially only the "residents" (weaker competitors) being present. We find that the spread of the advantageous mutation is well described by homogeneous nucleation; in particular, in large systems the time-dependent global density of the resident allele is well approximated by Avrami's law.

  15. Gilbert's syndrome: High frequency of the (TA)7 TAA allele in India and its interaction with a novel CAT insertion in promoter of the gene for bilirubin UDP-glucuronosyltransferase 1 gene

    Institute of Scientific and Technical Information of China (English)

    Shabana Farheen; Sanghamitra Sengupta; Amal Santra; Suparna Pal; Gopal Krishna Dhali; Meenakshi Chakravorty; Partha P Majumder; Abhijit Chowdhury

    2006-01-01

    AIM: To identify the variants in UDP-glucuronosyltransferase 1 (UGT1A1) gene in Gilbert's syndrome (GS) and to estimate the association between homozygosity for TA insertion and GS in India, as well as the frequency of TA insertion and its impact among normal controls in India.METHODS: Ninety-five GS cases and 95 normal controls were selected. Liver function and other tests were done. The promoter and all 5 exons of UGT1A1 gene were resequenced. Functional assessment of a novel trinucleotide insertion was done byin silico analysis and by estimating UGT1A1 promoter activity carried out by luciferase reporter assay of appropriate constructs in Hep G2 cell line.RESULTS: Among the GS patients, 80% were homozygous for the TA insertion, which was several-fold higher than reports from other ethnic groups. The mean UCB level was elevated among individuals with only one copy of this insertion, which was not significantly different from those with two copies. Many new DNA variants in UGT1A1 gene were discovered, including a trinucleotide (CAT) insertion in the promoter found in a subset (10%) of GS patients, but not among normal controls. In-silico analysis showed marked changes in the DNA-folding of the promoter and functional analysis showed a 20-fold reduction in transcription efficiency of UGT1A1 gene resulting from this insertion, thereby significantly elevating the UCB level.CONCLUSION: The genetic epidemiology of GS is variable across ethnic groups and the epistatic interactions among UGT1A1 promoter variants modulate bilirubin glucuronidation.

  16. The distribution of spectral index of magnetic field and ion velocity in Pi2 frequency band in BBFs: THEMIS statistics

    Science.gov (United States)

    Wu, Q.; Du, A. M.; Volwerk, M.; Wang, G. Q.

    2016-09-01

    A statistical study of the THEMIS FGM and ESA data is performed on turbulence of magnetic field and velocity for 218 selected 12 min intervals in BBFs. The spectral index α in the frequency range of 0.005-0.06 Hz are Gaussian distributions. The peaks indexes of total ion velocity Vi and parallel velocity V‖ are 1.95 and 2.07 nearly the spectral index of intermittent low frequency turbulence with large amplitude. However, most probable α of perpendicular velocity V⊥ is about 1.75. It is a little bigger than 5/3 of Kolmogorov (1941). The peak indexes of total magnetic field BT is 1.70 similar to V⊥. Compression magnetic field B‖ are 1.85 which is smaller than 2 and bigger than 5/3 of Kolmogorov (1941). The most probable spectral index of shear B⊥ is about 1.44 which is close to 3/2 of Kraichnan (1965). Max V⊥ have little effect on the power magnitude of VT and V‖ but is positively correlated to spectral index of V⊥. The spectral power of BT, B‖ and B⊥ increase with max perpendicular velocity but spectral indexes of them are negatively correlated to V⊥. The spectral index and the spectral power of magnetic field over the frequency interval 0.005-0.06 Hz is very different from that over 0.08-1 Hz.

  17. Frequency Distribution of Second Solid Cancer Locations in Relation to the Irradiated Volume Among 115 Patients Treated for Childhood Cancer

    International Nuclear Information System (INIS)

    Purpose: To provide better estimates of the frequency distribution of second malignant neoplasm (SMN) sites in relation to previous irradiated volumes, and better estimates of the doses delivered to these sites during radiotherapy (RT) of the first malignant neoplasm (FMN). Methods and Materials: The study focused on 115 patients who developed a solid SMN among a cohort of 4581 individuals. The homemade software package DosEG was used to estimate the radiation doses delivered to SMN sites during RT of the FMN. Three-dimensional geometry was used to evaluate the distances between the irradiated volume, for RT delivered to each FMN, and the site of the subsequent SMN. Results: The spatial distribution of SMN relative to the irradiated volumes in our cohort was as follows: 12% in the central area of the irradiated volume, which corresponds to the planning target volume (PTV), 66% in the beam-bordering region (i.e., the area surrounding the PTV), and 22% in regions located more than 5 cm from the irradiated volume. At the SMN site, all dose levels ranging from almost zero to >75 Gy were represented. A peak SMN frequency of approximately 31% was identified in volumes that received <2.5 Gy. Conclusion: A greater volume of tissues receives low or intermediate doses in regions bordering the irradiated volume with modern multiple-beam RT arrangements. These results should be considered for risk-benefit evaluations of RT.

  18. Spatial variations in the frequency-magnitude distribution of earthquakes in the southwestern Okinawa Trough

    Science.gov (United States)

    Lin, J.-Y.; Sibuet, J.-C.; Lee, C.-S.; Hsu, S.-K.; Klingelhoefer, F.

    2007-04-01

    The relations between the frequency of occurrence and the magnitude of earthquakes are established in the southern Okinawa Trough for 2823 relocated earthquakes recorded during a passive ocean bottom seismometer experiment. Three high b-values areas are identified: (1) for an area offshore of the Ilan Plain, south of the andesitic Kueishantao Island from a depth of 50 km to the surface, thereby confirming the subduction component of the island andesites; (2) for a body lying along the 123.3°E meridian at depths ranging from 0 to 50 km that may reflect the high temperature inflow rising up from a slab tear; (3) for a third cylindrical body about 15 km in diameter beneath the Cross Backarc Volcanic Trail, at depths ranging from 0 to 15 km. This anomaly might be related to the presence of a magma chamber at the base of the crust already evidenced by tomographic and geochemical results. The high b-values are generally linked to magmatic and geothermal activities, although most of the seismicity is linked to normal faulting processes in the southern Okinawa Trough.

  19. Transient hepatic attenuation difference (THAD) in patients without neoplasm. Frequency, shape, distribution, and causes

    Energy Technology Data Exchange (ETDEWEB)

    Yamasaki, Michio; Furukawa, Akira; Murata, Kiyoshi; Morita, Rikushi [Shiga Univ. of Medical Science, Otsu (Japan)

    1999-03-01

    Transient hepatic attenuation difference (THAD) is a valuable finding in detecting hypervascular lesions. However, similar findings are also observed in patients even without known hepatic diseases. We elucidate the characteristic findings and the causes of THAD in patients without hepatic neoplasm in this article. Dual-phased contrast-enhanced CT studies performed in 450 patients were reviewed, and THAD was observed in 42 (9.3%). THAD was linear or wedge-shaped and was seen contiguous to the liver surface with a relatively obscure margin in 40 of the 42 cases. The most common cause of THAD was chronic cholecystitis followed by previous biliary surgery. THAD was also seen in 30 patients with no hepatic diseases in whom it had a tendency to locate around the gallbladder fossa or in the periphery of the liver particularly in the left lobe. The knowledge of the prevalence, shape, distribution and causes of THAD is essential for the evaluation of contrast-enhanced CT images obtained during the arterial phase. (author)

  20. Demographic history and rare allele sharing among human populations

    Science.gov (United States)

    Gravel, Simon; Henn, Brenna M.; Gutenkunst, Ryan N.; Indap, Amit R.; Marth, Gabor T.; Clark, Andrew G.; Yu, Fuli; Gibbs, Richard A.; Bustamante, Carlos D.; Altshuler, David L.; Durbin, Richard M.; Abecasis, Gonçalo R.; Bentley, David R.; Chakravarti, Aravinda; Clark, Andrew G.; Collins, Francis S.; De La Vega, Francisco M.; Donnelly, Peter; Egholm, Michael; Flicek, Paul; Gabriel, Stacey B.; Gibbs, Richard A.; Knoppers, Bartha M.; Lander, Eric S.; Lehrach, Hans; Mardis, Elaine R.; McVean, Gil A.; Nickerson, Debbie A.; Peltonen, Leena; Schafer, Alan J.; Sherry, Stephen T.; Wang, Jun; Wilson, Richard K.; Gibbs, Richard A.; Deiros, David; Metzker, Mike; Muzny, Donna; Reid, Jeff; Wheeler, David; Wang, Jun; Li, Jingxiang; Jian, Min; Li, Guoqing; Li, Ruiqiang; Liang, Huiqing; Tian, Geng; Wang, Bo; Wang, Jian; Wang, Wei; Yang, Huanming; Zhang, Xiuqing; Zheng, Huisong; Lander, Eric S.; Altshuler, David L.; Ambrogio, Lauren; Bloom, Toby; Cibulskis, Kristian; Fennell, Tim J.; Gabriel, Stacey B.; Jaffe, David B.; Shefler, Erica; Sougnez, Carrie L.; Bentley, David R.; Gormley, Niall; Humphray, Sean; Kingsbury, Zoya; Koko-Gonzales, Paula; Stone, Jennifer; McKernan, Kevin J.; Costa, Gina L.; Ichikawa, Jeffry K.; Lee, Clarence C.; Sudbrak, Ralf; Lehrach, Hans; Borodina, Tatiana A.; Dahl, Andreas; Davydov, Alexey N.; Marquardt, Peter; Mertes, Florian; Nietfeld, Wilfiried; Rosenstiel, Philip; Schreiber, Stefan; Soldatov, Aleksey V.; Timmermann, Bernd; Tolzmann, Marius; Egholm, Michael; Affourtit, Jason; Ashworth, Dana; Attiya, Said; Bachorski, Melissa; Buglione, Eli; Burke, Adam; Caprio, Amanda; Celone, Christopher; Clark, Shauna; Conners, David; Desany, Brian; Gu, Lisa; Guccione, Lorri; Kao, Kalvin; Kebbel, Andrew; Knowlton, Jennifer; Labrecque, Matthew; McDade, Louise; Mealmaker, Craig; Minderman, Melissa; Nawrocki, Anne; Niazi, Faheem; Pareja, Kristen; Ramenani, Ravi; Riches, David; Song, Wanmin; Turcotte, Cynthia; Wang, Shally; Mardis, Elaine R.; Wilson, Richard K.; Dooling, David; Fulton, Lucinda; Fulton, Robert; Weinstock, George; Durbin, Richard M.; Burton, John; Carter, David M.; Churcher, Carol; Coffey, Alison; Cox, Anthony; Palotie, Aarno; Quail, Michael; Skelly, Tom; Stalker, James; Swerdlow, Harold P.; Turner, Daniel; De Witte, Anniek; Giles, Shane; Gibbs, Richard A.; Wheeler, David; Bainbridge, Matthew; Challis, Danny; Sabo, Aniko; Yu, Fuli; Yu, Jin; Wang, Jun; Fang, Xiaodong; Guo, Xiaosen; Li, Ruiqiang; Li, Yingrui; Luo, Ruibang; Tai, Shuaishuai; Wu, Honglong; Zheng, Hancheng; Zheng, Xiaole; Zhou, Yan; Li, Guoqing; Wang, Jian; Yang, Huanming; Marth, Gabor T.; Garrison, Erik P.; Huang, Weichun; Indap, Amit; Kural, Deniz; Lee, Wan-Ping; Leong, Wen Fung; Quinlan, Aaron R.; Stewart, Chip; Stromberg, Michael P.; Ward, Alistair N.; Wu, Jiantao; Lee, Charles; Mills, Ryan E.; Shi, Xinghua; Daly, Mark J.; DePristo, Mark A.; Altshuler, David L.; Ball, Aaron D.; Banks, Eric; Bloom, Toby; Browning, Brian L.; Cibulskis, Kristian; Fennell, Tim J.; Garimella, Kiran V.; Grossman, Sharon R.; Handsaker, Robert E.; Hanna, Matt; Hartl, Chris; Jaffe, David B.; Kernytsky, Andrew M.; Korn, Joshua M.; Li, Heng; Maguire, Jared R.; McCarroll, Steven A.; McKenna, Aaron; Nemesh, James C.; Philippakis, Anthony A.; Poplin, Ryan E.; Price, Alkes; Rivas, Manuel A.; Sabeti, Pardis C.; Schaffner, Stephen F.; Shefler, Erica; Shlyakhter, Ilya A.; Cooper, David N.; Ball, Edward V.; Mort, Matthew; Phillips, Andrew D.; Stenson, Peter D.; Sebat, Jonathan; Makarov, Vladimir; Ye, Kenny; Yoon, Seungtai C.; Bustamante, Carlos D.; Clark, Andrew G.; Boyko, Adam; Degenhardt, Jeremiah; Gravel, Simon; Gutenkunst, Ryan N.; Kaganovich, Mark; Keinan, Alon; Lacroute, Phil; Ma, Xin; Reynolds, Andy; Clarke, Laura; Flicek, Paul; Cunningham, Fiona; Herrero, Javier; Keenen, Stephen; Kulesha, Eugene; Leinonen, Rasko; McLaren, William M.; Radhakrishnan, Rajesh; Smith, Richard E.; Zalunin, Vadim; Zheng-Bradley, Xiangqun; Korbel, Jan O.; Stütz, Adrian M.; Humphray, Sean; Bauer, Markus; Cheetham, R. Keira; Cox, Tony; Eberle, Michael; James, Terena; Kahn, Scott; Murray, Lisa; Chakravarti, Aravinda; Ye, Kai; De La Vega, Francisco M.; Fu, Yutao; Hyland, Fiona C. L.; Manning, Jonathan M.; McLaughlin, Stephen F.; Peckham, Heather E.; Sakarya, Onur; Sun, Yongming A.; Tsung, Eric F.; Batzer, Mark A.; Konkel, Miriam K.; Walker, Jerilyn A.; Sudbrak, Ralf; Albrecht, Marcus W.; Amstislavskiy, Vyacheslav S.; Herwig, Ralf; Parkhomchuk, Dimitri V.; Sherry, Stephen T.; Agarwala, Richa; Khouri, Hoda M.; Morgulis, Aleksandr O.; Paschall, Justin E.; Phan, Lon D.; Rotmistrovsky, Kirill E.; Sanders, Robert D.; Shumway, Martin F.; Xiao, Chunlin; McVean, Gil A.; Auton, Adam; Iqbal, Zamin; Lunter, Gerton; Marchini, Jonathan L.; Moutsianas, Loukas; Myers, Simon; Tumian, Afidalina; Desany, Brian; Knight, James; Winer, Roger; Craig, David W.; Beckstrom-Sternberg, Steve M.; Christoforides, Alexis; Kurdoglu, Ahmet A.; Pearson, John V.; Sinari, Shripad A.; Tembe, Waibhav D.; Haussler, David; Hinrichs, Angie S.; Katzman, Sol J.; Kern, Andrew; Kuhn, Robert M.; Przeworski, Molly; Hernandez, Ryan D.; Howie, Bryan; Kelley, Joanna L.; Melton, S. Cord; Abecasis, Gonçalo R.; Li, Yun; Anderson, Paul; Blackwell, Tom; Chen, Wei; Cookson, William O.; Ding, Jun; Kang, Hyun Min; Lathrop, Mark; Liang, Liming; Moffatt, Miriam F.; Scheet, Paul; Sidore, Carlo; Snyder, Matthew; Zhan, Xiaowei; Zöllner, Sebastian; Awadalla, Philip; Casals, Ferran; Idaghdour, Youssef; Keebler, John; Stone, Eric A.; Zilversmit, Martine; Jorde, Lynn; Xing, Jinchuan; Eichler, Evan E.; Aksay, Gozde; Alkan, Can; Hajirasouliha, Iman; Hormozdiari, Fereydoun; Kidd, Jeffrey M.; Sahinalp, S. Cenk; Sudmant, Peter H.; Mardis, Elaine R.; Chen, Ken; Chinwalla, Asif; Ding, Li; Koboldt, Daniel C.; McLellan, Mike D.; Dooling, David; Weinstock, George; Wallis, John W.; Wendl, Michael C.; Zhang, Qunyuan; Durbin, Richard M.; Albers, Cornelis A.; Ayub, Qasim; Balasubramaniam, Senduran; Barrett, Jeffrey C.; Carter, David M.; Chen, Yuan; Conrad, Donald F.; Danecek, Petr; Dermitzakis, Emmanouil T.; Hu, Min; Huang, Ni; Hurles, Matt E.; Jin, Hanjun; Jostins, Luke; Keane, Thomas M.; Le, Si Quang; Lindsay, Sarah; Long, Quan; MacArthur, Daniel G.; Montgomery, Stephen B.; Parts, Leopold; Stalker, James; Tyler-Smith, Chris; Walter, Klaudia; Zhang, Yujun; Gerstein, Mark B.; Snyder, Michael; Abyzov, Alexej; Balasubramanian, Suganthi; Bjornson, Robert; Du, Jiang; Grubert, Fabian; Habegger, Lukas; Haraksingh, Rajini; Jee, Justin; Khurana, Ekta; Lam, Hugo Y. K.; Leng, Jing; Mu, Xinmeng Jasmine; Urban, Alexander E.; Zhang, Zhengdong; Li, Yingrui; Luo, Ruibang; Marth, Gabor T.; Garrison, Erik P.; Kural, Deniz; Quinlan, Aaron R.; Stewart, Chip; Stromberg, Michael P.; Ward, Alistair N.; Wu, Jiantao; Lee, Charles; Mills, Ryan E.; Shi, Xinghua; McCarroll, Steven A.; Banks, Eric; DePristo, Mark A.; Handsaker, Robert E.; Hartl, Chris; Korn, Joshua M.; Li, Heng; Nemesh, James C.; Sebat, Jonathan; Makarov, Vladimir; Ye, Kenny; Yoon, Seungtai C.; Degenhardt, Jeremiah; Kaganovich, Mark; Clarke, Laura; Smith, Richard E.; Zheng-Bradley, Xiangqun; Korbel, Jan O.; Humphray, Sean; Cheetham, R. Keira; Eberle, Michael; Kahn, Scott; Murray, Lisa; Ye, Kai; De La Vega, Francisco M.; Fu, Yutao; Peckham, Heather E.; Sun, Yongming A.; Batzer, Mark A.; Konkel, Miriam K.; Walker, Jerilyn A.; Xiao, Chunlin; Iqbal, Zamin; Desany, Brian; Blackwell, Tom; Snyder, Matthew; Xing, Jinchuan; Eichler, Evan E.; Aksay, Gozde; Alkan, Can; Hajirasouliha, Iman; Hormozdiari, Fereydoun; Kidd, Jeffrey M.; Chen, Ken; Chinwalla, Asif; Ding, Li; McLellan, Mike D.; Wallis, John W.; Hurles, Matt E.; Conrad, Donald F.; Walter, Klaudia; Zhang, Yujun; Gerstein, Mark B.; Snyder, Michael; Abyzov, Alexej; Du, Jiang; Grubert, Fabian; Haraksingh, Rajini; Jee, Justin; Khurana, Ekta; Lam, Hugo Y. K.; Leng, Jing; Mu, Xinmeng Jasmine; Urban, Alexander E.; Zhang, Zhengdong; Gibbs, Richard A.; Bainbridge, Matthew; Challis, Danny; Coafra, Cristian; Dinh, Huyen; Kovar, Christie; Lee, Sandy; Muzny, Donna; Nazareth, Lynne; Reid, Jeff; Sabo, Aniko; Yu, Fuli; Yu, Jin; Marth, Gabor T.; Garrison, Erik P.; Indap, Amit; Leong, Wen Fung; Quinlan, Aaron R.; Stewart, Chip; Ward, Alistair N.; Wu, Jiantao; Cibulskis, Kristian; Fennell, Tim J.; Gabriel, Stacey B.; Garimella, Kiran V.; Hartl, Chris; Shefler, Erica; Sougnez, Carrie L.; Wilkinson, Jane; Clark, Andrew G.; Gravel, Simon; Grubert, Fabian; Clarke, Laura; Flicek, Paul; Smith, Richard E.; Zheng-Bradley, Xiangqun; Sherry, Stephen T.; Khouri, Hoda M.; Paschall, Justin E.; Shumway, Martin F.; Xiao, Chunlin; McVean, Gil A.; Katzman, Sol J.; Abecasis, Gonçalo R.; Blackwell, Tom; Mardis, Elaine R.; Dooling, David; Fulton, Lucinda; Fulton, Robert; Koboldt, Daniel C.; Durbin, Richard M.; Balasubramaniam, Senduran; Coffey, Allison; Keane, Thomas M.; MacArthur, Daniel G.; Palotie, Aarno; Scott, Carol; Stalker, James; Tyler-Smith, Chris; Gerstein, Mark B.; Balasubramanian, Suganthi; Chakravarti, Aravinda; Knoppers, Bartha M.; Abecasis, Gonçalo R.; Bustamante, Carlos D.; Gharani, Neda; Gibbs, Richard A.; Jorde, Lynn; Kaye, Jane S.; Kent, Alastair; Li, Taosha; McGuire, Amy L.; McVean, Gil A.; Ossorio, Pilar N.; Rotimi, Charles N.; Su, Yeyang; Toji, Lorraine H.; TylerSmith, Chris; Brooks, Lisa D.; Felsenfeld, Adam L.; McEwen, Jean E.; Abdallah, Assya; Juenger, Christopher R.; Clemm, Nicholas C.; Collins, Francis S.; Duncanson, Audrey; Green, Eric D.; Guyer, Mark S.; Peterson, Jane L.; Schafer, Alan J.; Abecasis, Gonçalo R.; Altshuler, David L.; Auton, Adam; Brooks, Lisa D.; Durbin, Richard M.; Gibbs, Richard A.; Hurles, Matt E.; McVean, Gil A.

    2011-01-01

    High-throughput sequencing technology enables population-level surveys of human genomic variation. Here, we examine the joint allele frequency distributions across continental human populations and present an approach for combining complementary aspects of whole-genome, low-coverage data and targeted high-coverage data. We apply this approach to data generated by the pilot phase of the Thousand Genomes Project, including whole-genome 2–4× coverage data for 179 samples from HapMap European, Asian, and African panels as well as high-coverage target sequencing of the exons of 800 genes from 697 individuals in seven populations. We use the site frequency spectra obtained from these data to infer demographic parameters for an Out-of-Africa model for populations of African, European, and Asian descent and to predict, by a jackknife-based approach, the amount of genetic diversity that will be discovered as sample sizes are increased. We predict that the number of discovered nonsynonymous coding variants will reach 100,000 in each population after ∼1,000 sequenced chromosomes per population, whereas ∼2,500 chromosomes will be needed for the same number of synonymous variants. Beyond this point, the number of segregating sites in the European and Asian panel populations is expected to overcome that of the African panel because of faster recent population growth. Overall, we find that the majority of human genomic variable sites are rare and exhibit little sharing among diverged populations. Our results emphasize that replication of disease association for specific rare genetic variants across diverged populations must overcome both reduced statistical power because of rarity and higher population divergence. PMID:21730125

  1. Sensitivity of Photolysis Frequencies and Key Tropospheric Oxidants in a Global Model to Cloud Vertical Distributions and Optical Properties

    Science.gov (United States)

    Liu, Hongyu; Crawford, James H.; Considine, David B.; Platnick, Steven; Norris, Peter M.; Duncan, Bryan N.; Pierce, Robert B.; Chen, Gao; Yantosca, Robert M.

    2009-01-01

    Clouds affect tropospheric photochemistry through modification of solar radiation that determines photolysis frequencies. As a follow-up study to our recent assessment of the radiative effects of clouds on tropospheric chemistry, this paper presents an analysis of the sensitivity of such effects to cloud vertical distributions and optical properties (cloud optical depths (CODs) and cloud single scattering albedo), in a global 3-D chemical transport model (GEOS-Chem). GEOS-Chem was driven with a series of meteorological archives (GEOS1- STRAT, GEOS-3 and GEOS-4) generated by the NASA Goddard Earth Observing System data assimilation system. Clouds in GEOS1-STRAT and GEOS-3 have more similar vertical distributions (with substantially smaller CODs in GEOS1-STRAT) while those in GEOS-4 are optically much thinner in the tropical upper troposphere. We find that the radiative impact of clouds on global photolysis frequencies and hydroxyl radical (OH) is more sensitive to the vertical distribution of clouds than to the magnitude of column CODs. With random vertical overlap for clouds, the model calculated changes in global mean OH (J(O1D), J(NO2)) due to the radiative effects of clouds in June are about 0.0% (0.4%, 0.9%), 0.8% (1.7%, 3.1%), and 7.3% (4.1%, 6.0%), for GEOS1-STRAT, GEOS-3 and GEOS-4, respectively; the geographic distributions of these quantities show much larger changes, with maximum decrease in OH concentrations of approx.15-35% near the midlatitude surface. The much larger global impact of clouds in GEOS-4 reflects the fact that more solar radiation is able to penetrate through the optically thin upper-tropospheric clouds, increasing backscattering from low-level clouds. Model simulations with each of the three cloud distributions all show that the change in the global burden of ozone due to clouds is less than 5%. Model perturbation experiments with GEOS-3, where the magnitude of 3-D CODs are progressively varied from -100% to 100%, predict only modest

  2. Are 'endurance' alleles 'survival' alleles? Insights from the ACTN3 R577X polymorphism.

    Directory of Open Access Journals (Sweden)

    Carmen Fiuza-Luces

    Full Text Available Exercise phenotypes have played a key role for ensuring survival over human evolution. We speculated that some genetic variants that influence exercise phenotypes could be associated with exceptional survival (i.e. reaching ≥100 years of age. Owing to its effects on muscle structure/function, a potential candidate is the Arg(R577Ter(X polymorphism (rs1815739 in ACTN3, the structural gene encoding the skeletal muscle protein α-actinin-3. We compared the ACTN3 R577X genotype/allele frequencies between the following groups of ethnically-matched (Spanish individuals: centenarians (cases, n = 64; 57 female; age range: 100-108 years, young healthy controls (n = 283, 67 females, 216 males; 21±2 years, and humans who are at the two end-points of exercise capacity phenotypes, i.e. muscle endurance (50 male professional road cyclists and muscle power (63 male jumpers/sprinters. Although there were no differences in genotype/allele frequencies between centenarians (RR:28.8%; RX:47.5%; XX:23.7%, and controls (RR:31.8%; RX:49.8%; XX:18.4% or endurance athletes (RR:28.0%; RX:46%; XX:26.0%, we observed a significantly higher frequency of the X allele (P = 0.019 and XX genotype (P = 0.011 in centenarians compared with power athletes (RR:47.6%; RX:36.5%;XX:15.9%. Notably, the frequency of the null XX (α-actinin-3 deficient genotype in centenarians was the highest ever reported in non-athletic Caucasian populations. In conclusion, despite there were no significant differences with the younger, control population, overall the ACTN3 genotype of centenarians resembles that of world-class elite endurance athletes and differs from that of elite power athletes. Our preliminary data would suggest a certain 'survival' advantage brought about by α-actinin-3 deficiency and the 'endurance'/oxidative muscle phenotype that is commonly associated with this condition.

  3. Modeling and distributed gain scheduling strategy for load frequency control in smart grids with communication topology changes.

    Science.gov (United States)

    Liu, Shichao; Liu, Xiaoping P; El Saddik, Abdulmotaleb

    2014-03-01

    In this paper, we investigate the modeling and distributed control problems for the load frequency control (LFC) in a smart grid. In contrast with existing works, we consider more practical and real scenarios, where the communication topology of the smart grid changes because of either link failures or packet losses. These topology changes are modeled as a time-varying communication topology matrix. By using this matrix, a new closed-loop power system model is proposed to integrate the communication topology changes into the dynamics of a physical power system. The globally asymptotical stability of this closed-loop power system is analyzed. A distributed gain scheduling LFC strategy is proposed to compensate for the potential degradation of dynamic performance (mean square errors of state vectors) of the power system under communication topology changes. In comparison to conventional centralized control approaches, the proposed method can improve the robustness of the smart grid to the variation of the communication network as well as to reduce computation load. Simulation results show that the proposed distributed gain scheduling approach is capable to improve the robustness of the smart grid to communication topology changes. PMID:24200162

  4. Correlating alleles of genes LPH, CALCR, COL1A1, VDR with the indicators of bone tissue mineral density in female population of Eastern Kazakhstan

    Directory of Open Access Journals (Sweden)

    Ainur Akilzhanova

    2010-04-01

    Full Text Available The paper attemts to identify distribution of frequency of alleles of LPH,CALCR, COL1A1, VDR genes and correlation with indicators of bonetissue mineral density (BTMD in population of reproductive agefemales in the Eastern region of Kazakhstan.Genetic research has been conducted on 475 females exhibiting LPH,CALCR, COL1A1, VDR genes, presence of which, according to previousresearch, is due to confirmed increased risk of osteoporosis. Examinedfemales were distributed by race: 213 women were of European descent,262 -Asian (Turkic.Women of Turkic descent presented a much elevated rate of allelespertaining to the genes associated with the risk of reduced BTMD.Moreover, correlation has been established between osteopeniacsyndrome and existence of certain recessive alleles in heterozygouscases.

  5. Persistence of the common Hartnup disease D173N allele in populations of European origin.

    Science.gov (United States)

    Azmanov, Dimitar N; Rodgers, Helen; Auray-Blais, Christiane; Giguère, Robert; Bailey, Charles; Bröer, Stefan; Rasko, John E J; Cavanaugh, Juleen A

    2007-11-01

    Hartnup disorder is an aminoaciduria that results from mutations in the recently described gene SLC6A19 on chromosome 5p15.33. The disease is inherited in a simple recessive manner and ten different mutations have been described to date. One mutation, the D173N allele, is present in 42% of Hartnup chromosomes from apparently unrelated families from both Australia and North America. We report an investigation of the origins of the D173N allele using a unique combination of variants including SNPs, microsatellites, and a VNTR across 211 Kb spanning the SLC6A19 locus. All individuals who carry the mutant allele share an identical core haplotype suggesting a single common ancestor, indicating that the elevated frequency of the D173N allele is not a result of recurrent mutation. Analyses of these data indicate that the allele is more than 1000 years old. We compare the reasons for survival of this allele with other major alleles in some other common autosomal recessive diseases occurring in European Caucasians. We postulate that survival of this allele may be a consequence of failure of the allele to completely inactivate the transport of neutral amino acids. PMID:17555458

  6. [Allelic polymorphism of kappa-casein gene (CSN3) in Russian cattle breeds and its informative value as a genetic marker].

    Science.gov (United States)

    Sulimova, G E; Abani Azari, M; Rostamzadeh, J; Mohammad Abani, M R; Lazebnyĭ, O E

    2007-01-01

    The frequencies of the kappa-casein gene (CSN3) alleles and genotypes have been determined in five Russian cattle breeds (Bestuzhev, Kalmyk, Russian Black Pied, Yaroslavl, and Yakut breeds) by means of PCR-RFLP analysis using two independent restriction nucleases (HinfI and TaqI) and by allele-specific PCR. Typing alleles A and B of CSN3 is of practical importance, because allele B is correlated with commercially valuable parameters of milk productivity (protein content and milk yield) and improves the cheese yielding capacity. The frequencies of the B allele of CSN3 in the breeds studied vary from 0.16 to 0.50; and those of the AB and BB genotypes, from 0.27 to 0.60 and from 0.02 to 0.23, respectively. The Yaroslavl breed had the highest frequencies of CSN3 allele B and genotype BB (0.50 and 0.23, respectively). The frequencies of the B allele and BB genotype in other breeds studied varied from 0.25 to 0.32 and from 0.03 to 0.09, respectively. In none of the breeds studied have the observed and expected heterozygosities been found to differ from each other significantly. However, the observed genotype distributions significantly differ from the expected one in some herds (in most such cases, an excess of heterozygotes is observed). Two herds of the Yaroslavl breed dramatically differ from each other in the heterozygosity level: a deficit (D = -0.14) and an excess (D = 0.20) of heterozygotes have been observed at the Mikhailovskoe and Gorshikha farms, respectively. In general, however, the heterozygosity of the Yaroslavl breed corresponds to the expected level (D = 0.04). Analysis of breeds for homogeneity with the use of Kulback's test has shown that all cattle breeds studied are heterogeneous, the CSN3 diversity within breeds being higher than that among different breeds, which is confirmed by low Fst values (0.0025-0.0431). Thus, a DNA marker based on CSN3 gene polymorphism is extremely important for breeding practice as a marker of milk quality; however, it is

  7. Reconstruction of superthermal electron velocity distribution function from electron cyclotron spectra at down-shifted frequencies in tokamak T-10

    Directory of Open Access Journals (Sweden)

    Kukushkin A.B.

    2012-09-01

    Full Text Available A model is developed to quantitatively interpret the electron cyclotron (EC spectra in tokamak T-10 at frequencies lower than the first EC harmonic at the plasma edge. The model is based on the almost free propagation and isotropy of EC radiation in between the vacuum chamber wall and the cut-off zone in plasma. The inverse problem for the reconstruction of the velocity distribution function of superthermal electrons (in parallel and perpendicular momenta, and magnetic flux surfaces at the plasma edge is formulated and solved. It is shown that in the Ohmic discharges in the tokamak T-10 the superthermal electrons are the trapped particles at the low magnetic field side of toroid. Their mean kinetic energy lies in the range ~ 150-200 keV, and the density fraction is about ~ 10-4 relative to the main plasma.

  8. Semicircular canal dehiscence: Frequency and distribution on temporal bone CT and its relationship with the clinical outcomes

    Energy Technology Data Exchange (ETDEWEB)

    Elmali, Muzaffer, E-mail: muzafel@yahoo.com.tr [Department of Radiology, Ondokuz Mayis University, Faculty of Medicine, Samsun (Turkey); Polat, Ahmet Veysel, E-mail: veyselp@hotmail.com [Department of Radiology, Ondokuz Mayis University, Faculty of Medicine, Samsun (Turkey); Kucuk, Harun, E-mail: hardrmd@yahoo.com [Department of Otorhinolaryngology, Ondokuz Mayis University, Faculty of Medicine, Samsun (Turkey); Atmaca, Sinan, E-mail: sinanatmaca@yahoo.com [Department of Otorhinolaryngology, Ondokuz Mayis University, Faculty of Medicine, Samsun (Turkey); Aksoy, Ahmet, E-mail: toxocara47@hotmail.com [Department of Otorhinolaryngology, Ondokuz Mayis University, Faculty of Medicine, Samsun (Turkey)

    2013-10-01

    Purpose: In this study, we aimed to investigate the frequency of SCD and its distribution and relationship with clinical outcomes on thin-section CT of the temporal bone. Materials and methods: Digital temporal bone CT images of 850 consecutive patients (1700 temporal bone CTs, 5100 SCs) who presented with a range of complaints such as vertigo, deafness, ear pain, fullness, and discharge between January 2008 and December 2011 were re-evaluated. Axial and oblique coronal reconstruction images of the temporal bone were made with a reconstruction thickness of 0.5 mm. Additionally, superior SC was evaluated in two perpendicular planes. Results: Out of 850 patients, 70 had completely normal temporal bone CT. Ninety-three patients had at least one SCD. In the temporal bone-based evaluation, 119 (26 bilateral, 67 unilateral) of 1700 temporal bones (7%) showed dehiscence. The SC-based evaluation revealed 125 SCD (2.5%) in 5100 SCs. The total number and rates of SCD were as follows: superior 103 (82.4%), posterior 13 (10.4%), and lateral nine (7.2%). Twenty of the 93 patients with SCD (21.5%) revealed no other findings on their temporal bone CTs. We determined a significant correlation between vestibular complaints, conductive hearing loss and SCD but there was no correlation between mixed, sensorineural hearing loss and SCD. Conclusion: We determined the frequency of SCD in 11% of patients and 7% of temporal bones. With regards to the distribution, the superior SC showed the highest dehiscence rate (82.4%). We found a significant correlation between vestibular symptoms, conductive hearing loss and SCD.

  9. Determination of plasma frequency, damping constant, and size distribution from the complex dielectric function of noble metal nanoparticles

    Energy Technology Data Exchange (ETDEWEB)

    Mendoza Herrera, Luis J.; Arboleda, David Muñetón [Centro de Investigaciones Ópticas (CIOp), (CONICET La Plata-CIC) (Argentina); Schinca, Daniel C.; Scaffardi, Lucía B., E-mail: lucias@ciop.unlp.edu.ar [Centro de Investigaciones Ópticas (CIOp), (CONICET La Plata-CIC) (Argentina); Departamento de Ciencias Básicas, Facultad de Ingeniería, UNLP (Argentina)

    2014-12-21

    This paper develops a novel method for simultaneously determining the plasma frequency ω{sub P}   and the damping constant γ{sub free} in the bulk damped oscillator Drude model, based on experimentally measured real and imaginary parts of the metal refractive index in the IR wavelength range, lifting the usual approximation that restricts frequency values to the UV-deep UV region. Our method was applied to gold, silver, and copper, improving the relative uncertainties in the final values for ω{sub p} (0.5%–1.6%) and for γ{sub free} (3%–8%), which are smaller than those reported in the literature. These small uncertainties in ω{sub p} and γ{sub free} determination yield a much better fit of the experimental complex dielectric function. For the case of nanoparticles (Nps), a series expansion of the Drude expression (which includes ω{sub p} and γ{sub free} determined using our method) enables size-dependent dielectric function to be written as the sum of three terms: the experimental bulk dielectric function plus two size corrective terms, one for free electron, and the other for bound-electron contributions. Finally, size distribution of nanometric and subnanometric gold Nps in colloidal suspension was determined through fitting its experimental optical extinction spectrum using Mie theory based on the previously determined dielectric function. Results are compared with size histogram obtained from Transmission Electron Microscopy (TEM)

  10. Determination of plasma frequency, damping constant, and size distribution from the complex dielectric function of noble metal nanoparticles

    International Nuclear Information System (INIS)

    This paper develops a novel method for simultaneously determining the plasma frequency ωP   and the damping constant γfree in the bulk damped oscillator Drude model, based on experimentally measured real and imaginary parts of the metal refractive index in the IR wavelength range, lifting the usual approximation that restricts frequency values to the UV-deep UV region. Our method was applied to gold, silver, and copper, improving the relative uncertainties in the final values for ωp (0.5%–1.6%) and for γfree (3%–8%), which are smaller than those reported in the literature. These small uncertainties in ωp and γfree determination yield a much better fit of the experimental complex dielectric function. For the case of nanoparticles (Nps), a series expansion of the Drude expression (which includes ωp and γfree determined using our method) enables size-dependent dielectric function to be written as the sum of three terms: the experimental bulk dielectric function plus two size corrective terms, one for free electron, and the other for bound-electron contributions. Finally, size distribution of nanometric and subnanometric gold Nps in colloidal suspension was determined through fitting its experimental optical extinction spectrum using Mie theory based on the previously determined dielectric function. Results are compared with size histogram obtained from Transmission Electron Microscopy (TEM)

  11. Multi-frequency monitoring of gamma-ray loud blazars: I. Light curves and spectral energy distributions

    CERN Document Server

    Bach, U; Villata, M; Fuhrmann, L; Buemi, C S; Larionov, V M; Leto, P; Arkharov, A A; Coloma, J M; Di Paola, A; Dolci, M; Efimova, N; Forne, E; Ibrahimov, M A; Hagen-Thorn, V; Konstantinova, T; Kopatskaya, E; Lanteri, L; Kurtanidze, O M; Maccaferri, G; Nikolashvili, M G; Orlati, A; Ros, J A; Tosti, G; Trigilio, C; Umana, G

    2006-01-01

    Context: Being dominated by non-thermal emission from aligned relativistic jets, blazars allow us to elucidate the physics of extragalactic jets, and, ltimately, how the energy is extracted from the central black hole in radio-loud active galactic nuclei. Aims: Crucial information is provided by broad-band spectral energy distributions (SEDs), their trends with luminosity and correlated multi-frequency variability. With this study we plan to obtain a database of contemporaneous radio-to-optical spectra of a sample of blazars, which are and will be observed by current and future high-energy satellites. Methods: Since December 2004 we are performing a monthly multi-frequency radio monitoring of a sample of 35 blazars at the antennas in Medicina and Noto. Contemporaneous near-IR and optical observations for all our observing epochs are organised. Results: Until June 2006 about 4000 radio measurements and 5500 near-IR and optical measurements were obtained. Most of the sources show significant variability in all ...

  12. Allelic variation in the squirrel monkey x-linked color vision gene: biogeographical and behavioral correlates.

    Science.gov (United States)

    Cropp, Susan; Boinski, Sue; Li, Wen-Hsiung

    2002-06-01

    Most Neotropical primate species possess a polymorphic X-linked and a monomorphic autosomal color vision gene. Consequently, populations are composed of both dichromatics and trichromatics. Most theories on the maintenance of this genetic system revolve around possible advantages for foraging ecology. To examine the issue from a different angle, we compared the numbers and relative frequencies of alleles at the X-linked locus among three species of Saimiri representing a wide range of geographical and behavioral variation in the genus. Exons 3, 4, and 5 of the X-linked opsin gene were sequenced for a large number of X chromosomes for all three species. Several synonymous mutations were detected in exons 4 and 5 for the originally reported alleles but only a single nonsynonymous change was detected. Two alleles were found that appeared to be the result of recombination events. The low occurrence of recombinant alleles and absence of mutations in the amino acids critical for spectral tuning indicates that stabilizing selection acts to maintain the combinations of critical sites specific to each allele. Allele frequencies were approximately the same for all Saimiri species, with a slight but significant difference between S. boliviensis and S. oerstedii. No apparent correlation exists between allele frequencies and behavioral or biogeographical differences between species, casting doubt on the speculation that the spectral sensitivities of the alleles have been maintained because they are specifically well-tuned to Saimiri visual ecology. Rather, the spectral tuning peaks might have been maintained because they are as widely spaced as possible within the limited range of middlewave to longwave spectra useful to all primates. This arrangement creates a balance between maximizing the distance between spectral tuning peaks (allowing the color opponency of the visual system to distinguish between peaks) and maximizing the number of alleles within a limited range (yielding

  13. Linear and non-linear frequency domain techniques for processing impact echo signals to evaluate distributed damage in concrete

    Science.gov (United States)

    McMorris, Nicolas

    The condition evaluation of in-situ concrete with non-destructive testing is difficult at best. The concrete deterioration processes of alkali-silica reaction (ASR), delayed ettringite formation (DEF) and freeze-thaw cycles all produce distributed damage in the form of micro-cracking which results in loss of strength or stiffness. Presently, a suitable field applicable method for determining the degree of microcracking does not exist. The impact echo test is potentially the best candidate if improvements can be made in the signal processing techniques which are crucial for accurately interpreting the data retrieved from concrete with distributed damage. In this research, two batches of concrete specimens were prepared in accordance with standard procedures. A portion of each batch was subjected to either the Modified Duggan cycle or to Freeze Thaw cycles, both proven methods of inducing DEF and micro-cracking respectively. Curing techniques and materials were also chosen to accelerate distributed damage in the concrete specimens. In addition to the impact echo, a number of secondary tests were employed to monitor the progress of distributed damage in the concrete specimens. Previous research efforts utilizing the impact echo method have attempted to characterize damage in terms of P-wave attenuation or pulse velocity. This involves signal processing in the time domain. These are inherently linear dynamics methods whereas the development of micro-cracks in concrete, an inhomogeneous material, gives rise to non-linear dynamics. Non-linear approaches to signal processing in the frequency domain are proposed herein. One involves calculating the deviation of the peak of the response spectrum from the shape of an ideal Lorentzian function model. The other calculates the second order non-linear harmonic coefficient. The results showed that the potassium content, the curing methods and the Duggan and Freeze Thaw cycles had the desired effect of inducing distributed damage

  14. Effect of trophic level on the radiocesium frequency distribution in aquatic and terrestrial ecosystems at Chornobyl and nuclear sites in the United States

    International Nuclear Information System (INIS)

    There are significant linear relationship between the standard deviation and the mean of radiocesium concentration for samples of soils, sediments, plants, and animals from Chornobyl and nuclear sites in the United States. The universal occurrence of this relationship in all types of samples suggests that a non-normal frequency distribution should be expected. The slopes of these relationships are similar for fish and mammals from the two regions of the world but those for plants are not. The slopes for plants are similar for aquatic and terrestrial ecosystems within each region. We hypothesize that there are relationships between the four moments of the frequency distribution of radiocesium (mean, variance, skewness, and kurtosis), and that these relationships are caused by the functional properties of the organisms and other characteristics of the ecosystem. The way in which radiocesium was distributed across the landscape does not seem to be a factor in determining the form of the frequency distribution. (author)

  15. Effects and mechanism of dual-frequency power ultrasound on the molecular weight distribution of corn gluten meal hydrolysates.

    Science.gov (United States)

    Jin, Jian; Ma, Haile; Wang, Bei; Yagoub, Abu El-Gasim A; Wang, Kai; He, Ronghai; Zhou, Cunshan

    2016-05-01

    The impact of dual-frequency power ultrasound (DPU) on the molecular weight distribution (MWD) of corn gluten meal (CGM) hydrolysates and its mechanism were investigated in the present study. The mechanism was studied from aspects of structural and nano-mechanical characteristics of the major protein fractions of CGM, viz. zein and glutelin. The results of molecular weight distribution indicated that DPU pretreatment of CGM was beneficial to the preparation of peptides with molecular weights of 200-1000Da. Moreover, FTIR spectral analysis and atomic force microscopy characterization showed that the DPU pretreatment changed the contents of secondary structure of proteins, decreased the particle height and surface roughness of glutelin, reduced the Young's modulus and stiffness of zein while increased its adhesion force. In conclusion, DPU pretreatment of proteins before proteolysis is an efficient alternative method to produce short-chain peptides because of its positive effects originating from acoustic cavitation on the molecular conformation, nano-structures and nano-mechanical properties of proteins as well. PMID:26703201

  16. Modeling the evolution and distribution of the frequency's second derivative and the braking index of pulsar spin

    International Nuclear Information System (INIS)

    We model the evolution of the spin frequency's second derivative v.. and the braking index n of radio pulsars with simulations within the phenomenological model of their surface magnetic field evolution, which contains a long-term power-law decay modulated by short-term oscillations. For the pulsar PSR B0329+54, a model with three oscillation components can reproduce its v.. variation. We show that the “averaged” n is different from the instantaneous n, and its oscillation magnitude decreases abruptly as the time span increases, due to the “averaging” effect. The simulated timing residuals agree with the main features of the reported data. Our model predicts that the averaged v.. of PSR B0329+54 will start to decrease rapidly with newer data beyond those used in Hobbs et al. We further perform Monte Carlo simulations for the distribution of the reported data in |v..| and |n| versus characteristic age τC diagrams. It is found that the magnetic field oscillation model with decay index α = 0 can reproduce the distributions quite well. Compared with magnetic field decay due to the ambipolar diffusion (α = 0.5) and the Hall cascade (α = 1.0), the model with no long term decay (α = 0) is clearly preferred for old pulsars by the p-values of the two-dimensional Kolmogorov-Smirnov test. (paper)

  17. High frequency (hourly) variation in vertical distribution and abundance of meroplanktonic larvae in nearshore waters during strong internal tidal forcing

    Science.gov (United States)

    Liévana MacTavish, A.; Ladah, L. B.; Lavín, M. F.; Filonov, A.; Tapia, Fabian J.; Leichter, J.

    2016-04-01

    We related the vertical distribution and abundance of nearshore meroplankton at hourly time scales with internal tidal wave events. We proposed that significant changes in plankter abundance would occur across internal tidal fronts, and that surface and bottom strata would respond in opposite fashions. First-mode internal tidal bores propagating in the alongshore direction were detected in water-column currents and baroclinic temperature changes. Surface and bottom currents always flowed in opposite directions, and abrupt flow reversals coincided with large temperature changes during arrival of bores. Crab zoeae and barnacle cyprids were more abundant in the bottom strata, whereas barnacle nauplii showed the opposite pattern. Significant changes in vertical distribution and abundance of target meroplankters occurred across internal tidal fronts, especially for crabs at depth, with surface and bottom organisms responding in opposite fashions. Changes in plankter abundance were significantly correlated with current flows in the strata where they were most abundant. The manner in which plankters were affected (increasing or decreasing abundance) appeared to be modulated by their vertical position within the water column. The significant differences found at the high frequencies of this study, maintained across sampling days, suggest that nearshore meroplankton populations may have greater and more consistent temporal and vertical variability than previously considered.

  18. Updating the geographical distribution and frequency of Aedes albopictus in Brazil with remarks regarding its range in the Americas

    Directory of Open Access Journals (Sweden)

    Roberta Gomes Carvalho/

    2014-09-01

    Full Text Available The geographical distribution of Aedes albopictus in Brazil was updated according to the data recorded across the country over the last eight years. Countrywide house indexes (HI for Ae. albopictus in urban and suburban areas were described for the first time using a sample of Brazilian municipalities. This mosquito is currently present in at least 59% of the Brazilian municipalities and in 24 of the 27 federal units (i.e., 26 states and the Federal District. In 34 Brazilian municipalities, the HI values for Ae. albopictus were higher than those recorded for Ae. aegypti, reaching figures as high as HI = 7.72 in the Southeast Region. Remarks regarding the current range of this mosquito species in the Americas are also presented. Nineteen American countries are currently infested and few mainland American countries have not confirmed the occurrence of Ae. albopictus. The large distribution and high frequency of Ae. albopictus in the Americas may become a critical factor in the spread of arboviruses like chikungunya in the new world.

  19. Fixed bin frequency distribution for the VNTR Loci D2S44, D4S139, D5S110, and D8S358 in a population sample from Minas Gerais, Brazil

    Directory of Open Access Journals (Sweden)

    Parreira Kleber Simônio

    2002-01-01

    Full Text Available Fixed bin frequencies for the VNTR loci D2S44, D4S139, D5S110, and D8S358 were determined in a Minas Gerais population sample. The data were generated by RFLP analysis of HaeIII-digested genomic DNA and chemiluminescent detection. The four VNTR loci have met Hardy-Weinberg equilibrium, and there was no association of alleles among VNTR loci. The frequency data can be used in forensic analyses and paternity tests to estimate the frequency of a DNA profile in the general Brazilian population.

  20. 中国北京汉族人群和日本东京人群ROR2基因单核苷酸多态性比较%Comparison of minor allele frequency and haplotype frequencies for single nucleotide polymorphisms in receptor tyrosine kinase-like orphan receptor 2 gene using HapMap data from Han Chinese in Beijing (CHB) and Japanese in Tokyo (JPT)

    Institute of Scientific and Technical Information of China (English)

    王红; 赵凯平

    2011-01-01

    Objective Single nucleotide polymorphisms(SNPs) in receptor tyrosine kinaselike orphan receptor 2 (ROR2) gene were analyzed and compared between Han Chinese in Beijing(CHB) and Japanese in Tokyo(JPT) using the HapMap data,to provide basis for SNP determination.ROR2 gene related etiologic studies were conducted in the above mentioned two populations.Methods Monotonic and un-monotonic SNPs of ROR2 gene were distinguished by Haploviewprogram.Minor allele frequency (MAF),haplotype blocks and haplotype frequencies were analyzed ineligible SNPs and tag SNPs respectively with genotyping call rate >80%,MAF>1%,H-Wequilibrium (P>0.01) and no gender difference (P>0.05).Tag SNPs were determined under thecriteria of r2≥0.8 or logarithm of the odd score (LOD) ≥3 for pairwise eligible SNPs in CHB and JPT.Common tag SNPs for CHB and JPT were directly reported by Haploview program or being identified from those which were higly related to tag SNPs reported by haploview program under SPSS 13.0 software.Results A total of 404 common SNPs were provided for both CHB and JPT samples by HapMap,where 101 common monotonic SNPs between CHB and JPT had the common minor alleles.The common SNPs between CHB and JPT were 257.In the 257 common eligible SNPs,224 (87.2%) had common minor alleles.Among the 18 and 27 haplotype blocks identified in 257common eligible SNPs between CHB and JPT,except for 2 independent haplotype blocks identified only in JPT.Other haplotype blocks between CHB and JPT were overlapped partly or completely.A number of 50 common tag SNPs between CHB and JPT were determined and the proportions in CHB and JPT were 64.9% and 70.4% respectively.Conclusion Analysis of HapMap data provided an opportunity to avoid monotonic SNPs that had been included in ROR2 gene related etiologic studies.SNPs in ROR2 gene had common features in alleles,MAF,haplotype blocks and haplotype frequencies between CHB and JPT populations,which were consistent with the geographic and

  1. Human leukocyte antigen class II susceptibility conferring alleles among non-insulin dependent diabetes mellitus patients

    International Nuclear Information System (INIS)

    To determine the frequency of Human Leukocyte Antigen (HLA) class II susceptibility conferring alleles among type 2 Diabetes mellitus patients, in comparison with healthy controls. Cross-sectional comparative study. Patients with non-insulin dependent Diabetes mellitus meeting World Health Organization criteria were studied. These were compared with age and gender matched healthy control subjects. For each subject (patients as well as controls), DNA was extracted from ethylene diamine tetra-acetate sample and HLA class II DRB1 typing was carried out at allele group level (DRB1*01-DRB1*16) by sequence specific primers. Human leukocyte antigen DRB1 type was determined by agarose gel electrophoresis and results were recorded. Frequencies were determined as number of an allele divided by total number of alleles per group; p-value was computed using Pearson's chi-square test. Among the 100 patients, there were 63 males and 37 females with 68 controls. A total of 13 different HLA DRB1 alleles were detected, with DRB1*15 being the commonest in both the groups. The allele DRB1*13 had statistically significant higher frequency in patient group as compared to controls (p 0.005). HLA DRB1*13 was found with a significantly increased frequency in non-insulin dependent Diabetes mellitus. (author)

  2. The functional importance of sequence versus expression variability of MHC alleles in parasite resistance.

    Science.gov (United States)

    Axtner, Jan; Sommer, Simone

    2012-12-01

    Understanding selection processes driving the pronounced allelic polymorphism of the major histocompatibility complex (MHC) genes and its functional associations to parasite load have been the focus of many recent wildlife studies. Two main selection scenarios are currently debated which explain the susceptibility or resistance to parasite infections either by the effects of (1) specific MHC alleles which are selected frequency-dependent in space and time or (2) a heterozygote or divergent allele advantage. So far, most studies have focused only on structural variance in co-evolutionary processes although this might not be the only trait subject to natural selection. In the present study, we analysed structural variance stretching from exon1 through exon3 of MHC class II DRB genes as well as genotypic expression variance in relation to the gastrointestinal helminth prevalence and infection intensity in wild yellow-necked mice (Apodemus flavicollis). We found support for the functional importance of specific alleles both on the sequence and expression level. By resampling a previously investigated study population we identified specific MHC alleles affected by temporal shifts in parasite pressure and recorded associated changes in allele frequencies. The allele Apfl-DRB*23 was associated with resistance to infections by the oxyurid nematode Syphacia stroma and at the same time with susceptibility to cestode infection intensity. In line with our expectation, MHC mRNA transcript levels tended to be higher in cestode-infected animals carrying the allele Apfl-DRB*23. However, no support for a heterozygote or divergent allele advantage on the sequence or expression level was detected. The individual amino acid distance of genotypes did not explain individual differences in parasite loads and the genetic distance had no effect on MHC genotype expression. For ongoing studies on the functional importance of expression variance in parasite resistance, allele

  3. End plate marrow changes in the asymptomatic lumbosacral spine: frequency, distribution and correlation with age and degenerative changes

    Energy Technology Data Exchange (ETDEWEB)

    Chung, Christine B. [Department of Radiology, VA Healthcare System, 3350 La Jolla Village Drive, CA 92161, La Jolla (United States); Vande Berg, Bruno C.; Malghem, Jacques [Department of Radiology, Cliniques Universitaires St Luc Universite Catholique de Louvain, 10 av Hippocrate, 1200, Brussels (Belgium); Tavernier, Thierry [Service de Radiologie, Clinique de la Sauvegarde, Av David Ben Gourion, 69009, Lyon (France); Cotten, Anne [Service de Radiologie Osteoarticulaire, Hopital R Salengro, 59037, Lille Cedex (France); Laredo, Jean-Denis [Service de Radiologie Osteo-articulaire, Hopital Lariboisiere, 2 rue Ambroise Pare, 75475, Paris Cedex 10 (France); Vallee, Christian [Service d' imagerie medicale, Hopital Raymond Poincare, 104 Boulevard R.Poincare, 92380, Garches (France)

    2004-07-01

    To investigate the frequency and distribution of end plate marrow signal intensity changes in an asymptomatic population and to correlate these findings with patient age and degenerative findings in the spine. MR imaging studies of the lumbosacral (LS) spine in 59 asymptomatic subjects were retrospectively reviewed by 2 musculoskeletal radiologists to determine the presence and location of fat-like and edema-like marrow signal changes about the end plates of the L1-2 through L5-S1 levels. The presence of degenerative changes in the spine was recorded as was patient age. Descriptive statistics were utilized to determine the frequency and associations of end plate findings and degenerative changes in the spine. Interobserver variability was determined by a kappa score. Binomial probability was used to predict the prevalence of the end plate changes in a similar subject population. The Fisher exact test was performed to determine statistical significance of the relationship of end plate changes with degenerative changes in the spine, superior versus inferior location about the disc and age of the patient population. Focal fat-like signal intensity adjacent to the vertebral end-plate was noted in 15 out of 59 subjects by both readers, and involved 38 and 36 out of 590 end plates by readers 1 and 2, respectively. Focal edema-like signal intensity adjacent to the vertebral end plate was noted in 8 out of 59 subjects by both readers and involved 11 and 10 out of 590 end plates by readers 1 and 2, respectively. Either fat or edema signal intensity occurred most often at the anterior (p<.05) aspects of the mid-lumbar spine and was seen in an older sub-population of the study (p<.05). End plate marrow signal intensity changes are present in the lumbar spine of some asymptomatic subjects with a characteristic location along the spine and in vertebral end plates. (orig.)

  4. End plate marrow changes in the asymptomatic lumbosacral spine: frequency, distribution and correlation with age and degenerative changes

    International Nuclear Information System (INIS)

    To investigate the frequency and distribution of end plate marrow signal intensity changes in an asymptomatic population and to correlate these findings with patient age and degenerative findings in the spine. MR imaging studies of the lumbosacral (LS) spine in 59 asymptomatic subjects were retrospectively reviewed by 2 musculoskeletal radiologists to determine the presence and location of fat-like and edema-like marrow signal changes about the end plates of the L1-2 through L5-S1 levels. The presence of degenerative changes in the spine was recorded as was patient age. Descriptive statistics were utilized to determine the frequency and associations of end plate findings and degenerative changes in the spine. Interobserver variability was determined by a kappa score. Binomial probability was used to predict the prevalence of the end plate changes in a similar subject population. The Fisher exact test was performed to determine statistical significance of the relationship of end plate changes with degenerative changes in the spine, superior versus inferior location about the disc and age of the patient population. Focal fat-like signal intensity adjacent to the vertebral end-plate was noted in 15 out of 59 subjects by both readers, and involved 38 and 36 out of 590 end plates by readers 1 and 2, respectively. Focal edema-like signal intensity adjacent to the vertebral end plate was noted in 8 out of 59 subjects by both readers and involved 11 and 10 out of 590 end plates by readers 1 and 2, respectively. Either fat or edema signal intensity occurred most often at the anterior (p<.05) aspects of the mid-lumbar spine and was seen in an older sub-population of the study (p<.05). End plate marrow signal intensity changes are present in the lumbar spine of some asymptomatic subjects with a characteristic location along the spine and in vertebral end plates. (orig.)

  5. HLA-DRB1 allele polymorphisms in genetic susceptibility to esophageal carcinoma

    Institute of Scientific and Technical Information of China (English)

    Jun Lin; Chang-Sheng Deng; Jie Sun; Xian-Gong Zheng; Xing Huang; Yan Zhou; Ping Xiong; Ya-Ping Wang

    2003-01-01

    AIM: To probe into the genetic susceptibility of HLA-DRB1 alleles to esophageal carcinoma in Han Chinese in Hubei Province.METHODS: HLA-DRB1 allele polymorphisms were typed by polymerase chain reaction with sequence-specific primers (PCR-SSP) in 42 unrelated patients with esophageal cancer and 136 unrelated normal control subjects and the associated HLA-DRB1 allele was measured by nucleotide sequence analysis with PCR.SAS software was used in statistics.RESULTS: Allele frequency (AF) of HLA-DRB1·0901 was significantly higher in esophageal carcinoma patients than that in the normal controls (0.2500 vs0.1397, P=0.028, the odds ratio 2.053, etiologic fraction 0.1282). After analyzed the allele nucleotide sequence of HLA-DRB1·0901 which approachs to the corresponded exon 2 sequence of the allele in genebank. There was no association between patients and controls in the rested HLA-DRB1 alleles.CONCLUSION: HLA-DRB1·0901 allele is more common in the patients with esophageal carcinoma than in the healthy controls, which is positively associated with the patients of Hubei Han Chinese. Individuals carrying HLA-DRB1·0901may be susceptible to esophageal carcinoma.

  6. HLA- DR Alleles in Pakistani Patients of Pemphigus Vulgaris

    International Nuclear Information System (INIS)

    Objective: To determine frequency of HLA-DR alleles in Pakistani patients of pemphigus vulgaris in comparison with local healthy controls. Study Design: Cross-sectional, comparative study. Place and Duration of Study: Department of Immunology, Armed Forces Institute of Pathology (AFIP), Rawalpindi, from January 2011 to January 2014. Methodology: Twenty eight patients with biopsy proven diagnosis of pemphigus vulgaris referred from Department of Dermatology, Military Hospital, Rawalpindi were included. Patients were compared with a group of 150 unrelated local healthy subjects. DNA was extracted from peripheral blood collected in Tri-potassium EDTA. HLA-DRB1 typing was carried out on allele level (DRB1*01 - DRB1*16) using SSP (sequence specific primers). HLA type was determined by agarose gel electrophoresis and results recorded. Phenotype frequency of various alleles among patient group and control group was calculated by direct counting and significance of their association was determined by Fisher's exact test/ Chi square test. Results: A total of 12 male and 16 female patients, with age ranging from 21 to 34 (mean 23.4 years) were genotype for HLA-DRB1 loci. A statistically significant association of the disease with HLA-DRB1*04 was observed (50% versus 20.7% in controls, p < 0.05). Conclusion: There is a strong association of HLA-DRB1*04 with pemphigus vulgaris in Pakistani population. (author)

  7. Estimating the probability of allelic drop-out of STR alleles in forensic genetics

    DEFF Research Database (Denmark)

    Tvedebrink, Torben; Eriksen, Poul Svante; Mogensen, Helle Smidt;

    2009-01-01

    In crime cases with available DNA evidence, the amount of DNA is often sparse due to the setting of the crime. In such cases, allelic drop-out of one or more true alleles in STR typing is possible. We present a statistical model for estimating the per locus and overall probability of allelic drop...

  8. Characterization of CCR5△32、 CCR2b-64I、 CX3CR1-249I280M and SDF1-3'A Allelic Polymorphisms in the Chinese Uygur Population

    Institute of Scientific and Technical Information of China (English)

    LIU Mingxu(刘明旭); WANG Fusheng(王福生); JIN Lei(金磊); HONG Weiguo(洪卫国); LEI Zhouyun(雷周云); ZHANG Bing(张冰); HOU Jing(候静); ZHANG Zhanping(张战平); TANG Chunjun(唐纯军)

    2002-01-01

    Objectives: Allelic polymorphisms of CCR5△32 、CCR2b-64I,CX3CR1-249I280M and SDF1-3'A associatedwith HIV-1 infection and disease progression wereinvestigated in indigenous Uygur populations from theXinjiang Uygur Autonomous Region of China.Methods: The study population comprised 316 healthyUygur subjects with an age range of 1-80 years old, fromwhom whole peripheral blood samples were collected andnone were HIV-1 seropositive. Genomic DNA samples werepurified using a Qiagen Blood Kit. Genotyping of theaforementioned four alleles was performed using PCR orPCR/RFLP assay, and further confirmed by direct DNAsequencing.Results: The allelic frequencies in Chinese Uygurpopulation were as follows: 3.48% for CCR5△32; 19.45% forCCR2b-64I; 13.8% for CX3CR1-249I280M haplotype, and20.41% for SDF1-3'A. Mutant allele distributions amongUygur populations were in accordance with theHardy-Weinberg equilibrium. No statistical difference wasfound between the frequency of the three HIV coreceptors andtheir respective ligand genes.Conclusion: The frequency of SDF1-3'A andCX3CR1-249I280M haplotypes in these Uygur populationswas similar to that of Caucasian people, while the frequency ofthe CCR2b-64I haplotype more closely matched the HanChinese. The frequency of CCR5△32 in Uygur populationswas between Caucasian and Han frequencies, the more closelymatching the frequency in Medi-Asia people. No geneticlinkage between any two of the three HIV coreceptor geneswas found, but obvious genetic linkages existed betweenCX3CR1-249I and CX3CR1-280M,with even higher linkagedegrees than Caucasian people.

  9. Frequency Locking and Monitoring Based on Bi-directional Terahertz Radiation of a 3rd-Order Distributed Feedback Quantum Cascade Laser

    Science.gov (United States)

    van Marrewijk, N.; Mirzaei, B.; Hayton, D.; Gao, J. R.; Kao, T. Y.; Hu, Q.; Reno, J. L.

    2015-12-01

    We have performed frequency locking of a dual, forward reverse emitting third-order distributed feedback quantum cascade laser (QCL) at 3.5 THz. By using both directions of THz emission in combination with two gas cells and two power detectors, we can for the first time perform frequency stabilization, while monitor the frequency locking quality independently. We also characterize how the use of a less sensitive pyroelectric detector can influence the quality of frequency locking, illustrating experimentally that the sensitivity of the detectors is crucial. Using both directions of terahertz (THz) radiation has a particular advantage for the application of a QCL as a local oscillator, where radiation from one side can be used for frequency/phase stabilization, leaving the other side to be fully utilized as a local oscillator to pump a mixer.

  10. Modernized method of estimating the parameters of LFM signals based on the time-frequency distribution correction and the use of the Hough transformation

    OpenAIRE

    Cheng, B. L.; Kubrak, A. N.

    2009-01-01

    The method has been modernized for obtaining the parameter estimation of the fine structure of LFM signals (linear-frequency-modulated signals) at small values of the signal-to-noise ratio. The development of this method was based on the analysis of the signal time-frequency distribution (TFD) and the Hough transform. The specific feature of this method is correction of the time-frequency parameters in the TFD image considered and the use of the principle of detecting the straight line by the...

  11. Investigations into the frequency of examinations and age distribution in nuclear medicine and the resulting collective dose in Switzerland

    International Nuclear Information System (INIS)

    The main objective of this survey of exposures of humans to open sources of radioactivity was the determination of radiation doses to patients in nuclear medicine. The calculation of the organ doses and the related radiation risks received the greatest attention here. Further data of key importance were the frequency of the individual types of examination and the age distribution of the patients. Due to the fact that the radiation risk decreases with increasing age of the individual examined any method of risk assessment based on the total population as a collective will bias the results in terms of an overestimation. For this reason, the risk was expressed here in relation to age so that the share of nuclear medicine in the overall radiation risk for the population is reduced accordingly. In Switzerland, the exposure to intermediate radiation doses from nucleomedical procedures is minor as compared to relevant figures for diagnostic X-ray procedures. This is mainly attributable to the fact that considerably less nucleomedical examinations are carried out than X-ray examinations. The only thing counting for the individual patient is, however, the amount of radiation from the procedures, which he undergoes. It is therefore essential that the radiation doses from any nucleomedical examination are known and taken into account. (orig./MG)

  12. Uncertainty Quantification for a Climatology of the Frequency and Spatial Distribution of North Atlantic Tropical Cyclone Landfalls

    Science.gov (United States)

    Tolwinski-Ward, S. E.; Stransky, S. M.

    2014-12-01

    We develop a Bayesian hierarchical model for the climatological frequency of Atlantic Basin tropical cyclone (TC) landfalls along the coast of North and Central America. The model is explicitly spatial, with a covariance structure that incorporates the effects of coastline geometry, and is resolved at impacts-relevant, 50-mile coastal increments. The model is based on a negative binomial regression on the phase of the Southern Oscillation, North Atlantic Oscillation, and the Atlantic Multidecadal Oscillation, and also accounts explicitly for the time-dependent uncertainty in the historical data used to fit it. The statistically-inferred climatology is interpreted in terms of current scientific understanding of the mechanisms through which related large-scale climatic variability affects the development and motion of Atlantic tropical cyclones. We also probe the spatial posterior probability distribution to quantify and rank the uncertainty in the climatology of TC landfalls that can be attributed to climatic variability, model parameter uncertainty, uncertainty in the historical landfall positions, a possible undercount bias early in the historical record, and sampling variability from the finite length of the observations. Given more detailed, expert information about uncertainty for each specific storm in the historical dataset, the model could be used to develop a definitive TC landfall climatology. It could also be used in conjunction with spatial information about exposures for risk management applications.

  13. Frequency Distribution and Association of some Morpho- and Physiological Traits in Patients with Lung Diseases in Kosova.

    Science.gov (United States)

    Alija, Avdulla J; Bajraktari, Ismet D; Bresgen, Nikolaus; Hadziselimovic, Rifat; Beqiraj, Valentina; Selimi, Mimoza; Salihu, Hyrzeme; Mikullovci, Besime; Eckl, Peter M

    2015-12-01

    The aim of this study was to investigate the distribution of specific phenotypes in patients with lung diseases as well as their eventual association with the risk of developing lung diseases. For this purpose 2777 patients with lung diseases and 2778 healthy individuals from all over Kosova were examined for the appearance of the following selected phenotypes: ear lobe free (ELF)/ear lobe attached, normal chin (NC)/cleft chin, tongue roller (TR)/non roller, hand clasping right thumb over (HC)/hand clasping left thumb over, righthanded (RH)/lefthanded. In addition, the blood group from ABO system and the presence or absence of the Rhesus factor asphenotypical markers were observed. The results obtained show significant differences between control and lung disease patients for NC (p ≤ 0.05) and TR (p ≤ 0.005) as well as for blood groups AB (p ≤ 0.05) and O (p ≤ 0.005). These results point to eventually increased levels of genetic load as a result of the increased homozygosity in some gene loci causing an increased frequency of some recessive phenotypes in patients with lung diseases. Together with the specific associations observed, these preliminary findings could serve as a basis for further in depth investigations with respect to the types of lung diseases, occupational exposure and dietary habits, and thus is expected to contribute to an understanding of predispositions and susceptibility to lung diseases. PMID:26987159

  14. Spatial and Temporal Analysis on the Distribution of Active Radio-Frequency Identification (RFID Tracking Accuracy with the Kriging Method

    Directory of Open Access Journals (Sweden)

    Xin Liu

    2014-10-01

    Full Text Available Radio frequency identification (RFID technology has already been applied in a number of areas to facilitate the tracking process. However, the insufficient tracking accuracy of RFID is one of the problems that impedes its wider application. Previous studies focus on examining the accuracy of discrete points RFID, thereby leaving the tracking accuracy of the areas between the observed points unpredictable. In this study, spatial and temporal analysis is applied to interpolate the continuous distribution of RFID tracking accuracy based on the Kriging method. An implementation trial has been conducted in the loading and docking area in front of a warehouse to validate this approach. The results show that the weak signal area can be easily identified by the approach developed in the study. The optimum distance between two RFID readers and the effect of the sudden removal of readers are also presented by analysing the spatial and temporal variation of RFID tracking accuracy. This study reveals the correlation between the testing time and the stability of RFID tracking accuracy. Experimental results show that the proposed approach can be used to assist the RFID system setup process to increase tracking accuracy.

  15. Multistation template matching to characterize frequency-magnitude distributions of induced seismicity in the Central and Eastern US

    Science.gov (United States)

    Brudzinski, M. R.; Skoumal, R.; Currie, B.

    2015-12-01

    We analyze the frequency-magnitude distribution (FMD) of recent seismic sequences thought to be induced by wastewater injection and hydraulic fracturing in the Central and Eastern U.S. to investigate their physical origin and improve hazard estimates. Multistation template matching is utilized to increase the number of events analyzed by lowering the magnitude of detection. In cases where local deployments are available, we demonstrate that the FMD obtained through template matching using regional data are comparable to those obtained from traditional detection using the local deployment. Since deployments usually occur after seismicity has already been identified, catalogs constructed with regional data offer the advantage of providing a more complete history of the seismicity. We find two primary groups of FMDs for induced sequences: those that generally follow the Gutenberg-Richter power-law and those that generally do not. All of the induced sequences are typically characterized by swarm-like behavior, but the non-power-law FMDs are also characterized by a clustering of events at low magnitudes and particularly low aftershock productivity for a continental interior. Each of the observations in the non-power law FMD cases is predicted by numerical simulations of a seismogenic zone governed by a viscoelastic damage rheology with low effective viscosity in the fault zone. Such a reduction in effective viscosity is expected if fluid injection increases fluid pressures in the fault zone to the point that the fault zone begins to dilate.

  16. Frequency and distribution pattern of distant metastases in patients with ENT tumors and their consequences for pretherapeutic staging

    International Nuclear Information System (INIS)

    Purpose: To address the following questions: which parameters influenced the frequency of distant metastases in patients with locally advanced ear-nose-throat (ENT) tumors, which was the distribution pattern of metastases, and what were the diagnostic consequences for pretherapeutic staging? Patients and Methods: 600 patients (526 men, 76 women, median age 56 years) with ENT tumors (squamous cell carcinoma histology) were studied retrospectively. The distribution of primary tumor site and stage (AJCC) was as follows: oropharynx: n = 161 (26.8%), hypopharynx: n = 187 (31.2%), oral cavity: n = 89 (14.8%), larynx: n = 118 (19.7%), cancer of unknown origin: n = 13 (2.2%), others: n = 32(5.3%), I: n = 24 (4%), II: n = 49 (8.2%), III: n = 89 (14.8%), IV: n = 438 (73%). 270 patients (45%) received radiochemotherapy, 330 (55%) postoperative radiotherapy. The following parameters were analyzed in association with distant metastases: tumor localization, T- and N-category, primary treatment, local tumor control, and second neoplasms. Results: 114/600 patients (19%) developed distant metastases, 29/600 (4.9%) at presentation, 50% within 9.3 months after diagnosis of the primary tumor. Distant metastases were most frequent in stage IV (24.2%), carcinoma of the hypopharynx (25.7%), local recurrence (24.3%), and second neoplasm (31.7%) with the following distribution pattern: pulmonary 61/114 (53.5%), pleural 15/114 (13.1%), osseous 45/114 (39.5%), hepatic 14/114 (12.3%), cerebral 8/114 (7%), cutaneous 14/114 (12.3%). 34/114 patients (29.8%) presented monotopic, 80/114 (70.2%) polytopic metastases. 82/600 (13.6%) patients additionally had second neoplasms, 20 corresponding with synchronous or metachronous bronchial tumors. Conclusion: With locally advanced ENT tumor stage IVa/b, carcinoma of the hypopharynx, local recurrence or second neoplasms, at least a pretherapeutic CT of the thorax should be performed because every seventh patient (88/600) developed metastases or second

  17. Hierarchical structure of genetic distances: Effects of matrix size, spatial distribution and correlation structure among gene frequencies

    Directory of Open Access Journals (Sweden)

    Rodrigues Flávia Melo

    1998-01-01

    Full Text Available Geographic structure of genetic distances among local populations within species, based on allozyme data, has usually been evaluated by estimating genetic distances clustered with hierarchical algorithms, such as the unweighted pair-group method by arithmetic averages (UPGMA. The distortion produced in the clustering process is estimated by the cophenetic correlation coefficient. This hierarchical approach, however, can fail to produce an accurate representation of genetic distances among populations in a low dimensional space, especially when continuous (clinal or reticulate patterns of variation exist. In the present study, we analyzed 50 genetic distance matrices from the literature, for animal taxa ranging from Platyhelminthes to Mammalia, in order to determine in which situations the UPGMA is useful to understand patterns of genetic variation among populations. The cophenetic correlation coefficients, derived from UPGMA based on three types of genetic distance coefficients, were correlated with other parameters of each matrix, including number of populations, loci, alleles, maximum geographic distance among populations, relative magnitude of the first eigenvalue of covariance matrix among alleles and logarithm of body size. Most cophenetic correlations were higher than 0.80, and the highest values appeared for Nei's and Rogers' genetic distances. The relationship between cophenetic correlation coefficients and the other parameters analyzed was defined by an "envelope space", forming triangles in which higher values of cophenetic correlations are found for higher values in the parameters, though low values do not necessarily correspond to high cophenetic correlations. We concluded that UPGMA is useful to describe genetic distances based on large distance matrices (both in terms of elevated number of populations or alleles, when dimensionality of the system is low (matrices with large first eigenvalues or when local populations are separated

  18. Conditional Allele Mouse Planner (CAMP): software to facilitate the planning and design of breeding strategies involving mice with conditional alleles.

    Science.gov (United States)

    Hoffert, Jason D; Pisitkun, Trairak; Miller, R Lance

    2012-06-01

    Transgenic and conditional knockout mouse models play an important role in biomedical research and their use has grown exponentially in the last 5-10 years. Generating conditional knockouts often requires breeding multiple alleles onto the background of a single mouse or group of mice. Breeding these mice depends on parental genotype, litter size, transmission frequency, and the number of breeding rounds. Therefore, a well planned breeding strategy is critical for keeping costs to a minimum. However, designing a viable breeding strategy can be challenging. With so many different variables this would be an ideal task for a computer program. To facilitate this process, we created a Java-based program called Conditional Allele Mouse Planner (CAMP). CAMP is designed to provide an estimate of the number of breeders, amount of time, and costs associated with generating mice of a particular genotype. We provide a description of CAMP, how to use it, and offer it freely as an application. PMID:21870117

  19. Analysis of allele frequencies of HLA-DRB1 * 12 : 01 : 01G and HLA-DRB1 * 14 : 01 : 01G groups%HLA-DRB1*12:01:01G和HLA-DRB1*14:01:01G组内等位基因频率的统计分析

    Institute of Scientific and Technical Information of China (English)

    何俊俊; 章伟; 和艳敏; 王炜; 韩浙东; 陈男英; 朱发明; 吕杭军; 严力行

    2012-01-01

    目的 区分并计算人类白细胞抗原(human leukocyte antigen,HLA) HLA-DRB1* 12:01:01G(HLA-DRB1* 12:01:01/12:06/12:10/12:17)和HLA-DRB1* 14:01:01G(DRB1* 14:01:01/14:54)组内等位基因及其相对频率,并分析其与HLA-DRB3和HLA-DQB1的连锁情况.方法 收集115例HLA-DRB1*12:01:01G组和108例HLA-DRB1*14:01:01G组标本,采用单核苷酸序列分析(polymerase chain reaction-sequence based typing,PCR-SBT)方法检测HLA-DRB1* 12:01:01G组等位基因的第1~3外显子序列和HLA-DRB1* 14:01:01G组的第2、3外显子序列.HLA-DRB3和HLA-DQB1基因分型采用PCR-SBT方法.结果 115例HLA-DRB1* 12:01:01G组标本中,101例(87.8%)为HLA-DRB1* 12:01:01,14例(12.2%)为HLA-DRB1* 12:10,未发现HLA-DRB1* 12:06和HLA-DRB1* 12:17. 108例HLA-DRB1*14:01:01G组标本全部为HLA-DRB1*14:54. HLA-DRB1*12:01:01与HLA-DRB3* 01:01:02和HLA-DQB1* 03:01连锁,HLA-DRB1* 12:10则与HLA-DRB3* 02:02:01和HLA-DQB1* 03:01连锁.HLA-DRB1* 14:54与HLA-DRB3* 02:02:01和HLA-DQB1* 05:02、*05:03连锁.结论 HLA-DRB1* 12:01:01G组中HLA-DRB1* 12:01:01频率最高,而HLA-DRB1* 14:01:01G组则以HLA-DRB1* 14:54频率最高.%Objective To discriminate and analyze the relative frequencies of alleles in HLA-DRB1 * 12:01:01G(HLA-DRB1 * 12:01:01 /12:06/12:10/12:17) and HLA-DRB1 * 14:01:01G (DRB1 * 14:01:01/14:54) groups and assess their associations with HLA-DRB3 and HLA-DQB1 loci.Methods A total of 115 DNA samples previously typed as HLA-DRB1 * 12:01:01G and 108 samples from HLA-DRB1 * 14:01:01G were selected.DNA sequences for exons 1 to 3 of the HLA-DRB1 locus were analyzed for HLA-DRB1 * 12:01:01G,and exons 2 to 3 were analyzed for HLA-DRB1 * 14:01:01G by polymerase chain reaction sequence-based typing (PCR-SBT).Genotyping of HLA-DRB3 and HLA-DQB1 were achieved by PCRSBT.Results Among 115 samples previously typed as HLA-DRB1 * 12:01:01G,101 (87.8%) were confirmed as HLA-DRB1 * 12:01:01 and 14 (12.2%) were HLA-DRB1 * 12:10,but HLA-DRB1 * 12:06 and HLA-DRB1 * 12

  20. Colony size-frequency distributions among different populations of the scleractinan coral Siderastrea stellata in Southwestern Atlantic: implications for life history patterns

    OpenAIRE

    Monica Moraes Lins de Barros; Débora de Oliveira Pires

    2006-01-01

    Colony size-frequency distributions of reef corals may be used to infer growth potential and population responses upon environmental changes. The present paper compares the size structure of colonies of Siderastrea stellata Verrill, 1868,among 11 sites, six of them distributed along a gradient of sediment deposition in Abrolhos, Bahia, Brazil (18º S). Results indicated that the population structure is likely to be influenced by local conditions, rather than large scale factors, such as latitu...

  1. Smart microgrid hierarchical frequency control ancillary service provision based on virtual inertia concept: An integrated demand response and droop controlled distributed generation framework

    International Nuclear Information System (INIS)

    Highlights: • Detailed formulation of the microgrid static and dynamic securities based on droop control and virtual inertia concepts. • Constructing a novel objective function using frequency excursion and rate of change of frequency profiles. • Ensuring the microgrid security subject to the microgrid economic and environmental policies. • Coordinated management of demand response and droop controlled distributed generation resources. • Precise scheduling of day-ahead hierarchical frequency control ancillary services using a scenario based stochastic programming. - Abstract: Low inertia stack, high penetration levels of renewable energy source and great ratio of power deviations in a small power delivery system put microgrid frequency at risk of instability. On the basis of the close coupling between the microgrid frequency and system security requirements, procurement of adequate ancillary services from cost-effective and environmental friendly resources is a great challenge requests an efficient energy management system. Motivated by this need, this paper presents a novel energy management system that is aimed to coordinately manage the demand response and distributed generation resources. The proposed approach is carried out by constructing a hierarchical frequency control structure in which the frequency dependent control functions of the microgrid components are modeled comprehensively. On the basis of the derived modeling, both the static and dynamic frequency securities of an islanded microgrid are provided in primary and secondary control levels. Besides, to cope with the low inertia stack of islanded microgrids, novel virtual inertia concept is devised based on the precise modeling of droop controlled distributed generation resources. The proposed approach is applied to typical test microgrid. Energy and hierarchical reserve resource are scheduled precisely using a scenario-based stochastic programming methodology. Moreover, analyzing the

  2. Time–frequency analysis of nonstationary complex magneto-hydro-dynamics in fusion plasma signals using the Choi–Williams distribution

    Energy Technology Data Exchange (ETDEWEB)

    Xu, L.Q.; Hu, L.Q., E-mail: lqhu@ipp.ac.cn; Chen, K.Y.; Li, E.Z.

    2013-11-15

    Highlights: • Choi–Williams distribution yields excellent time–frequency resolution for discrete signal. • CWD method provides clear time–frequency pictures of EAST and HT-7 fast MHD events. • CWD method has advantages to wavelets transform scalogram and the short-time Fourier transform spectrogram. • We discuss about how to choose the windows and free parameter of CWD method. -- Abstract: The Choi–Williams distribution is applied to the time–frequency analysis of signals describing rapid magneto-hydro-dynamic (MHD) modes and events in tokamak plasmas. A comparison is made with Soft X-ray (SXR) signals as well as Mirnov signal that shows the advantages of the Choi–Williams distribution over both continuous wavelets transform scalogram and the short-time Fourier transform spectrogram. Examples of MHD activities in HT-7 and EAST tokamak are shown, namely the onset of coupling tearing modes, high frequency precursors of sawtooth, and low frequency MHD instabilities in edge localized mode (ELM) free in H mode discharge.

  3. Structure-borne low-frequency noise from multi-span bridges: A prediction method and spatial distribution

    Science.gov (United States)

    Song, X. D.; Wu, D. J.; Li, Q.; Botteldooren, D.

    2016-04-01

    Structure-borne noise from railway bridges at far-field points is an important indicator in environmental noise assessment. However, studies that predict structure-borne noise tend to model only single-span bridges, thus ignoring the sound pressure radiating from adjacent spans. To simulate the noise radiating from multi-span bridges induced by moving vehicles, the vibrations of a multi-span bridge are first obtained from a three-dimensional (3D) vehicle-track-bridge dynamic interaction simulation using the mode superposition method. A procedure based on the 2.5-dimensional (2.5D) boundary element method (BEM) is then presented to promote the efficiency of acoustical computation compared with the 3D BEM. The simulated results obtained from both the single-span and multi-span bridge models are compared with the measured results. The sound predictions calculated from the single-span model are accurate only for a minority of near-field points. In contrast, the sound pressures calculated from the multi-span bridge model match the measured results in both the time and frequency domains for all of the near-field and far-field points. The number of bridge spans required in the noise simulation is then recommended related to the distance between the track center and the field points of interest. The spatial distribution of multi-span structure-borne noise is also studied. The variation in sound pressure levels is insignificant along the length of the bridge, which validates the finding that the sound test section can be selected at an arbitrary plane perpendicular to the multi-span bridge.

  4. Tracing pastoralist migrations to southern Africa with lactase persistence alleles.

    Science.gov (United States)

    Macholdt, Enrico; Lede, Vera; Barbieri, Chiara; Mpoloka, Sununguko W; Chen, Hua; Slatkin, Montgomery; Pakendorf, Brigitte; Stoneking, Mark

    2014-04-14

    Although southern African Khoisan populations are often assumed to have remained largely isolated during prehistory, there is growing evidence for a migration of pastoralists from eastern Africa some 2,000 years ago, prior to the arrival of Bantu-speaking populations in southern Africa. Eastern Africa harbors distinctive lactase persistence (LP) alleles, and therefore LP alleles in southern African populations may be derived from this eastern African pastoralist migration. We sequenced the lactase enhancer region in 457 individuals from 18 Khoisan and seven Bantu-speaking groups from Botswana, Namibia, and Zambia and additionally genotyped four short tandem repeat (STR) loci that flank the lactase enhancer region. We found nine single-nucleotide polymorphisms, of which the most frequent is -14010(∗)C, which was previously found to be associated with LP in Kenya and Tanzania and to exhibit a strong signal of positive selection. This allele occurs in significantly higher frequency in pastoralist groups and in Khoe-speaking groups in our study, supporting the hypothesis of a migration of eastern African pastoralists that was primarily associated with Khoe speakers. Moreover, we find a signal of ongoing positive selection in all three pastoralist groups in our study, as well as (surprisingly) in two foraging groups. PMID:24704073

  5. Population genetic analysis of bi-allelic structural variants from low-coverage sequence data with an expectation-maximization algorithm

    Science.gov (United States)

    2014-01-01

    Background Population genetics and association studies usually rely on a set of known variable sites that are then genotyped in subsequent samples, because it is easier to genotype than to discover the variation. This is also true for structural variation detected from sequence data. However, the genotypes at known variable sites can only be inferred with uncertainty from low coverage data. Thus, statistical approaches that infer genotype likelihoods, test hypotheses, and estimate population parameters without requiring accurate genotypes are becoming popular. Unfortunately, the current implementations of these methods are intended to analyse only single nucleotide and short indel variation, and they usually assume that the two alleles in a heterozygous individual are sampled with equal probability. This is generally false for structural variants detected with paired ends or split reads. Therefore, the population genetics of structural variants cannot be studied, unless a painstaking and potentially biased genotyping is performed first. Results We present svgem, an expectation-maximization implementation to estimate allele and genotype frequencies, calculate genotype posterior probabilities, and test for Hardy-Weinberg equilibrium and for population differences, from the numbers of times the alleles are observed in each individual. Although applicable to single nucleotide variation, it aims at bi-allelic structural variation of any type, observed by either split reads or paired ends, with arbitrarily high allele sampling bias. We test svgem with simulated and real data from the 1000 Genomes Project. Conclusions svgem makes it possible to use low-coverage sequencing data to study the population distribution of structural variants without having to know their genotypes. Furthermore, this advance allows the combined analysis of structural and nucleotide variation within the same genotype-free statistical framework, thus preventing biases introduced by genotype

  6. Studies on recombination between allele in the ml-o locus of barley and on pleiotropic effects of the alleles

    International Nuclear Information System (INIS)

    Five independently arisen genes, which are functionally allelic in the m1-o locus and conditioning resistance to the powdery mildew fungus, were tested for structural allelism by recombination. Two heteroallelic crosses produced susceptible recombinants in F2 with a frequency of 8.6 and 2.0 x 10-4, respectively, showing that m1-o 1 is structurally non-allelic to m1-o 5 and to m1-o 9. Homozygous resistant populations derived from crossing different m1-o resistant barleys with susceptible varieties were exposed to two successive cycles of selection against necrotic leaf spotting. Field experiments with selected F5 lines and their parents showed that the m1-o resistant parents differed in severity of spotting, and that the spotting can be reduced or eliminated by crossing and subsequent selection. It appears that a reduction in the necrotic leaf spotting is accopanied by an increase in grain yield. Two new experiments designed to further elucidate the interallelic recombination in m1-o and the pleiotropic effects are briefly described. (author)

  7. Ion energy distributions in a pulsed dual frequency inductively coupled discharge of Ar/CF{sub 4} and effect of duty ratio

    Energy Technology Data Exchange (ETDEWEB)

    Mishra, Anurag; Seo, Jin Seok; Kim, Tae Hyung [Department of Advanced Materials Science and Engineering, Sungkyunkwan University, Suwon, Gyeonggi-do 440-746 (Korea, Republic of); Yeom, Geun Young, E-mail: gyyeom@skku.edu [Department of Advanced Materials Science and Engineering, Sungkyunkwan University, Suwon, Gyeonggi-do 440-746 (Korea, Republic of); SKKU Advanced Institute of Nanotechnology(SAINT), Sungkyunkwan University, Suwon, Gyeonggi-do 440-746 (Korea, Republic of)

    2015-08-15

    Controlling time averaged ion energy distribution (IED) is becoming increasingly important in many plasma material processing applications for plasma etching and deposition. The present study reports the evolution of ion energy distributions with radio frequency (RF) powers in a pulsed dual frequency inductively discharge and also investigates the effect of duty ratio. The discharge has been sustained using two radio frequency, low (P{sub 2 MHz} = 2 MHz) and high (P{sub 13.56 MHz} = 13.56 MHz) at a pressure of 10 mTorr in argon (90%) and CF{sub 4} (10%) environment. The low frequency RF powers have been varied from 100 to 600 W, whereas the high frequency powers from 200 to 1200 W. Typically, IEDs show bimodal structure and energy width (energy separation between the high and low energy peaks) increases with increasing P{sub 13.56 MHz}; however, it shows opposite trends with P{sub 2 MHz}. It has been observed that IEDs bimodal structure tends to mono-modal structure and energy peaks shift towards low energy side as duty ratio increases, keeping pulse power owing to mode transition (capacitive to inductive) constant.

  8. Ion energy distributions in a pulsed dual frequency inductively coupled discharge of Ar/CF4 and effect of duty ratio

    International Nuclear Information System (INIS)

    Controlling time averaged ion energy distribution (IED) is becoming increasingly important in many plasma material processing applications for plasma etching and deposition. The present study reports the evolution of ion energy distributions with radio frequency (RF) powers in a pulsed dual frequency inductively discharge and also investigates the effect of duty ratio. The discharge has been sustained using two radio frequency, low (P2 MHz = 2 MHz) and high (P13.56 MHz = 13.56 MHz) at a pressure of 10 mTorr in argon (90%) and CF4 (10%) environment. The low frequency RF powers have been varied from 100 to 600 W, whereas the high frequency powers from 200 to 1200 W. Typically, IEDs show bimodal structure and energy width (energy separation between the high and low energy peaks) increases with increasing P13.56 MHz; however, it shows opposite trends with P2 MHz. It has been observed that IEDs bimodal structure tends to mono-modal structure and energy peaks shift towards low energy side as duty ratio increases, keeping pulse power owing to mode transition (capacitive to inductive) constant

  9. Allelic Diversity at the Merozoite Surface Protein-1 (MSP-1 Locus in Natural Plasmodium falciparum Populations: a Brief Overview

    Directory of Open Access Journals (Sweden)

    Marcelo U Ferreira

    1998-09-01

    Full Text Available The merozoite surface protein-1 (MSP-1 locus of Plasmodium falciparum codes for a major asexual blood-stage antigen currently proposed as a major malaria vaccine candidate. The protein, however, shows extensive polymorphism, which may compromise its use in sub-unit vaccines. Here we compare the patterns of allelic diversity at the MSP-1 locus in wild isolates from three epidemiologically distinct malaria-endemic areas: the hypoendemic southwestern Brazilian Amazon (n = 54, the mesoendemic southern Vietnam (n = 238 and the holoendemic northern Tanzania (n = 79. Fragments of the variable blocks 2, 4a, 4b and 6 or 10 of this single-copy gene were amplified by the polymerase chain reaction, and 24 MSP-1 gene types were defined as unique combinations of allelic types in each variable block. Ten different MSP-1 types were identified in Brazil, 23 in Vietnam and 13 in Tanzania. The proportion of genetically mixed infections (isolates with parasites carrying more than one MSP-1 version ranged from 39% in Brazil to 44% in Vietnam and 60% in Tanzania. The vast majority (90% of the typed parasite populations from Brazil and Tanzania belonged to the same seven most frequent MSP-1 gene types. In contrast, these seven gene types corresponded to only 61% of the typed parasite populations from Vietnam. Non-random associations were found between allelic types in blocks 4a and 6 among Vietnamese isolates, the same pattern being observed in independent studies performed in 1994, 1995 and 1996. These results suggest that MSP-1 is under selective pressure in the local parasite population. Nevertheless, the finding that similar MSP-1 type frequencies were found in 1994 and 1996 argues against the prominence of short-term frequency-dependent immune selection of MSP-1 polymorphisms. Non-random associations between MSP-1 allelic types, however, were not detected among isolates from Brazil and Tanzania. A preliminary analysis of the distribution of MSP-1 gene types per

  10. Distribution, Frequency and Variation of Stripe Rust Resistance Loci Yr10, Lr34/Yr18 and Yr36 in Chinese Wheat Cultivars

    Institute of Scientific and Technical Information of China (English)

    Cuiling Yuan; Hui Jiang; Honggang Wang; Kun Li; Heng Tang; Xianbin Li; Daolin Fu

    2012-01-01

    Wheat stripe rust is a devastating disease in many regions of the world.In wheat,49 resistance genes for stripe rust have been officially documented,but only three genes are cloned,including the race-specific resistance Yr10 candidate gene (Yr10CG) and slow-rusting genes Lr34/Yr18 (hereafter designated as Yr18) and Yr36.In this study,we developed gene-specific markers for these genes and used them to screen a collection of 659 wheat accessions,including 485 Chinese cultivars.Thirteen percent and eleven percent of the tested Chinese cultivars were positive for the markers for Yr10CG and Yr18RH (the resistant haplotype of Yr18),respectively,but none were positive for the Yr36 marker.Since there is a limited use of the Yr10 gene in Chinese wheat,the relatively high frequency of wheat varieties with the Yr10CG marker suggests that the identity of the Yr10 gene is unknown.With regards to the Yr18 gene,29% of the tested cultivars that are used in the Middle and Lower Yangtze Valleys' winter wheat zone were positive for Yr18RH markers.A non-functional allele of Yr18RHwas identified in ‘Mingxian 169',a commonly used susceptible check for studying stripe rust.The data presented here will provide useful information for marker-assisted selection for wheat stripe rust resistance.

  11. Application of Linear Quadratic Gaussian and Coefficient Diagram Techniques to Distributed Load Frequency Control of Power Systems

    OpenAIRE

    Tarek Hassan Mohamed; Ahmed A. Zaki Diab; Mahmoud M. Hussein

    2015-01-01

    This paper presented both the linear quadratic Gaussian technique (LQG) and the coefficient diagram method (CDM) as load frequency controllers in a multi-area power system to deal with the problem of variations in system parameters and load demand change. The full states of the system including the area frequency deviation have been estimated using the Kalman filter technique. The efficiency of the proposed control method has been checked using a digital simulation. Simulation results indicat...

  12. Energy storage systems impact on the short-term frequency stability of distributed autonomous microgrids, an analysis using aggregate models

    DEFF Research Database (Denmark)

    Serban, Ioan; Teodorescu, Remus; Marinescu, Corneliu

    2013-01-01

    This study analyses the integration impact of battery energy storage systems (BESSs) on the short-term frequency control in autonomous microgrids (MGs). Short-term frequency stability relates with the primary or speed control level, as defined in the regulations of the classical grids. The focus ...... bench including a real-time digital simulator with BESS controller in a hardware-in-the-loop structure is used for assessing the system performances....

  13. Beneficial role of D allele in controlling ACE levels: a study among Brahmins of north India.

    Science.gov (United States)

    Kumari, Shobha; Sharma, Nidhi; Thakur, Sunil; Mondal, Prakash R; Saraswathy, Kallur N

    2016-06-01

    India being a country with vast diversity is expected to have different dietary and life style patterns which in turn may lead to population-specific environmental risk factors. Further, the interaction of these risk factors with the genetic makeup of population makes it either susceptible or resistant to cardiovascular disease. One such candidate gene is angiotensin converting enzyme (ACE) for various cardiovascular mechanisms. ACE is the key enzyme of the renin angiotensin aldosterone system pathway which maintains homeostasis blood pressure in the body and any variation in the levels is reported to be associated with various complex diseases. The DD genotype is found to increase ACE levels, which is associated with cardiovascular diseases and decrease in ACE levels are associated with kidney diseases. The aim of this study was to understand the distribution of ACE I/D polymorphism and ACE levels among Brahmins of National Capital Region (NCR) north India, with respect to age and sex ratio distribution. In this study, 136 subjects of which 50 males and 86 females, who were unrelated up to first cousin, aged 25 to70 years were studied. ACE gene was found to be polymorphic with high frequency of heterozygote (ID) followed by II and DD genotypes. The studied population was found to be in Hardy-Weinberg equilibrium with respect to ACE I/D polymorphism (P = 0.55). I allele frequency was found to be higher (0.560) than the D allele (0.44). The median level of ACE was found to be 65.96 ng/mL (48.12-86.24) which is towards lower side of the normal range. ACE levels were found to be increased among individual having either of the homozygotes that is II or DD and higher frequency of heterozygote (ID) is indicative of advantage in the population by maintaining lower ACE levels. The limitation of the present study is low sample size, however, the merit is that the subjects belonged to a Mendalian population with a common gene pool. PMID:27350671

  14. Beneficial role of D allele in controlling ACE levels: a study among Brahmins of north India

    Indian Academy of Sciences (India)

    SHOBHA KUMARI; NIDHI SHARMA; SUNIL THAKUR; PRAKASH R. MONDAL; KKALLUR N. SARASWATHY

    2016-06-01

    India being a country with vast diversity is expected to have different dietary and life style patterns which in turn may lead topopulation-specific environmental risk factors. Further, the interaction of these risk factors with the genetic makeup of pop-ulation makes it either susceptible or resistant to cardiovascular disease. One such candidate gene is angiotensin convertingenzyme (ACE) for various cardiovascular mechanisms. ACE is the key enzyme of the renin angiotensin aldosterone systempathway which maintains homeostasis blood pressure in the body and any variation in the levels is reported to be associatedwith various complex diseases. The DD genotype is found to increase ACE levels, which is associated with cardiovasculardiseases and decrease in ACE levels are associated with kidney diseases. The aim of this study was to understand the distribu-tion of ACE I/D polymorphism and ACE levels among Brahmins of National Capital Region (NCR) north India, with respectto age and sex ratio distribution. In this study, 136 subjects of which 50 males and 86 females, who were unrelated up to firstcousin, aged 25 to70 years were studied.ACEgene was found to be polymorphic with high frequency of heterozygote (ID)followed by II and DD genotypes. The studied population was found to be in Hardy–Weinberg equilibrium with respect toACE I/D polymorphism (P =0.55). I allele frequency was found to be higher (0.560) than the D allele (0.44). The medianlevel of ACE was found to be 65.96 ng/mL (48.12–86.24) which is towards lower side of the normal range. ACE levels werefound to be increased among individual having either of the homozygotes that is II or DD and higher frequency of heterozy-gote (ID) is indicative of advantage in the population by maintaining lower ACE levels. The limitation of the present study islow sample size, however, the merit is that the subjects belonged to a Mendalian population with a common gene pool

  15. Measurement of electron temperatures and electron energy distribution functions in dual frequency capacitively coupled CF4/O2 plasmas using trace rare gases optical emission spectroscopy

    International Nuclear Information System (INIS)

    Measurements of electron temperatures (Te) and electron energy distribution functions (EEDFs) in a dual frequency capacitively coupled etcher were performed by using trace rare gas optical emission spectroscopy (TRG-OES). The parallel plate etcher was powered by a high frequency (60 MHz) ''source'' top electrode and a low frequency (13.56 MHz) ''substrate'' bottom electrode. Te first increased with pressure up to ∼20 mTorr and then decreased at higher pressures. Increasing the bottom rf power resulted in higher electron temperatures. Electron temperatures in 90% CF4+10% O2 plasmas were similar to those in 80% CF4+20% O2 plasmas. EEDF exhibited bi-Maxwellian characteristics with enhanced high energy tail, especially at pressures >20 mTorr.

  16. Frequency distribution of blood groups in diabetic patients and non diabetic patients in Shiraz Nader Kazemi clinic and the relationship between blood groups and diabetes (2010-2011)

    OpenAIRE

    Seyyed Mansour Kashfi; Ali Khani jeihooni; Raha Afshariani; Hamid Reza Tabatabaei; Mryam Yazdankhah

    2013-01-01

    Background & Objective: Genetic background and blood groups are important factors in creating diabetes disease. The aim of the present study was to review the frequency distribution of blood groups in diabetic and non-diabetic patients and the relationship between blood groups and diabetes.   Materials & Methods: This cross-sectional study included 379 diabetic patients (325 cases with type II diabetes and 54 cases with type I diabetes) who had clinic files as the case group and 702 cases ran...

  17. Geographic distribution of haplotype diversity at the bovine casein locus

    OpenAIRE

    Jann, Oliver; Ibeagha-Awemu, Eveline; Özbeyaz, Ceyhan; Zaragoza, Pilar; Williams, John; Ajmone-Marsan, Paolo; Lenstra, Johannes; Moazami-Goudarzi, Katy; Erhardt, Georg

    2004-01-01

    The genetic diversity of the casein locus in cattle was studied on the basis of haplotype analysis. Consideration of recently described genetic variants of the casein genes which to date have not been the subject of diversity studies, allowed the identification of new haplotypes. Genotyping of 30 cattle breeds from four continents revealed a geographically associated distribution of haplotypes, mainly defined by frequencies of alleles at CSN1S1 and CSN3. The genetic diversity within taurine b...

  18. Secure distributed genome analysis for GWAS and sequence comparison computation

    OpenAIRE

    Zhang, Yihua; Blanton, Marina; Almashaqbeh, Ghada

    2015-01-01

    Background The rapid increase in the availability and volume of genomic data makes significant advances in biomedical research possible, but sharing of genomic data poses challenges due to the highly sensitive nature of such data. To address the challenges, a competition for secure distributed processing of genomic data was organized by the iDASH research center. Methods In this work we propose techniques for securing computation with real-life genomic data for minor allele frequency and chi-...

  19. Geographic distribution of haplotype diversity at the bovine casein locus.

    OpenAIRE

    Moazami-Goudarzi Katy; Lenstra Johannes A; Ajmone-Marsan Paolo; Williams John L; Zaragoza Pilar; Özbeyaz Ceyhan; Ibeagha-Awemu Eveline M; Jann Oliver C; Erhardt Georg

    2004-01-01

    Abstract The genetic diversity of the casein locus in cattle was studied on the basis of haplotype analysis. Consideration of recently described genetic variants of the casein genes which to date have not been the subject of diversity studies, allowed the identification of new haplotypes. Genotyping of 30 cattle breeds from four continents revealed a geographically associated distribution of haplotypes, mainly defined by frequencies of alleles at CSN1S1 and CSN3. The genetic diversity within ...

  20. Controlled Acoustic Bass System (CABS) A Method to Achieve Uniform Sound Field Distribution at Low Frequencies in Rectangular Rooms

    DEFF Research Database (Denmark)

    Celestinos, Adrian; Nielsen, Sofus Birkedal

    2008-01-01

    The sound field produced by loudspeakers at low frequencies in small- and medium-size rectangular listening rooms is highly nonuniform due to the multiple reflections and diffractions of sound on the walls and different objects in the room. A new method, called controlled acoustic bass system (CABS...

  1. HIGH-FREQUENCY RADIO SPECTRAL ENERGY DISTRIBUTIONS AND POLARIZATION FRACTIONS OF SOURCES IN AN ATACAMA COSMOLOGY TELESCOPE SURVEY FIELD

    International Nuclear Information System (INIS)

    We present flux densities and polarization percentages of 159 radio galaxies based on nearly simultaneous Very Large Array observations at four frequencies, 4.86, 8.46, 22.46, and 43.34 GHz. This sample is selected from the high-frequency Australia Telescope 20 GHz (AT20G) survey and consists of all sources with flux density S20GHz > 40 mJy in an equatorial field of the Atacama Cosmology Telescope (ACT) survey. For a subset of 25 of these sources, we used the Green Bank Telescope (GBT) to obtain 90 GHz data. The goals of this program are: (1) a characterization of the spectra, polarization, and variability of high-frequency-selected radio sources, (2) extrapolating from the few GHz regime to the ∼150 GHz regime of the ACT survey, allowing for more accurate removal of the radio source signal in our particular field, and (3) providing a data set that will allow more accurate modeling of the high-frequency radio source contamination in current and future Sunyaev-Zeldovich and cosmic microwave background experiments. We find that, as expected, this sample consists of flatter spectrum and more compact or point-like sources than low-frequency-selected samples. In the K band, variability is typically ∼<20%, although there are exceptions. The higher frequency data are well suited to the detection of extreme gigahertz peak spectrum sources. The inclusion of the 43 GHz data causes the relative fraction of inverted spectrum sources to go down and of peaked spectrum sources to go up when compared with the AT20G survey results. The trend largely continues with the inclusion of the 90 GHz data, although ∼10% of the sources with GBT data show a spectral upturn from 43 GHz to 90 GHz. The measured polarization fractions are typically <5%, although in some cases they are measured to be up to ∼20%. For sources with detected polarized flux in all four bands, about 40% of the sample, the polarization fractions typically increase with frequency. This trend is stronger for

  2. CYP2C9 polymorphism in patients with epilepsy: genotypic frequency analyzes andphenytoin adverse reactions correlation

    Directory of Open Access Journals (Sweden)

    Carlos Alexandre Twardowschy

    2011-04-01

    Full Text Available OBJECTIVE: CYP2C9 is a major enzyme in human drug metabolism and the polymorphism observed in the corresponding gene may affect therapeutic outcome during treatment. The distribution of variant CYP2C9 alleles and prevalence of phenytoin adverse reactions were hereby investigated in a population of patients diagnosed with epilepsy. METHOD: Allele-specific PCR analysis was carried out in order to determine frequencies of the two most common variant alleles, CYP2C9*2 and CYP2C9*3 in genomic DNA isolated from 100 epileptic patients. We also analyzed the frequency of phenytoin adverse reactions among those different genotypes groups. The data was presented as mean±standard deviation. RESULTS: The mean age at enrollment was 39.6±10.3 years (range, 17-72 years and duration of epilepsy was 26.5±11.9 years (range 3-48 years. The mean age at epilepsy onset was 13.1±12.4 years (range, 1 month-62 years. Frequencies of CYP2C9*1 (84%, CYP2C9*2 (9% and CYP2C9*3 (7% were similar to other published reports. Phenytoin adverse reactions were usually mild and occurred in 15% patients, without correlation with the CYP2C9 polymorphism (p=0.34. CONCLUSION: Our findings indicate an overall similar distribution of the CYP2C9 alleles in a population of patients diagnosed with epilepsy in the South of Brazil, compared to other samples. This sample of phenytoin users showed no drug related adverse reactions and CYP2C9 allele type correlation. The role of CYP2C9 polymorphism influence on phenytoin adverse reaction remains to be determined since some literature evidence and our data found negative results.

  3. Expression and loss of alleles in cultured mouse embryonic fibroblasts and stem cells carrying allelic fluorescent protein genes

    Directory of Open Access Journals (Sweden)

    Stringer Saundra L

    2006-10-01

    Full Text Available Abstract Background Loss of heterozygosity (LOH contributes to many cancers, but the rate at which these events occur in normal cells of the body is not clear. LOH would be detectable in diverse cell types in the body if this event were to confer an obvious cellular phenotype. Mice that carry two different fluorescent protein genes as alleles of a locus would seem to be a useful tool for addressing this issue because LOH would change a cell's phenotype from dichromatic to monochromatic. In addition, LOH caused by mitotic crossing over might be discernable in tissues because this event produces a pair of neighboring monochromatic cells that are different colors. Results As a step in assessing the utility of this approach, we derived primary embryonic fibroblast populations and embryonic stem cell lines from mice that carried two different fluorescent protein genes as alleles at the chromosome 6 locus, ROSA26. Fluorescence activated cell sorting (FACS showed that the vast majority of cells in each line expressed the two marker proteins at similar levels, and that populations exhibited expression noise similar to that seen in bacteria and yeast. Cells with a monochromatic phenotype were present at frequencies on the order of 10-4 and appeared to be produced at a rate of approximately 10-5 variant cells per mitosis. 45 of 45 stably monochromatic ES cell clones exhibited loss of the expected allele at the ROSA26 locus. More than half of these clones retained heterozygosity at a locus between ROSA26 and the centromere. Other clones exhibited LOH near the centromere, but were disomic for chromosome 6. Conclusion Allelic fluorescent markers allowed LOH at the ROSA26 locus to be detected by FACS. LOH at this locus was usually not accompanied by LOH near the centromere, suggesting that mitotic recombination was the major cause of ROSA26 LOH. Dichromatic mouse embryonic cells provide a novel system for studying genetic/karyotypic stability and factors

  4. Allelic differences within and among sister spores of the arbuscular mycorrhizal fungus Glomus etunicatum suggest segregation at sporulation.

    Directory of Open Access Journals (Sweden)

    Eva Boon

    Full Text Available Arbuscular mycorrhizal fungi (AMF are root-inhabiting fungi that form mutualistic symbioses with their host plants. AMF are made up of coenocytic networks of hyphae through which nuclei and organelles can freely migrate. In this study, we investigated the possibility of a genetic bottleneck and segregation of allelic variation at sporulation for a low-copy Polymerase1-like gene, PLS. Specifically, our objectives were (1 to estimate what allelic diversity is passed on to a single spore (2 to determine whether this diversity is less than the total amount of variation found in all spores (3 to investigate whether there is any differential segregation of allelic variation. We inoculated three tomato plants with a single spore of Glomus etunicatum each and after six months sampled between two and three daughter spores per tomato plant. Pyrosequencing PLS amplicons in eight spores revealed high levels of allelic diversity; between 43 and 152 alleles per spore. We corroborated the spore pyrosequencing results with Sanger- and pyrosequenced allele distributions from the original parent isolate. Both sequencing methods retrieved the most abundant alleles from the offspring spore allele distributions. Our results indicate that individual spores contain only a subset of the total allelic variation from the pooled spores and parent isolate. Patterns of allele diversity between spores suggest the possibility for segregation of PLS alleles among spores. We conclude that a genetic bottleneck could potentially occur during sporulation in AMF, with resulting differences in genetic variation among sister spores. We suggest that the effects of this bottleneck may be countered by anastomosis (hyphal fusion between related hyphae.

  5. Semi-parametric Allelic Tests For Mapping Multiple Phenotypes: Binomial Regression And Mahalanobis Distance

    Science.gov (United States)

    Majumdar, Arunabha; Witte, John S.; Ghosh, Saurabh

    2016-01-01

    Binary phenotypes commonly arise due to multiple underlying quantitative precursors. Genetic variants may impact multiple traits in a pleiotropic manner. Hence, simultaneously analyzing such correlated traits may be more powerful than analyzing individual traits. Various genotype-level methods, e.g. MultiPhen [O'Reilly et al., 2012], have been developed to identify genetic factors underlying a multivariate phenotype. For univariate phenotypes, the usefulness and applicability of allele-level tests have been investigated. The test of allele frequency difference among cases and controls is commonly used for mapping case-control association. However, allelic methods for multivariate association mapping have not been studied much. We explore two allelic tests of multivariate association: one using a Binomial regression model based on inverted regression of genotype on phenotype (BAMP), and the other employing the Mahalanobis distance between two sample means of the multivariate phenotype vector for two alleles at a SNP (DAMP). These methods can incorporate both discrete and continuous phenotypes. Some theoretical properties for BAMP are studied. Using simulations, the power of the methods for detecting multivariate association are compared with the genotype-level test MultiPhen. The allelic tests yield marginally higher power than MultiPhen for multivariate phenotypes. For one/two binary traits under recessive mode of inheritance, allelic tests are found substantially more powerful. All three tests are applied to two real data and the results offer some support for the simulation study. Since the allelic approaches assume Hardy-Weinberg Equilibrium (HWE), we propose a hybrid approach for testing multivariate association that implements MultiPhen when HWE is violated and BAMP otherwise. PMID:26493781

  6. Semiparametric Allelic Tests for Mapping Multiple Phenotypes: Binomial Regression and Mahalanobis Distance.

    Science.gov (United States)

    Majumdar, Arunabha; Witte, John S; Ghosh, Saurabh

    2015-12-01

    Binary phenotypes commonly arise due to multiple underlying quantitative precursors and genetic variants may impact multiple traits in a pleiotropic manner. Hence, simultaneously analyzing such correlated traits may be more powerful than analyzing individual traits. Various genotype-level methods, e.g., MultiPhen (O'Reilly et al. []), have been developed to identify genetic factors underlying a multivariate phenotype. For univariate phenotypes, the usefulness and applicability of allele-level tests have been investigated. The test of allele frequency difference among cases and controls is commonly used for mapping case-control association. However, allelic methods for multivariate association mapping have not been studied much. In this article, we explore two allelic tests of multivariate association: one using a Binomial regression model based on inverted regression of genotype on phenotype (Binomial regression-based Association of Multivariate Phenotypes [BAMP]), and the other employing the Mahalanobis distance between two sample means of the multivariate phenotype vector for two alleles at a single-nucleotide polymorphism (Distance-based Association of Multivariate Phenotypes [DAMP]). These methods can incorporate both discrete and continuous phenotypes. Some theoretical properties for BAMP are studied. Using simulations, the power of the methods for detecting multivariate association is compared with the genotype-level test MultiPhen's. The allelic tests yield marginally higher power than MultiPhen for multivariate phenotypes. For one/two binary traits under recessive mode of inheritance, allelic tests are found to be substantially more powerful. All three tests are applied to two different real data and the results offer some support for the simulation study. We propose a hybrid approach for testing multivariate association that implements MultiPhen when Hardy-Weinberg Equilibrium (HWE) is violated and BAMP otherwise, because the allelic approaches assume HWE

  7. Allelic associations of two polymorphic microsatellites in intron 40 of the human von Willebrand factor gene

    Energy Technology Data Exchange (ETDEWEB)

    Pena, S.D.J.; De Souza, K.T. (Nucleo de Genetica Medica de Minas Gerais, Belo Horizonte (Brazil)); De Andrade, M.; Chakraborty, R. (Univ. of Texas Graduate School of Biomedical Sciences, Houston, TX (United States))

    1994-01-18

    At intron 40 of the von Willebrand factor (vWF) gene, two GATA-repeat polymorphic sites exist that are physically separated by 212 bp. At the first site (vWF1 locus), seven segregating repeat alleles were observed in a Brazilian Caucasian population, and at the second (vWF2 locus) there were eight alleles, detected through PCR amplifications of this DNA region. Haplotype analysis of individuals revealed 36 different haplotypes in a sample of 338 chromosomes examined. Allele frequencies between generations and gender at each locus were not significantly different, and the genotype frequencies were consistent with their Hardy-Weinberg expectations. Linkage disequilibrium between loci is highly significant with positive allele size association; that is, large alleles at the loci tend to occur together, and so do the same alleles. Variability at each locus appeared to have arisen in a stepwise fashion, suggesting replication slippage as a possible mechanism of production of new alleles. However, the authors observed an increased number of haplotypes, in contrast with the predictions of a stepwise production of variation in the entire region, suggesting some form of cooperative changes between loci that could be due to either gene conversion, or a common control mechanism of production of new variation at these repeat polymorphism sites. The high degree of polymorphism (gene diversity values of 72% and 78% at vWF1 and vWF2, respectively, and of 93% at the haplotype level) makes these markers informative for paternity testing, genetic counseling, and individual-identification purposes.

  8. Rapid detection of the CYP2A6*12 hybrid allele by Pyrosequencing® technology

    Directory of Open Access Journals (Sweden)

    Gallagher Margaret L

    2009-08-01

    Full Text Available Abstract Background Identification of CYP2A6 alleles associated with reduced enzyme activity is important in the study of inter-individual differences in drug metabolism. CYP2A6*12 is a hybrid allele that results from unequal crossover between CYP2A6 and CYP2A7 genes. The 5' regulatory region and exons 1–2 are derived from CYP2A7, and exons 3–9 are derived from CYP2A6. Conventional methods for detection of CYP2A6*12 consist of two-step PCR protocols that are laborious and unsuitable for high-throughput genotyping. We developed a rapid and accurate method to detect the CYP2A6*12 allele by Pyrosequencing technology. Methods A single set of PCR primers was designed to specifically amplify both the CYP2A6*1 wild-type allele and the CYP2A6*12 hybrid allele. An internal Pyrosequencing primer was used to generate allele-specific sequence information, which detected homozygous wild-type, heterozygous hybrid, and homozygous hybrid alleles. We first validated the assay on 104 DNA samples that were also genotyped by conventional two-step PCR and by cycle sequencing. CYP2A6*12 allele frequencies were then determined using the Pyrosequencing assay on 181 multi-ethnic DNA samples from subjects of African American, European Caucasian, Pacific Rim, and Hispanic descent. Finally, we streamlined the Pyrosequencing assay by integrating liquid handling robotics into the workflow. Results Pyrosequencing results demonstrated 100% concordance with conventional two-step PCR and cycle sequencing methods. Allele frequency data showed slightly higher prevalence of the CYP2A6*12 allele in European Caucasians and Hispanics. Conclusion This Pyrosequencing assay proved to be a simple, rapid, and accurate alternative to conventional methods, which can be easily adapted to the needs of higher-throughput studies.

  9. Lower frequency of the low activity adenosine deaminase allelic variant (ADA1*2 in schizophrenic patients Diminuição da frequência da variante alélica de baixa atividade da adenosina desaminase (ADA1*2 em pacientes esquizofrênicos

    Directory of Open Access Journals (Sweden)

    Gustavo Pimentel Dutra

    2010-09-01

    Full Text Available OBJECTIVE: Adenosine may play a role in the pathophysiology of schizophrenia, since it modulates the release of several neurotransmitters such as glutamate, dopamine, serotonin and acetylcholine, decreases neuronal activity by pos-synaptic hyperpolarization and inhibits dopaminergic activity. Adenosine deaminase participates in purine metabolism by converting adenosine into inosine. The most frequent functional polymorphism of adenosine deaminase (22G→A (ADA1*2 exhibits 20-30% lower enzymatic activity in individuals with the G/A genotype than individuals with the G/G genotype. The aim of this study was to evaluate the ADA polymorphism 22G→A (ADA1*2 in schizophrenic patients and healthy controls. METHOD: The genotypes of the ADA 22G→A were identified with allele-specific PCR strategy in 152 schizophrenic patients and 111 healthy individuals. RESULTS: A significant decrease in the frequency of the G/A genotype was seen in schizophrenic patients (7/152 - 4.6% relative to controls (13/111 - 11.7%, p = 0.032, OR = 2.6. CONCLUSION: These results suggest that the G/A genotype associated with low adenosine deaminase activity and, supposingly, with higher adenosine levels is less frequent among schizophrenic patients.OBJETIVO: A adenosina pode ter um papel importante na fisiopatologia da esquizofrenia, uma vez que modula a liberação de vários neurotransmissores, tais como glutamato, dopamina, serotonina e acetilcolina, diminui a atividade neuronal por hiperpolarização pós-sináptica e inibe a atividade dopaminérgica. A adenosina desaminase participa do metabolismo das purinas pela conversão de adenosina em inosina. O mais frequente polimorfismo funcional da adenosina desaminase (22G →A (ADA1*2 exibe uma diminuição de 20-30% da atividade funcional em indivíduos com genótipo G/A quando comparados com indivíduos com o genótipo G/G. O objetivo deste estudo foi avaliar o polimorfismo 22G→A (ADA1*2 em pacientes esquizofrênicos e em

  10. Over-representation of the APOE*4 allele in autopsy confirmed early- and late-onset sporadic Alzheimer`s disease

    Energy Technology Data Exchange (ETDEWEB)

    Kamboh, M.I.; DeKosky, S.T.; Ferrell, R.E. [Univ. of Pittsburgh, PA (United States)

    1994-09-01

    Apolipoprotein E binds to {beta}-amyloid peptide in senile plaques and neurofibrillary tangles in Alzheimer`s disease (AD). Recent studies have identified the APOE*4 allele as a major predisposing genetic factor for late-onset familial AD as well as in sporadic AD. Most of these association studies are based on clinically diagnosed AD cases with little data available on autopsy confirmed, definite AD. To characterize the distribution of APOE polymorphism in autopsy confirmed sporadic AD cases, we determined APOE genotypes in 111 DNA samples (aged 51-101 years) extracted from brain tissues which were available from the University of Pittsburgh Alzheimer`s Disease Research Center. The APOE data was compared between the AD group and 3 samples of population controls from Western Pennsylvania consisting of a young cohort (N=473, aged 18-48 years), middle cohort (N=473, aged 42-50 years) and an old cohort (N=870, aged 65-90 years). The frequency of the APOE*4 allele was similar in the young and middle cohorts (0.12) and slightly lower in the old cohort (0.10). However, the frequency of the APOE*4 allele was three times higher in both early-onset (<65 years; 0.36) and late-onset ({ge}65 years; 0.38) sporadic AD cases compared to the control groups (p<0.0001). In the AD cohort the frequency of the APOE*4 allele was similar across all age groups (<65, 65-75, 76-85, 86+) and so was in men and women (0.40 vs. 0.37). The E*4 homozygosity was observed in 18% of AD cases compared to 1% in each of the three control groups. The E*4 heterozygosity was present in 50% of AD cases compared to 17% in the control old cohort and 22% in both the young and middle control cohorts. These data confirm that the APOE*4 allele is a major risk factor for AD regardless of age-at-diagnosis or family history.

  11. FREQUENCY DISTRIBUTIONS OF 90SR AND 137CS CONCENTRATIONS IN AN ECOSYSTEM OF THE 'RED FOREST' AREA IN THE CHERNOBYL EXCLUSION ZONE

    Energy Technology Data Exchange (ETDEWEB)

    Farfan, E.; Jannik, T.; Caldwell, E.

    2011-10-01

    In the most highly contaminated region of the Chernobyl Exclusion Zone: the 'Red Forest' site, the accumulation of the major dose-affecting radionuclides ({sup 90}Sr and {sup 137}Cs) within the components of an ecological system encompassing 3,000 m{sup 2} were characterized. The sampled components included soils (top 0-10 cm depth), Molina caerulea (blue moor grass), Camponotus vagus (carpenter ants) and Pelobates fuscus (spade-footed toad). In a comparison among the components of this ecosystem, the {sup 90}Sr and {sup 137}Cs concentrations measured in 40 separate grids exhibited significant differences, while the frequency distribution of the values were close to a logarithmically normal leptokurtic distribution with a significant right-side skew. While it is important to identify localized areas of high contamination or 'hot spots,' including these values in the arithmetic mean may overestimate the exposure risk. In component sample sets that exhibited logarithmically normal distribution, the geometrical mean more accurately characterizes a site. Ideally, risk assessment is most confidently achieved when the arithmetic and geometrical means are most similar, meaning the distribution approaches normal. Through bioaccumulation, the highest concentrations of {sup 90}Sr and {sup 137}Cs were measured in the blue moor grass and spade-footed toad. These components also possessed distribution parameters that shifted toward a normal distribution.

  12. Application of Linear Quadratic Gaussian and Coefficient Diagram Techniques to Distributed Load Frequency Control of Power Systems

    Directory of Open Access Journals (Sweden)

    Tarek Hassan Mohamed

    2015-12-01

    Full Text Available This paper presented both the linear quadratic Gaussian technique (LQG and the coefficient diagram method (CDM as load frequency controllers in a multi-area power system to deal with the problem of variations in system parameters and load demand change. The full states of the system including the area frequency deviation have been estimated using the Kalman filter technique. The efficiency of the proposed control method has been checked using a digital simulation. Simulation results indicated that, with the proposed CDM + LQG technique, the system is robust in the face of parameter uncertainties and load disturbances. A comparison between the proposed technique and other schemes is carried out, confirming the superiority of the proposed CDM + LQG technique.

  13. Frequency and Distribution of Blood Groups in Blood Donors in Western Ahmedabad AND#8211; A Hospital Based Study

    OpenAIRE

    Patel Piyush A; Patel Sangeeta P; Shah Jigesh V; Oza Haren V

    2012-01-01

    Background: Up till now about 400 red cells antigen have been identified. The majority are inherited by Mendelian fashion. The ABO and Rhesus (Rh) blood group system are most important for blood transfusion purposes, parental testing, legal medicine and in population genetic study. Objective: This study was conducted to determine and compare the frequency of ABO and Rh blood groups in blood donors in secondary care teaching hospital at Western Ahmedabad, Gujarat, India. Materials and Methods:...

  14. FREQUENCY AND DISTRIBUTION OF ABO & RH BLOOD GROUP IN BILASPUR DISTRICT OF CHHATTISGARH STATE : A STUDY FROM MEDICAL COLLEGE HOSPITAL

    OpenAIRE

    Bhanu Pratap; De, Archana; Watsala; Anil K; De, Shipra

    2015-01-01

    BACKGROUND : Approximate 30 blood group systems have discovered and more than 400 erythrocytes antigens are identified. Blood group ABO and Rh are most important among all other blood group systems in transfusion service practices. The frequency of four major blood gr oup s namely A, B, O, AB with Rh Positive and Negative varies in different population of the world and differ also in region and race wise. MATER...

  15. Frequency distribution of sickle cell anemia, sickle cell trait and sickle/beta-thalassemia among anemic patients in Saudi Arabia

    OpenAIRE

    Elsayid, Mohieldin; Al-Shehri, Mohammed Jahman; Alkulaibi, Yasser Abdullah; Alanazi, Abdullah; Qureshi, Shoeb

    2015-01-01

    Background: Notwithstanding, the growing incidence of sickle cell hemoglobinopathies (SCH) such as sickle cell anemia (SCA) or sickle cell disease, sickle/beta-thalassemia; the exact prevalence remains obscure in Saudi Arabia. Hence, this study is an attempt to determine the frequency of SCA and sickle cell trait (SCT) among all anemic patients with SCH treated at the King Abdul-Aziz Medical City (KAMC), Riyadh, Saudi Arabia. Furthermore, the hemoglobin (Hb) S and other Hb patterns (Hb AS and...

  16. Seismicity assessment for the different regions in and around Turkey based on instrumental data: Gumbel first asymptotic distribution and Gutenberg-Richter cumulative frequency law

    Science.gov (United States)

    Bayrak, Y.; Ã-Ztürk, S.; Koravos, G. Ch.; Leventakis, G. A.; Tsapanos, T. M.

    2008-02-01

    The evaluation of the seismicity in 24 seismic regions, in which Turkey and adjacent areas divided, is carried out. For this purpose two methods are adopted. The first is the "whole process" which follows the Gutenberg and Richter distribution frequency-magnitude law, while the second one is the "part process" which is well known as the theory of extreme values. This theory was developed by Gumbel in order to solve many geophysical problems. The first asymptotic distribution of extremes was used in the present study. The advantage of the method is that it does not required analysis of the whole data set. It uses, instead, the sequence of earthquakes with the largest magnitudes in a set of predetermined equal-time intervals. The parameters a and b were estimated from both methods. For the goodness of fit, to the Gutenberg-Richter frequency-magnitude law, the maximum likelihood approach is applied. The b-values calculated from Gutenberg and Richter frequency-magnitude law, reveal a better fit to the tectonic environment of the 24 seismic regions of Turkey and its surroundings examining in this study. On the other hand b-values evaluated from Gumbel's first distribution, do not adjust to the particular tectonics of the 24 seismic regions. The modal value a1/b adopted from Gutenberg-Richter for the 24 seismic regions were calculated, as well. An effort made to correlate the tectonics of the area with the spatial distribution of the various computed seismic parameter, while maps were produced for this purpose. These maps provide a detail image of seismicity and local tectonics for the whole investigated area. The results showed that the Aegean arc and the North Anatolian fault zone ranked among to the first positions between the 24 seismic regions researched.

  17. Phenotypic instability of Arabidopsis alleles affecting a disease Resistance gene cluster

    Directory of Open Access Journals (Sweden)

    Richards Eric J

    2008-04-01

    Full Text Available Abstract Background Three mutations in Arabidopsis thaliana strain Columbia – cpr1, snc1, and bal – map to the RPP5 locus, which contains a cluster of disease Resistance genes. The similar phenotypes, gene expression patterns, and genetic interactions observed in these mutants are related to constitutive activation of pathogen defense signaling. However, these mutant alleles respond differently to various conditions. Exposure to mutagens, such as ethyl methanesulfonate (EMS and γ-irradiation, induce high frequency phenotypic instability of the bal allele. In addition, a fraction of the bal and cpr1 alleles segregated from bal × cpr1 F1 hybrids also show signs of phenotypic instability. To gain more insight into the mechanism of phenotypic instability of the bal and cpr1 mutations, we systematically compared the behavior of these unusual alleles with that of the missense gain-of-function snc1 allele in response to DNA damage or passage through F1 hybrids. Results We found that the cpr1 allele is similar to the bal allele in its unstable behavior after EMS mutagenesis. For both the bal and cpr1 mutants, destabilization of phenotypes was observed in more than 10% of EMS-treated plants in the M1 generation. In addition, exceptions to simple Mendelian inheritance were identified in the M2 generation. Like cpr1 × bal F1 hybrids, cpr1 × snc1 F1 hybrids and bal × snc1 F1 hybrids exhibited dwarf morphology. While only dwarf F2 plants were produced from bal × snc1 F1 hybrids, about 10% wild-type F2 progeny were produced from cpr1 × snc1 F1 hybrids, as well as from cpr1 × bal hybrids. Segregation analysis suggested that the cpr1 allele in cpr1 × snc1 crosses was destabilized during the late F1 generation to early F2 generation. Conclusion With exposure to EMS or different F1 hybrid contexts, phenotypic instability is induced for the bal and cpr1 alleles, but not for the snc1 allele. Our results suggest that the RPP5 locus can adopt different

  18. Diversity of Lactase Persistence Alleles in Ethiopia

    DEFF Research Database (Denmark)

    Jones, BL; Raga, TO; Liebert, Anke;

    2013-01-01

    The persistent expression of lactase into adulthood in humans is a recent genetic adaptation that allows the consumption of milk from other mammals after weaning. In Europe, a single allele (−13910∗T, rs4988235) in an upstream region that acts as an enhancer to the expression of the lactase gene ...

  19. RHD alleles in the Tunisian population

    Directory of Open Access Journals (Sweden)

    Mouna Ouchari

    2013-01-01

    Full Text Available Background: A comprehensive survey of RHD alleles in Tunisia population was lacking. The aim of this study was to use a multiplex RHD typing assay for simultaneous detection of partial D especially with RHD/RHCE deoxyribonucleic acid (DNA sequence exchange mechanism and some weak D alleles. Materials and Methods: Six RHD specific primer sets were designed to amplify RHD exons 3, 4, 5, 6, 7 and 9. DNA from 2000 blood donors (1777 D+ and 223 D- from several regions was selected for RHD genotyping using a PCR multiplex assay. Further molecular investigations were done to characterize the RHD variants that were identified by the PCR multiplex assay. Results: In the 1777 D+ samples, only 10 individuals showed the absence of amplification of exons 4 and 5 that were subsequently identified by PCR-SSP as weak D type 4 variants. No hybrid allele was detected. In the 223 D-, RHD amplification of some exons was observed only in 5 samples: 4 individuals expressed only RHD exon 9, and one subject lacking exons 4 and 5. These samples were then screened by PCR-SSPs on d(C ce s and weak D type 4, respectively. Conclusion: The weak D type 4 appears to be the most common D variant allele. We have not found any partial D variant. Findings also indicated that RHD gene deletion is the most prevalent cause of the D- phenotype in the Tunisian population.

  20. Preliminary survey on the distribution of medical equipment and frequency of diagnostic and therapeutic procedures in Brazil: a contribution to the UNSCEAR report

    International Nuclear Information System (INIS)

    Information about Brazil published in the UNSCEAR 2000 report are still scarce when compared to others countries. In this study, a survey on the distribution of medical equipment (X-ray generators, ultrasound, CT and MRI scanners, nuclear medicine equipment and teletherapy and brachytherapy units) and frequency of diagnostic and therapeutic procedures at the various Brazilian States was carried out. The overall information was obtained from a national database supported by the Brazilian Ministry of Health through the Computer Science Department of the National Health System (SUS - Sistema Unico de Saude). The distribution of equipment and the annual frequency of each type of procedure were analyzed considering the five geographical regions that form the country and their respective population. Temporal and regional trends in the annual frequency of procedures for 2000-2007 were also summarized in this study. National annual frequencies for the total of all medical X-ray examinations (259.0 examinations per 1000 population) were evaluated. Some examples can be given from chest, mammography and CT examinations: 67.4, 30.2 and 7.2 per 1000 population, respectively. In addition, annual frequencies for other modalities of diagnostic imaging have also been estimated: 61.5, 1.6 and 1.4 per 1000 population for ultrasound, nuclear medicine and MRI procedures, respectively. A total of 38.7 therapeutic procedures per 1000 population (teletherapy and brachytherapy) are annually performed in the country. The health services localized in Brazil comprised a total number of 253.1 diagnostic imaging equipment per million population, without considering dental X-ray. Amongst them, X-ray equipment used in common radiological examinations (chest, skull, spine, etc.) stands for 39% (97.7 per million). As expected, a significant decrease in the offer of equipment is observed when technologically more sophisticated equipment is concerned: magnetic resonance (3.5 per million), gamma

  1. HLA-DR alleles among Pakistani patients of coeliac disease

    International Nuclear Information System (INIS)

    Objectives: To investigate whether certain DR alleles might also contribute to the genetic susceptibility among Coeliac disease patients in Pakistan. Methods: The case-control study was conducted at the Military Hospital, Rawalpindi, from October 2011 to January 2012, and analysed 25 children diagnosed to have coeliac disease as per the criteria set by the European Society of Paediatric Gastroenterology and Nutrition, which included histopathological alterations in duodenal biopsies, clinical response to gluten withdrawal, and presence of anti-endomyseal antibodies. Patients were compared with a group of 150 healthy subjects. Dioxyribonucleic acid was extracted from peripheral blood collected in ethylenediaminetetraacetic acid.K3. Human leukocyte antigen DRB1 typing was carried out on allele level (DRB1*01 - DRB1*16) using sequence specific primers. Human leukocyte antigen type was determined by agarose gel electrophoresis and results were recorded. Phenotype frequency of various alleles among the patient group and the control group was calculated by direct counting, and significance of their association was determined by Fisher Exact Test. Results: A total of 11 (44%) female paediatric coeliac patients in age range 1-9 (mean 7.2+-4.8 years) and 14 (56%) male paediatric patients in the age range 6-14 (mean 8.6+-5.1 years) were genotyped for HLA-DRB1 loci. A statistically significant positive association of the disease with HLA-DRB1*03 (n=23; 92% versus n=31; 21% in controls, p <0.01) was observed. Conclusion: HLA-DRB1*03 is associated with increased risk of developing coeliac disease. (author)

  2. An explicit transition density expansion for a multi-allelic Wright-Fisher diffusion with general diploid selection

    OpenAIRE

    Steinrücken, Matthias; Wang, Y. X. Rachel; Song, Yun S.

    2012-01-01

    Characterizing time-evolution of allele frequencies in a population is a fundamental problem in population genetics. In the Wright-Fisher diffusion, such dynamics is captured by the transition density function, which satisfies well-known partial differential equations. For a multi-allelic model with general diploid selection, various theoretical results exist on representations of the transition density, but finding an explicit formula has remained a difficult problem. In this paper, a techni...

  3. Extremely short distributed Bragg reflector fibre lasers with sub-kilohertz linewidth and ultra-low polarization beat frequency for sensing applications

    International Nuclear Information System (INIS)

    We report the fabrication, characterization and application of extremely short linear-cavity distributed Bragg reflector fibre lasers (DBR-FLs) written in commercial erbium-doped fibres. The DBR-FL has a total length of 7 mm, of which the nominal cavity is 0.4 mm in length, making it the shortest DBR-FL being reported. Two distinct spectral properties are observed: ultra-narrow linewidth and ultra-low polarization beat frequency, which are measured to be 0.22 kHz and 18.9 MHz, respectively. For the former, the FLs find applications in high sensitivity interferometric sensing, optical frequency metrology and coherent optical communications, whereas for the latter, such a low beat frequency is beneficial to the construction of low-cost and simple demodulator electronics for sensor signal demodulation. The relative intensity noise measurement showed that the relaxation oscillation frequency and relative peak are 120 kHz and −75 dB Hz−1, respectively. The FL exhibited low-noise characteristics, with an intensity noise of −107 dB Hz−1 at 1 MHz. We demonstrate the use of these extremely short FLs in the construction of an efficiently pumped and serially multiplexed FL sensor array suitable for practical sensing applications. Two array configurations were tested, namely with individual FLs fabricated in short sections of EDF and connected via passive fibres and with all FLs fabricated along a single EDF

  4. Estimating the power law distribution of Earth electrical conductivity from low-frequency, controlled-source electromagnetic data

    Science.gov (United States)

    Beskardes, G. D.; Weiss, C. J.; Everett, M. E.

    2013-12-01

    Electromagnetic methods of geophysical exploration are a reflection of the spatio-temporal variability in ground conductivity, a macroscopic physical property that is a function of lithology, pore-scale surface chemistry, fracture networks, and the presence and distribution of fluids and partial melts. As such, the bulk electrical properties of some representative elementary volume within the subsurface derive from the macroscopic effect of charge buildup and current pathways across a range of length scales within. Quantifying this relationship between multiscale electrical properties and the observed geophysical data is a critical step toward meaningful geologic interpretation. Previously we presented evidence of near-surface electromagnetic data whose small scale fluctuations are both repeatable and fractally distributed -- an observation that supports the notion of a spatially hierarchical Earth. Bounded by the end member cases from homogenized isotropic and anisotropic media, we present numerical modeling results from textured and spatially-correlated, stochastic geologic media, demonstrating that the electromagnetic response is a power law distribution similar to that seen in the earlier observational data, rather than a smooth response polluted with Gaussian noise as is commonly assumed. Furthermore, we show that such power law behavior is dependent on correlation length within the medium and that the power law distribution of Earth conductivity can be estimated from that of the observed electromagnetic data.

  5. The breakdown of the power-law frequency distributions for the hard X-ray peak count rates of solar flares

    International Nuclear Information System (INIS)

    The frequency distribution for several characteristics of a solar flare obeys a power law only above a certain threshold, below which there is an apparent loss of small scale events presumably caused by limited instrumental sensitivity and the corresponding event selection bias. It is also possible that this deviation in the power law can have a physical origin in the source. We propose two fitting models incorporating a power law distribution with a low count rate cutoff plus a noise component for the frequency distribution of the hard X-ray peak count rate of all solar flare samples obtained with HXRBS/SMM and BATSE/CGRO observations. Our new fitting method produces the same power-law index as previously developed methods, a low cutoff of the power-law function and its corresponding noise level, which is consistent with measurements of the actual noise level of the hard X-ray count rate. We found that the fitted low cutoff appears to be related to the noise level, i.e., flares are only recognized when their peak count rate is 3σ greater than noise. Therefore, the fitted low cutoff, which is smaller than the aforementioned threshold, might be attributed to selection bias, and probably not to the actual count rate cutoff in flares at smaller scales. Whether or not the actual low cutoff physically exists needs to be checked by future observations with increased sensitivities

  6. Flavin-Containing Monooxygenase 3 Genotype:Frequencies Distribution and Effects on Egg Quality in Hy-Line Brown Laying Hens%海兰褐壳蛋鸡含黄素单氧化酶3基因型频率分布及其对蛋品质的影响

    Institute of Scientific and Technical Information of China (English)

    王晶; 武书庚; 张海军; 岳洪源; 齐广海

    2014-01-01

    This experiment was conducted to investigate the distribution of T329 S mutation in flavin-containing monooxygenase 3 ( FMO3 ) in Hy-Line brown laying hens, and the effects of FMO3 genotype on egg quality and egg trimethylamine ( TMA ) content. A polymerase chain reaction-restriction fragment length polymor-phism ( PCR-RFLP) followed by DNA sequencing assay was developed to genotype laying hens. A total of 120 genotyped laying hens were selected and fed for 6 weeks, and the egg quality and egg TMA contents were analyzed. The results showed as follows:1) the frequencies of AA (wild type), AT (heterozygous type) and TT (mutant type) genotype were 3. 4%, 76. 6% and 20. 0%, respectively. The allelic frequencies were not in Hardy-Weinberg equilibrium in the Hy-Line brown laying hens strain ( P0 . 05 ) with the exception of TMA contents which was higher in TT hens ( P0.05);TT基因型蛋黄TMA含量显著升高(P<0.05),但低于嗅觉阈值。由此可见,海兰褐壳鸡群体中TT基因型出现频率较高(20.0%),其蛋中TMA含量较高;FMO3基因型不影响蛋品质。

  7. Simulation studies of statistical distributions of cell membrane capacities and an ellipse model to assess the frequency behaviour of biological tissues

    International Nuclear Information System (INIS)

    The frequency behaviour of biological tissues is commonly described by a Cole model reflecting a single-cell bio-impedance model extended with an exponent α. However, for this parameter α there is no physical or biological substrate, which impedes an interpretation. The present study confirms by computer simulations of tissue models that the factual frequency behaviour can be explained by assuming a distribution of the electrical impedance properties of cells and of the capacitive coupling between cells. This behaviour is modelled mathematically by an ellipse. A mathematical procedure is presented to estimate this ellipse from experimental data by a least square method. A model parameter β is introduced, representing the ratio of the axes of the ellipse. A higher value of β means a larger variation in cell properties, which makes a patho-physiological interpretation of changes possible.

  8. Multidimensional earthquake frequency distributions consistent with self-organization of complex systems: The interdependence of magnitude, interevent time and interevent distance

    Science.gov (United States)

    Tzanis, A.; Vallianatos, F.

    2012-04-01

    the G-R law predicts, but also to the interevent time and distance by means of well defined power-laws. We also demonstrate that interevent time and distance are not independent of each other, but also interrelated by means of well defined power-laws. We argue that these relationships are universal and valid for both local and regional tectonic grains and seismicity patterns. Eventually, we argue that the four-dimensional hypercube formed by the joint distribution of earthquake frequency, magnitude, interevent time and interevent distance comprises a generalized distribution of the G-R type which epitomizes the temporal and spatial interdependence of earthquake activity, consistent with expectation for a stationary or evolutionary critical system. Finally, we attempt to discuss the emerging generalized frequency distribution in terms of non-extensive statistical physics. Acknowledgments. This work was partly supported by the THALES Program of the Ministry of Education of Greece and the European Union in the framework of the project "Integrated understanding of Seismicity, using innovative methodologies of Fracture Mechanics along with Earthquake and Non-Extensive Statistical Physics - Application to the geodynamic system of the Hellenic Arc - SEISMO FEAR HELLARC".

  9. Association of polymorphic alleles of CTLA4 with inflammatory bowel disease in the Japanese

    Institute of Scientific and Technical Information of China (English)

    Haruhisa Machida; Ikuo Murata; Shigeru Kohno; Kazuhiro Tsukamoto; Chun-Yang Wen; Yukiko Narumi; Saburou Shikuwa; Hajime Isomoto; Fuminao Takeshima; Yohei Mizuta; Norio Niikawa

    2005-01-01

    AIM: To examine an association between the cytotoxic T-lymphocyte antigen 4 (CTLA4) gene that plays a role in downregulation of T-cell activation and inflammatory bowel disease consisting of ulcerative colitis (UC) and Crohn's disease (CD) in the Japanese.METHODS: We studied 108 patients with UC, 79 patients with CD, and 200 sex-matched healthy controls, with respect to three single nucleotide polymorphisms (SNPs)in CTLA4, such as C-318T in the promoter region, A+49G in exon 1 and G+6230A in the 3' untranslated region (3'-UTR) by a PCR-restriction fragment length polymorphism method, and to an (AT)n repeat polymorphism in 3'-UTR by fragment analysis with fluorescence-labeling on denaturing sequence gels. Frequency of alleles and genotypes and their distribution were compared statistically between patients and controls and among subgroups of patients, using χ2 and Fisher exact tests.RESULTS: The frequency of "A/A" genotype at the G+6230A SNP site was statistically lower in UC patients than in controls (3.7% vs 11.0%, P= 0.047, odds ratio (OR) = 0.311). Moreover, the frequency of"G/G" genotype at the A+49G SNP site was significantly higher in CD patients with fistula (48.6%) than those without it (26.2%)(P = 0.0388, OR=2.67).CONCLUSION: The results suggest that CTLA4 located at 2q33 is a determinant of UC and responsible for fistula formation in CD in the Japanese.

  10. Schizophrenia susceptibility alleles are enriched for alleles that affect gene expression in adult human brain

    OpenAIRE

    Richards, Alexander L.; Jones, Lesley; Moskvina, Valentina; Kirov, George; Gejman, Pablo V.; Levinson, Douglas F.; Sanders, Alan R; Purcell, Shaun; Visscher, Peter M.; Craddock, Nick; Owen, Michael J.; Holmans, Peter; O’Donovan, Michael C

    2011-01-01

    It is widely thought that alleles that influence susceptibility to common diseases, including schizophrenia, will frequently do so through effects on gene expression. Since only a small proportion of the genetic variance for schizophrenia has been attributed to specific loci, this remains an unproven hypothesis. The International Schizophrenia Consortium (ISC) recently reported a substantial polygenic contribution to that disorder, and that schizophrenia risk alleles are enriched among SNPs s...

  11. Power-Law Scaling of the Impact Crater Size-Frequency Distribution on Pluto: A Preliminary Analysis Based on First Images from New Horizons' Flyby

    OpenAIRE

    Scholkmann F.

    2016-01-01

    The recent (14 th July 2015) flyby of NASA’s New Horizons spacecraft of the dwarf planet Pluto resulted in the first high-resolution images of the geological surface- features of Pluto. Since previous studies showed that the impact crater size-frequency distribution (SFD) of different celestial objects of our solar system follows power-laws, the aim of the present analysis was to determine, for the first time, the power-law scaling behavior for Pluto’s crater SFD ba...

  12. FREQUENCY AND DISTRIBUTION OF ABO & RH BLOOD GROUP IN BILASPUR DISTRICT OF CHHATTISGARH STATE : A STUDY FROM MEDICAL COLLEGE HOSPITAL

    Directory of Open Access Journals (Sweden)

    Bhanu Pratap

    2015-07-01

    Full Text Available BACKGROUND : Approximate 30 blood group systems have discovered and more than 400 erythrocytes antigens are identified. Blood group ABO and Rh are most important among all other blood group systems in transfusion service practices. The frequency of four major blood gr oup s namely A, B, O, AB with Rh Positive and Negative varies in different population of the world and differ also in region and race wise. MATERIAL AND METHOD : This 5 years retrospective study was conducted at Blood Bank of a Medical college Hospital of Bi laspur in Northern Chhattisgarh, catering the 1/3 population of state. Data were collected from the Blood Bank Grouping record from the period of January 2010 to December 2014. Blood group of blood donors and patients were determined by Monoclonal Anti Ser a by slide agglutinations tests. Rare case and difficult case were examined by test tube agglutination method and Matrix Gel System of Tulip. RESULT AND CONCLUSIO N: 31973 subjects were examined for blood group during observation period, Out of these 31092( 97.25% were male and 881 (2.75% were female. The frequency of blood group B in these populations was 11007 (34.42% (33.36% Rh Positive and 1.06% Rh Negative Followed by O were 10864 (33.97% (33.33% Rh Positive and 0.64% Rh Negative, A was 9113 (28.50 % (27.99 % Rh Positive and 0.51% Rh Negative and AB was 989 (3.11% (3.01% Rh Positive and 0.1% Rh Negative. Rhesus group Rh Positive were 31242 (97.7 % and Rh Negative were 731 (2.3 %.

  13. Self-regulation of circumscribed brain activity modulates spatially selective and frequency specific connectivity of distributed resting state networks.

    Science.gov (United States)

    Vukelić, Mathias; Gharabaghi, Alireza

    2015-01-01

    The mechanisms of learning involved in brain self-regulation have still to be unveiled to exploit the full potential of this methodology for therapeutic interventions. This skill of volitionally changing brain activity presumably resembles motor skill learning which in turn is accompanied by plastic changes modulating resting state networks. Along these lines, we hypothesized that brain regulation and neurofeedback would similarly modify intrinsic networks at rest while presenting a distinct spatio-temporal pattern. High-resolution electroencephalography preceded and followed a single neurofeedback training intervention of modulating circumscribed sensorimotor low β-activity by kinesthetic motor imagery in eleven healthy participants. The participants were kept in the deliberative phase of skill acquisition with high demands for learning self-regulation through stepwise increases of task difficulty. By applying the corrected imaginary part of the coherency function, we observed increased functional connectivity of both the primary motor and the primary somatosensory cortex with their respective contralateral homologous cortices in the low β-frequency band which was self-regulated during feedback. At the same time, the primary motor cortex-but none of the surrounding cortical areas-showed connectivity to contralateral supplementary motor and dorsal premotor areas in the high β-band. Simultaneously, the neurofeedback target displayed a specific increase of functional connectivity with an ipsilateral fronto-parietal network in the α-band while presenting a de-coupling with contralateral primary and secondary sensorimotor areas in the very same frequency band. Brain self-regulation modifies resting state connections spatially selective to the neurofeedback target of the dominant hemisphere. These are anatomically distinct with regard to the cortico-cortical connectivity pattern and are functionally specific with regard to the time domain of coherent activity

  14. Allelic association at the D14S43 locus in early onset Alzheimer`s disease

    Energy Technology Data Exchange (ETDEWEB)

    Brice, A.; Tardieu, S.; Campion, D.; Martinez, M. [and others

    1995-04-24

    The D14S43 marker is closely linked to the major gene for early onset autosomal dominant Alzheimer`s disease on chromosome 14. Allelic frequencies at the D14S43 locus were compared in 113 familial and isolated cases of early onset Alzheimer`s disease (<60 years of age at onset) (EOAD) and 109 unaffected individuals of the same geographic origin. Allele 7 was significantly (P = 0.033) more frequent in type 1 EOAD patients (13.2%), defined by the presence of at least another first degree relative with EOAD, than in controls (4.1%). Since an autosomal dominant gene is probably responsible for type 1 patients, allelic association may reflect linkage disequilibrium at the D14S43 locus. This would mean that some patients share a common ancestral mutation. However, since multiple tests were carried out, this result must be interpreted with caution, and needs confirmation in an independent sample. 16 refs., 2 tabs.

  15. Lichen planopilaris is associated with HLA DRB1*11 and DQB1*03 alleles.

    Science.gov (United States)

    Pavlovsky, Lev; Israeli, Moshe; Sagy, Eti; Berg, Amy L; David, Michael; Shemer, Avner; Klein, Tirza; Hodak, Emmilia

    2015-02-01

    There are no studies of the possible association of the human leukocyte antigen (HLA) system with lichen planopilaris (LPP). To determine whether the HLA system is associated with LPP, 40 consecutive Jewish Israeli patients with LPP (study group) and 252 volunteers (controls) were typed for DRB1*and DQB1* loci by molecular methods. Compared with controls, the study group had a significantly higher frequency of the DRB1*11 allele (62% vs. 21%, corrected p-value (pc) = 0.001) owing to increased frequencies of DRB1*11: 01 and DRB1*11: 04. The DQB1*03 allele was also expressed at a significantly higher frequency in the study group (70% vs. 33%, pc = 0.0005); specifically, the frequency of DQB1*03: 01 was increased. The majority (82.5%) of the patients were of non-Ashkenazi origin. We conclude that LPP appears to be over-represented in non-Ashkenazi Jewish patients and is associated with an increased frequency of HLA DRB1*11 and DQB1*03 alleles. These findings suggest that immunogenetic factors play a role in LPP. PMID:24806356

  16. The Burden of JAK2V617F Mutated Allele in Turkish Patients With Myeloproliferative Neoplasms

    Science.gov (United States)

    Yonal-Hindilerden, Ipek; Daglar-Aday, Aynur; Akadam-Teker, Basak; Yilmaz, Ceylan; Nalcaci, Meliha; Yavuz, Akif Selim; Sargin, Deniz

    2015-01-01

    Background Studies regarding the impact of JAK2V617F allele burden on phenotypic properties and clinical course in Philadelphia-negative myeloproliferative neoplasms (Ph-negative MPNs) have reported variable results. We aimed to analyze the association of mutated JAK2V617F allele burden with laboratory characteristics and clinical phenotype in Turkish patients (107 essential thrombocythemia (ET) and 77 primary myelofibrosis (PMF)). Methods Peripheral blood samples of 184 patients with Ph-negative MPNs were analyzed for JAK2V617F allele status and burden. JAK2 MutaScreen assay (Ipsogen, Luminy Biotech, Marseille, France) was used to detect the JAK2V617F status and quantitative JAK2V617F allele burdens in genomic DNA using TaqMan allelic discrimination. Results Frequency of JAK2V617F-positive patients with high mutation load (allele burden > 50%) was higher in PMF compared to ET (23.4% and 4.7%, respectively; P = 0.001). We found significant association between ET patients with high JAK2V617F allele burden and lower hemoglobin (Hgb) and hematocrit (Hct), higher LDH levels and more prevalent massive splenomegaly (P = 0.001, P = 0.001, P = 0.012 and P = 0.015, respectively). ET patients with high mutation load displayed higher prevalence of bleeding compared to low mutation load and wild-type mutational status (P = 0.003). Rate of DVT was significantly higher in ET patients with mutant allele burden in upper half compared to lower half and wild-type (P = 0.029). We observed significant association between PMF patients with high JAK2V617F allele burden and higher Hgb, Hct levels and leukocyte counts (P = 0.003, P = 0.021 and P = 0.001, respectively). Conclusions Our study demonstrated JAK2V617F allele burden correlates with clinical features in ET and PMF. We conclude quantification of JAK2V617F mutation contributes to the workup of Ph-negative MPNs. PMID:25584101

  17. Novel alleles of 31-bp VNTR polymorphism in the human cystathionine -synthase (CBS) gene were detected in healthy Asians

    Indian Academy of Sciences (India)

    Yik-Yuen Gan; Chuan-Fei Chen

    2010-12-01

    A 31-bp variable number of tandem repeats (VNTR) polymorphism of the cystathionine -synthase (CBS) gene was earlier reported in Caucasians of predominantly European descent and Indo–Caucasoid populations.We report here for the first time, the detection of allele 20, which was absent in Caucasian and Indo–Caucasoid populations, as a common allele present in Singaporean Chinese (6.25%), Indians (11.7%), and Malays (11.5%). Hence, allele 20 might be a specific allele for Asian populations. A relatively common allele 19 found in the Caucasian and Indo–Caucasoid populations (10.4%–10.6%) was absent in the Asian samples of this study. Therefore, allele 19 might be a specific allele for the Caucasian populations. A novel and rare allele 13, which was not reported before in the Caucasian and Indo–Caucasoid populations, was found in 0.5% of Singaporean Chinese as genotype 13/17 heterozygotes. The presence of alleles 13 and 20 were verified by DNA sequencing. There were five new genotypes (13/17, 16/20, 17/20, 18/20 and 20/20) not reported before in the Caucasian and Indo–Caucasoid populations, detected in this study. Nine genotypes (15/18, 16/18, 16/21, 17/19, 18/19, 18/21, 19/19, 19/21 and 21/21) which were present in the Caucasian and/or Indo–Caucasoid populations were absent in this study. Our results showed that CBS 31-bp VNTR polymorphism has a distinct genetic difference in allele and genotype frequencies between the European Caucasians, Indo–Caucasoid and Asian populations.

  18. Restrictive flamenco alleles are maintained in Drosophila melanogaster population cages, despite the absence of their endogenous gypsy retroviral targets.

    Science.gov (United States)

    Pélisson, Alain; Payen-Groschêne, Geneviève; Terzian, Christophe; Bucheton, Alain

    2007-02-01

    The flamenco (flam) locus, located at 20A1-3 in the centromeric heterochromatin of the Drosophila melanogaster X chromosome, is a major regulator of the gypsy/mdg4 endogenous retrovirus. In restrictive strains, functional flam alleles maintain gypsy proviruses in a repressed state. By contrast, in permissive strains, proviral amplification results from infection of the female germ line and subsequent insertions into the chromosomes of the progeny. A restrictive/permissive polymorphism prevails in natural and laboratory populations. This polymorphism was assumed to be maintained by the interplay of opposite selective forces; on one hand, the increase of genetic load caused by proviral insertions would favor restrictive flam alleles because they make flies resistant to these gypsy replicative transpositions and, on the other, a hypothetical resistance cost would select against such alleles in the absence of the retrovirus. However, the population cage data presented in this paper do not fit with this simple resistance cost hypothesis because restrictive alleles were not eliminated in the absence of functional gypsy proviruses; on the contrary, using 2 independent flam allelic pairs, the restrictive frequency rose to about 90% in every experimental population, whatever the pair of alleles and the allelic proportions in the initial inoculum. These data suggest that the flam polymorphism is maintained by some strong balancing selection, which would act either on flam itself, independently of the deleterious effect of gypsy, or on a hypothetical flanking gene, in linkage disequilibrium with flam. Alternatively, restrictive flam alleles might also be resistant to some other retroelements that would be still present in the cage populations, causing a positive selection for these alleles. Whatever selective forces that maintain high levels of restrictive alleles independently of gypsy, this unknown mechanism can set up an interesting kind of antiviral innate immunity, at

  19. Distribution Of 15N Fertilizer Added To Sandy Soil Under Drip Irrigation System As Affected By Irrigation Frequencies

    International Nuclear Information System (INIS)

    Neutron moisture meter and stable nitrogen isotope (15N) were used to follow horizontal and vertical water movement and N-fertilizer added to soil before and after irrigation. The data indicated that soil moisture distribution and values of total hydraulic potential depend on soil moisture content. Characterization of nitrogen in soil for all sites around the emitter indicated spatial variability with different soil depths due to leaching and volatilization processes. Moreover, water movement and flow direction greatly were characterized by active evaporation depth which was 30 cm.

  20. Effect of particle size frequency distribution of the substratum on the burrowing ability of Chiridota rigida (semper) (Echinodermata: holothuroidea)

    Energy Technology Data Exchange (ETDEWEB)

    Lawrence, J.M.; Murdoch, J.

    1977-01-01

    Chiridota rigida (Semper) burrows easily into well-sorted substrata, moving between particles in coarse substrata and pushing aside particles in fine substrata. Chiridota rigida does not burrow easily into poorly sorted substrata because spaces which can be penetrated are not available and because the particles cannot be moved as a result of increased stability of the substratum. In poorly sorted substrata, burrowing ability increases with increases in the proportion of fine particles. It would appear that the distribution and abundance of chiridota rigida and other chiridotids would be affected by the effect of the substratum on their ability to burrow.