DNA Ploidy Measured on Archived Pretreatment Biopsy Material May Correlate With Prostate-Specific Antigen Recurrence After Prostate Brachytherapy

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Keyes, Mira, E-mail: mkeyes@bccancer.bc.ca [Radiation Oncology, Provincial Prostate Brachytherapy Program, Vancouver Cancer Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada); MacAulay, Calum [Department of Integrative Oncology, British Columbia Cancer Research Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada); Hayes, Malcolm [Department of Pathology, Vancouver Cancer Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada); Korbelik, Jagoda [Department of Integrative Oncology, British Columbia Cancer Research Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada); Morris, W. James [Radiation Oncology, Provincial Prostate Brachytherapy Program, Vancouver Cancer Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada); Palcic, Branko [Department of Integrative Oncology, British Columbia Cancer Research Centre, British Columbia Cancer Agency, Vancouver, British Columbia (Canada)

2013-08-01

Purpose: To explore whether DNA ploidy of prostate cancer cells determined from archived transrectal ultrasound-guided biopsy specimens correlates with disease-free survival. Methods and Materials: Forty-seven failures and 47 controls were selected from 1006 consecutive low- and intermediate-risk patients treated with prostate {sup 125}I brachytherapy (July 1998-October 2003). Median follow-up was 7.5 years. Ten-year actuarial disease-free survival was 94.1%. Controls were matched using age, initial prostate-specific antigen level, clinical stage, Gleason score, use of hormone therapy, and follow-up (all P nonsignificant). Seventy-eight specimens were successfully processed; 27 control and 20 failure specimens contained more than 100 tumor cells were used for the final analysis. The Feulgen-Thionin stained cytology samples from archived paraffin blocks were used to determine the DNA ploidy of each tumor by measuring integrated optical densities. Results: The samples were divided into diploid and aneuploid tumors. Aneuploid tumors were found in 16 of 20 of the failures (80%) and 8 of 27 controls (30%). Diploid DNA patients had a significantly lower rate of disease recurrence (P=.0086) (hazard ratio [HR] 0.256). On multivariable analysis, patients with aneuploid tumors had a higher prostate-specific antigen failure rate (HR 5.13). Additionally, those with “excellent” dosimetry (V100 >90%; D90 >144 Gy) had a significantly lower recurrence rate (HR 0.25). All patients with aneuploid tumors and dosimetry classified as “nonexcellent” (V100 <90%; D90 <144 Gy) (5 of 5) had disease recurrence, compared with 40% of patients with aneuploid tumors and “excellent” dosimetry (8 of 15). In contrast, dosimetry did not affect the outcome for diploid patients. Conclusions: Using core biopsy material from archived paraffin blocks, DNA ploidy correctly classified the majority of failures and nonfailures in this study. The results suggest that DNA ploidy can be used as a

STP K Basin Sludge Sample Archive at the Pacific Northwest National Laboratory FY2014

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Fiskum, Sandra K.; Smoot, Margaret R.; Schmidt, Andrew J.

2014-06-01

The Pacific Northwest National Laboratory (PNNL) currently houses 88 samples (~10.5 kg) of K Basin sludge (81 wet and seven dry samples) on behalf of the Sludge Treatment Project (STP), which is managed for the U.S. Department of Energy (DOE) by the CH2M Hill Plateau Remediation Company (CHPRC). Selected samples are intended to serve, in part, as sentinels to enhance understanding of sludge properties after long-term storage, and thus enhance understanding of sludge behavior following transfer to sludge transfer and storage containers (STSCs) and storage at the Hanford 200 Area central plateau. In addition, remaining samples serve in contingency for future testing requirements. At PNNL, the samples are tracked and maintained under a prescriptive and disciplined monthly sample-monitoring program implemented by PNNL staff. This report updates the status of the K Basin archive sludge sample inventory to April 2014. The previous inventory status report, PNNL 22245 (Fiskum et al. 2013, limited distribution report), was issued in February of 2013. This update incorporates changes in the inventory related to repackaging of 17 samples under test instructions 52578 TI052, K Basin Sludge Sample Repackaging for Continued Long Term Storage, and 52578 TI053, K Basin Sludge Sample Repackaging Post-2014 Shear Strength Measurements. Note that shear strength measurement results acquired in 2014 are provided separately. Specifically, this report provides the following: • a description of the K Basin sludge sample archive program and the sample inventory • a summary and images of the samples that were repackaged in April 2014 • up-to-date images and plots of the settled density and water loss from all applicable samples in the inventory • updated sample pedigree charts, which provide a roadmap of the genesis and processing history of each sample in the inventory • occurrence and deficiency reports associated with sample storage and repackaging

Dose-Response Analysis of RNA-Seq Profiles in Archival Formalin-Fixed Paraffin-Embedded (FFPE) Samples.

Science.gov (United States)

Use of archival resources has been limited to date by inconsistent methods for genomic profiling of degraded RNA from formalin-fixed paraffin-embedded (FFPE) samples. RNA-sequencing offers a promising way to address this problem. Here we evaluated transcriptomic dose responses us...

The effects of age-in-block on RNA-seq analysis of archival formalin-fixed paraffin-embedded (FFPE) samples

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Archival samples represent a vast resource for identification of chemical and pharmaceutical targets. Previous use of formalin-fixed paraffin-embedded (FFPE) samples has been limited due to changes in RNA introduced by fixation and embedding procedures. Recent advances in RNA-seq...

Proteomic workflow for analysis of archival formalin-fixed and paraffin-embedded clinical samples to a depth of 10 000 proteins.

Science.gov (United States)

Wiśniewski, Jacek R; Duś, Kamila; Mann, Matthias

2013-04-01

Archival formalin-fixed and paraffin-embedded clinical samples represent a very diverse source of material for proteomic investigation of diseases, often with follow-up patient information. Here, we describe an analytical workflow for analysis of laser-capture microdissected formalin-fixed and paraffin-embedded samples that allows studying proteomes to a depth of 10 000 proteins per sample. The workflow involves lysis of tissue in SDS-containing buffer, detergent removal, and consecutive digestion of the proteins with two enzymes by the multienzyme digestion filter-aided sample preparation method. Resulting peptides are fractionated by pipette-tip based strong anion exchange into six fractions and analyzed by LC-MS/MS on a bench top quadrupole Orbitrap mass spectrometer. Analysis of the data using the MaxQuant software resulted in the identification of 9502 ± 28 protein groups per a 110 nL sample of microdissected cells from human colonic adenoma. This depth of proteome analysis enables systemic insights into the organization of the adenoma cells and an estimation of the abundances of known biomarkers. It also allows the identification of proteins expressed from tumor suppressors, oncogenes, and other key players in the development and progression of the colorectal cancer. Our proteomic platform can be used for quantitative comparisons between samples representing different stages of diseases and thus can be applied to the discovery of biomarkers or drug targets. © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

P63 marker Expression in Usual Skin Cancers Compared With Non Tumoral Skin Lesions

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Abdolhamid Esmaili

2017-07-01

Full Text Available Background: Non-melanoma skin cancers including basal cell carcinoma and squamous cell carcinoma are the most common cancers in human. The aim of this study was to determine the expression of P63 marker in usual skin cancers compared with non-tomoral skin lesions. Materials and Methods: In this cross-sectional study, sampling was performed from archival blocks of Shahid Mohammadi hospital patients during 2010-2011. 60 samples (including 30 samples of non tumoral skin lesions and 30 samples of basal cell carcinoma and squamous cell carcinoma were studied and evaluation of p63 gene expression was done with Immunohistochemistry method. T-test and Chi-square were used for analysis of data. Results: P63 gene were expressed in 4 cases (13.33 % of non tumoral lesions and all tumoral lesions (100 %. In tumoral lesions, 5 cases (16.66 % showed 1+ severity experssion, 11 cases (36.66% 2 + severity experssion and 14 cases (46.66 % 3+severity experssion. All 4 non tumoral lesions shoed 1+ severity experssion of P63gene. Conclusion: The results of this study indicated that the incidence and severity of gene expression of P63 can be use for differentiation between basal cell carcinoma and squamous cell carcinoma as well as non-tumoral skin lesions. 

Performance of next-generation sequencing on small tumor specimens and/or low tumor content samples using a commercially available platform.

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Scott Morris

Full Text Available Next generation sequencing tests (NGS are usually performed on relatively small core biopsy or fine needle aspiration (FNA samples. Data is limited on what amount of tumor by volume or minimum number of FNA passes are needed to yield sufficient material for running NGS. We sought to identify the amount of tumor for running the PCDx NGS platform.2,723 consecutive tumor tissues of all cancer types were queried and reviewed for inclusion. Information on tumor volume, success of performing NGS, and results of NGS were compiled. Assessment of sequence analysis, mutation calling and sensitivity, quality control, drug associations, and data aggregation and analysis were performed.6.4% of samples were rejected from all testing due to insufficient tumor quantity. The number of genes with insufficient sensitivity make definitive mutation calls increased as the percentage of tumor decreased, reaching statistical significance below 5% tumor content. The number of drug associations also decreased with a lower percentage of tumor, but this difference only became significant between 1-3%. The number of drug associations did decrease with smaller tissue size as expected. Neither specimen size or percentage of tumor affected the ability to pass mRNA quality control. A tumor area of 10 mm2 provides a good margin of error for specimens to yield adequate drug association results.Specimen suitability remains a major obstacle to clinical NGS testing. We determined that PCR-based library creation methods allow the use of smaller specimens, and those with a lower percentage of tumor cells to be run on the PCDx NGS platform.

[Establishment and Management of Multicentral Collection Bio-sample Banks of Malignant Tumors from Digestive System].

Science.gov (United States)

Shen, Si; Shen, Junwei; Zhu, Liang; Wu, Chaoqun; Li, Dongliang; Yu, Hongyu; Qiu, Yuanyuan; Zhou, Yi

2015-11-01

To establish and manage of multicentral collection bio-sample banks of malignant tumors from digestive system, the paper designed a multicentral management system, established the standard operation procedures (SOPs) and leaded ten hospitals nationwide to collect tumor samples. The biobank has been established for half a year, and has collected 695 samples from patients with digestive system malignant tumor. The clinical data is full and complete, labeled in a unified way and classified to be managed. The clinical and molecular biology researches were based on the biobank, and obtained achievements. The biobank provides a research platform for malignant tumor of digestive system from different regions and of different types.

RAPID PROCESSING OF ARCHIVAL TISSUE SAMPLES FOR PROTEOMIC ANALYSIS USING PRESSURE-CYCLING TECHNOLOGY

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Vinuth N. Puttamallesh1,2

2017-06-01

Full Text Available Advent of mass spectrometry based proteomics has revolutionized our ability to study proteins from biological specimen in a high-throughput manner. Unlike cell line based studies, biomedical research involving tissue specimen is often challenging due to limited sample availability. In addition, investigation of clinically relevant research questions often requires enormous amount of time for sample collection prospectively. Formalin fixed paraffin embedded (FFPE archived tissue samples are a rich source of tissue specimen for biomedical research. However, there are several challenges associated with analysing FFPE samples. Protein cross-linking and degradation of proteins particularly affects proteomic analysis. We demonstrate that barocycler that uses pressure-cycling technology enables efficient protein extraction and processing of small amounts of FFPE tissue samples for proteomic analysis. We identified 3,525 proteins from six 10µm esophageal squamous cell carcinoma (ESCC tissue sections. Barocycler allows efficient protein extraction and proteolytic digestion of proteins from FFPE tissue sections at par with conventional methods.

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

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Joel Saltz

2018-04-01

Full Text Available Summary: Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumor-infiltrating lymphocytes (TILs based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment. : Tumor-infiltrating lymphocytes (TILs were identified from standard pathology cancer images by a deep-learning-derived “computational stain” developed by Saltz et al. They processed 5,202 digital images from 13 cancer types. Resulting TIL maps were correlated with TCGA molecular data, relating TIL content to survival, tumor subtypes, and immune profiles. Keywords: digital pathology, immuno-oncology, machine learning, lymphocytes, tumor microenvironment, deep learning, tumor-infiltrating lymphocytes, artificial intelligence, bioinformatics, computer vision

Testing an aflatoxin B1 gene signature in rat archival tissues.

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Merrick, B Alex; Auerbach, Scott S; Stockton, Patricia S; Foley, Julie F; Malarkey, David E; Sills, Robert C; Irwin, Richard D; Tice, Raymond R

2012-05-21

Archival tissues from laboratory studies represent a unique opportunity to explore the relationship between genomic changes and agent-induced disease. In this study, we evaluated the applicability of qPCR for detecting genomic changes in formalin-fixed, paraffin-embedded (FFPE) tissues by determining if a subset of 14 genes from a 90-gene signature derived from microarray data and associated with eventual tumor development could be detected in archival liver, kidney, and lung of rats exposed to aflatoxin B1 (AFB1) for 90 days in feed at 1 ppm. These tissues originated from the same rats used in the microarray study. The 14 genes evaluated were Adam8, Cdh13, Ddit4l, Mybl2, Akr7a3, Akr7a2, Fhit, Wwox, Abcb1b, Abcc3, Cxcl1, Gsta5, Grin2c, and the C8orf46 homologue. The qPCR FFPE liver results were compared to the original liver microarray data and to qPCR results using RNA from fresh frozen liver. Archival liver paraffin blocks yielded 30 to 50 μg of degraded RNA that ranged in size from 0.1 to 4 kB. qPCR results from FFPE and fresh frozen liver samples were positively correlated (p ≤ 0.05) by regression analysis and showed good agreement in direction and proportion of change with microarray data for 11 of 14 genes. All 14 transcripts could be amplified from FFPE kidney RNA except the glutamate receptor gene Grin2c; however, only Abcb1b was significantly upregulated from control. Abundant constitutive transcripts, S18 and β-actin, could be amplified from lung FFPE samples, but the narrow RNA size range (25-500 bp length) prevented consistent detection of target transcripts. Overall, a discrete gene signature derived from prior transcript profiling and representing cell cycle progression, DNA damage response, and xenosensor and detoxication pathways was successfully applied to archival liver and kidney by qPCR and indicated that gene expression changes in response to subchronic AFB1 exposure occurred predominantly in the liver, the primary target for AFB1-induced

Attitudes of the Japanese public and doctors towards use of archived information and samples without informed consent: Preliminary findings based on focus group interviews

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Fukuhara Shunichi

2002-01-01

Full Text Available Abstract Background The purpose of this study is to explore laypersons' attitudes toward the use of archived (existing materials such as medical records and biological samples and to compare them with the attitudes of physicians who are involved in medical research. Methods Three focus group interviews were conducted, in which seven Japanese male members of the general public, seven female members of the general public and seven physicians participated. Results It was revealed that the lay public expressed diverse attitudes towards the use of archived information and samples without informed consent. Protecting a subject's privacy, maintaining confidentiality, and communicating the outcomes of studies to research subjects were regarded as essential preconditions if researchers were to have access to archived information and samples used for research without the specific informed consent of the subjects who provided the material. Although participating physicians thought that some kind of prior permission from subjects was desirable, they pointed out the difficulties involved in obtaining individual informed consent in each case. Conclusions The present preliminary study indicates that the lay public and medical professionals may have different attitudes towards the use of archived information and samples without specific informed consent. This hypothesis, however, is derived from our focus groups interviews, and requires validation through research using a larger sample.

microRNA Biomarker Discovery and High-Throughput DNA Sequencing Are Possible Using Long-term Archived Serum Samples.

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Rounge, Trine B; Lauritzen, Marianne; Langseth, Hilde; Enerly, Espen; Lyle, Robert; Gislefoss, Randi E

2015-09-01

The impacts of long-term storage and varying preanalytical factors on the quality and quantity of DNA and miRNA from archived serum have not been fully assessed. Preanalytical and analytical variations and degradation may introduce bias in representation of DNA and miRNA and may result in loss or corruption of quantitative data. We have evaluated DNA and miRNA quantity, quality, and variability in samples stored up to 40 years using one of the oldest prospective serum collections in the world, the Janus Serumbank, a biorepository dedicated to cancer research. miRNAs are present and stable in archived serum samples frozen at -25°C for at least 40 years. Long-time storage did not reduce miRNA yields; however, varying preanalytical conditions had a significant effect and should be taken into consideration during project design. Of note, 500 μL serum yielded sufficient miRNA for qPCR and small RNA sequencing and on average 650 unique miRNAs were detected in samples from presumably healthy donors. Of note, 500 μL serum yielded sufficient DNA for whole-genome sequencing and subsequent SNP calling, giving a uniform representation of the genomes. DNA and miRNA are stable during long-term storage, making large prospectively collected serum repositories an invaluable source for miRNA and DNA biomarker discovery. Large-scale biomarker studies with long follow-up time are possible utilizing biorepositories with archived serum and state-of-the-art technology. ©2015 American Association for Cancer Research.

Archived neonatal dried blood spot samples can be used for accurate whole genome and exome-targeted next-generation sequencing

DEFF Research Database (Denmark)

Hollegaard, Mads Vilhelm; Grauholm, Jonas; Nielsen, Ronni

2013-01-01

Dried blood spot samples (DBSS) have been collected and stored for decades as part of newborn screening programmes worldwide. Representing almost an entire population under a certain age and collected with virtually no bias, the Newborn Screening Biobanks are of immense value in medical studies......, for example, to examine the genetics of various disorders. We have previously demonstrated that DNA extracted from a fraction (2×3.2mm discs) of an archived DBSS can be whole genome amplified (wgaDNA) and used for accurate array genotyping. However, until now, it has been uncertain whether wgaDNA from DBSS...... can be used for accurate whole genome sequencing (WGS) and exome sequencing (WES). This study examined two individuals represented by three different types of samples each: whole-blood (reference samples), 3-year-old DBSS spotted with reference material (refDBSS), and 27- to 29-year-old archived...

The Wismut biosample archive in the occupational medical research. Pathological and molecular epidemiological archive

International Nuclear Information System (INIS)

Bruening, Thomas; Johnen, Georg

2015-01-01

Worldwide only few biosample archives exist that focus on samples from employees with occupational exposures, especially radiation exposure. The Wismut biosample archive of former uranium miners is a valuable resource for the occupational medical research.

Revealing the Molecular Portrait of Triple Negative Breast Tumors in an Understudied Population through Omics Analysis of Formalin-Fixed and Paraffin-Embedded Tissues.

Science.gov (United States)

Vaca-Paniagua, Felipe; Alvarez-Gomez, Rosa María; Maldonado-Martínez, Hector Aquiles; Pérez-Plasencia, Carlos; Fragoso-Ontiveros, Veronica; Lasa-Gonsebatt, Federico; Herrera, Luis Alonso; Cantú, David; Bargallo-Rocha, Enrique; Mohar, Alejandro; Durand, Geoffroy; Forey, Nathalie; Voegele, Catherine; Vallée, Maxime; Le Calvez-Kelm, Florence; McKay, James; Ardin, Maude; Villar, Stéphanie; Zavadil, Jiri; Olivier, Magali

2015-01-01

Triple negative breast cancer (TNBC), defined by the lack of expression of the estrogen receptor, progesterone receptor and human epidermal receptor 2, is an aggressive form of breast cancer that is more prevalent in certain populations, in particular in low- and middle-income regions. The detailed molecular features of TNBC in these regions remain unexplored as samples are mostly accessible as formalin-fixed paraffin embedded (FFPE) archived tissues, a challenging material for advanced genomic and transcriptomic studies. Using dedicated reagents and analysis pipelines, we performed whole exome sequencing and miRNA and mRNA profiling of 12 FFPE tumor tissues collected from pathological archives in Mexico. Sequencing analyses of the tumor tissues and their blood pairs identified TP53 and RB1 genes as the most frequently mutated genes, with a somatic mutation load of 1.7 mutations/exome Mb on average. Transcriptional analyses revealed an overexpression of growth-promoting signals (EGFR, PDGFR, VEGF, PIK3CA, FOXM1), a repression of cell cycle control pathways (TP53, RB1), a deregulation of DNA-repair pathways, and alterations in epigenetic modifiers through miRNA:mRNA network de-regulation. The molecular programs identified were typical of those described in basal-like tumors in other populations. This work demonstrates the feasibility of using archived clinical samples for advanced integrated genomics analyses. It thus opens up opportunities for investigating molecular features of tumors from regions where only FFPE tissues are available, allowing retrospective studies on the search for treatment strategies or on the exploration of the geographic diversity of breast cancer.

Measurements of CO2 Mole Fractionand δ13C in Archived Air Samples from Cape Meares, Oregon (USA) 1977 - 1998

Science.gov (United States)

Clark, O.; Rice, A. L.

2017-12-01

Carbon dioxide (CO2) is the most abundant, anthropogenically forced greenhouse gas (GHG) in the global atmosphere. Emissions of CO2 account for approximately 75% of the world's total GHG emissions. Atmospheric concentrations of CO2 are higher now than they've been at any other time in the past 800,000 years. Currently, the global mean concentration exceeds 400 ppm. Today, global networks regularly monitor CO2 concentrations and isotopic composition (δ13C and δ18O). However, past data is sparse. Over 200 ambient air samples from Cape Meares, Oregon (45.5°N, 124.0°W), a coastal site in Western United States, were obtained by researchers at Oregon Institute of Science and Technology (OGI, now Oregon Health & Science University), between the years of 1977 and 1998 as part of a global monitoring program of six different sites in the polar, middle, and tropical latitudes of the Northern and Southern Hemispheres. Air liquefaction was used to compress approximately 1000L of air (STP) to 30bar, into 33L electropolished (SUMMA) stainless steel canisters. Select archived air samples from the original network are maintained at Portland State University (PSU) Department of Physics. These archived samples are a valuable look at changing atmospheric concentrations of CO2 and δ13C, which can contribute to a better understanding of changes in sources during this time. CO2 concentrations and δ13C of CO2 were measured at PSU, with a Picarro Cavity Ringdown Spectrometer, model G1101-i analytical system. This study presents the analytical methods used, calibration techniques, precision, and reproducibility. Measurements of select samples from the archive show rising CO2 concentrations and falling δ13C over the 1977 to 1998 period, compatible with previous observations and rising anthropogenic sources of CO2. The resulting data set was statistically analyzed in MATLAB. Results of preliminary seasonal and secular trends from the archive samples are presented.

Flow cytometric DNA ploidy analysis of ovarian granulosa cell tumors

NARCIS (Netherlands)

D. Chadha; C.J. Cornelisse; A. Schabert (A.)

1990-01-01

textabstractAbstract The nuclear DNA content of 50 ovarian tumors initially diagnosed as granulosa cell tumors was measured by flow cytometry using paraffin-embedded archival material. The follow-up period of the patients ranged from 4 months to 19 years. Thirty-eight tumors were diploid or

A Tumor-stroma Targeted Oncolytic Adenovirus Replicated in Human Ovary Cancer Samples and Inhibited Growth of Disseminated Solid Tumors in Mice

Science.gov (United States)

Lopez, M Veronica; Rivera, Angel A; Viale, Diego L; Benedetti, Lorena; Cuneo, Nicasio; Kimball, Kristopher J; Wang, Minghui; Douglas, Joanne T; Zhu, Zeng B; Bravo, Alicia I; Gidekel, Manuel; Alvarez, Ronald D; Curiel, David T; Podhajcer, Osvaldo L

2012-01-01

Targeting the tumor stroma in addition to the malignant cell compartment is of paramount importance to achieve complete tumor regression. In this work, we modified a previously designed tumor stroma-targeted conditionally replicative adenovirus (CRAd) based on the SPARC promoter by introducing a mutated E1A unable to bind pRB and pseudotyped with a chimeric Ad5/3 fiber (Ad F512v1), and assessed its replication/lytic capacity in ovary cancer in vitro and in vivo. AdF512v1 was able to replicate in fresh samples obtained from patients: (i) with primary human ovary cancer; (ii) that underwent neoadjuvant treatment; (iii) with metastatic disease. In addition, we show that four intraperitoneal (i.p.) injections of 5 × 1010 v.p. eliminated 50% of xenografted human ovary tumors disseminated in nude mice. Moreover, AdF512v1 replication in tumor models was enhanced 15–40-fold when the tumor contained a mix of malignant and SPARC-expressing stromal cells (fibroblasts and endothelial cells). Contrary to the wild-type virus, AdF512v1 was unable to replicate in normal human ovary samples while the wild-type virus can replicate. This study provides evidence on the lytic capacity of this CRAd and highlights the importance of targeting the stromal tissue in addition to the malignant cell compartment to achieve tumor regression. PMID:22948673

Validation of Marek's disease diagnosis and monitoring of Marek's disease vaccines from samples collected in FTA cards.

Science.gov (United States)

Cortes, Aneg L; Montiel, Enrique R; Gimeno, Isabel M

2009-12-01

The use of Flinders Technology Associates (FTA) filter cards to quantify Marek's disease virus (MDV) DNA for the diagnosis of Marek's disease (MD) and to monitor MD vaccines was evaluated. Samples of blood (43), solid tumors (14), and feather pulp (FP; 36) collected fresh and in FTA cards were analyzed. MDV DNA load was quantified by real-time PCR. Threshold cycle (Ct) ratios were calculated for each sample by dividing the Ct value of the internal control gene (glyceraldehyde-3-phosphate dehydrogenase) by the Ct value of the MDV gene. Statistically significant correlation (P FTA cards by using Pearson's correlation test. Load of serotype 1 MDV DNA was quantified in 24 FP, 14 solid tumor, and 43 blood samples. There was a statistically significant correlation between FP (r = 0.95), solid tumor (r = 0.94), and blood (r = 0.9) samples collected fresh and in FTA cards. Load of serotype 2 MDV DNA was quantified in 17 FP samples, and the correlation between samples collected fresh and in FTA cards was also statistically significant (Pearson's coefficient, r = 0.96); load of serotype 3 MDV DNA was quantified in 36 FP samples, and correlation between samples taken fresh and in FTA cards was also statistically significant (r = 0.84). MDV DNA samples extracted 3 days (t0) and 8 months after collection (t1) were used to evaluate the stability of MDV DNA in archived samples collected in FTA cards. A statistically significant correlation was found for serotype 1 (r = 0.96), serotype 2 (r = 1), and serotype 3 (r = 0.9). The results show that FTA cards are an excellent media to collect, transport, and archive samples for MD diagnosis and to monitor MD vaccines. In addition, FTA cards are widely available, inexpensive, and adequate for the shipment of samples nationally and internationally.

Rapid Surface Sampling and Archival Record (RSSAR) System. Topical report, October 1, 1993--December 31, 1994

International Nuclear Information System (INIS)

1997-01-01

This report describes the results of Phase 1 efforts to develop a Rapid Surface Sampling and Archival Record (RSSAR) System for the detection of semivolatile organic contaminants on concrete, transite, and metal surfaces. The characterization of equipment and building surfaces for the presence of contaminants as part of building decontamination and decommissioning activities is an immensely large tacks of concern to both government and industry. Contaminated and clean materials must be clearly identified and segregated so that the clean materials can be recycled or reused, if possible, or disposed of more cheaply as nonhazardous waste. Characterization of building and equipment surfaces will be needed during initial investigations, during cleanup operations, and during the final confirmatory process, increasing the total number of samples well beyond that needed for initial characterization. This multiplicity of information places a premium on the ability to handle and track data as efficiently as possible. Aware of the shortcomings of traditional surface characterization technology, GE, with DOE support has undertaken a 12-month effort to complete Phase 1 of a proposed four-phase program to develop the RSSAR system. The objectives of this work are to provide instrumentation to cost-effectively sample concrete and steel surfaces, provide a quick-look indication for the presence or absence of contaminants, and collect samples for later, more detailed analysis in a readily accessible and addressable form. The Rapid Surface Sampling and Archival Record (RSSAR) System will be a modular instrument made up of several components: (1) sampling heads for concrete surfaces, steel surfaces, and bulk samples; (2) quick-look detectors for photoionization and ultraviolet; (3) multisample trapping module to trap and store vaporized contaminants in a manner suitable for subsequent detailed lab-based analyses

The UK Biobank sample handling and storage protocol for the collection, processing and archiving of human blood and urine.

Science.gov (United States)

Elliott, Paul; Peakman, Tim C

2008-04-01

UK Biobank is a large prospective study in the UK to investigate the role of genetic factors, environmental exposures and lifestyle in the causes of major diseases of late and middle age. Extensive data and biological samples are being collected from 500,000 participants aged between 40 and 69 years. The biological samples that are collected and how they are processed and stored will have a major impact on the future scientific usefulness of the UK Biobank resource. The aim of the UK Biobank sample handling and storage protocol is to specify methods for the collection and storage of participant samples that give maximum scientific return within the available budget. Processing or storage methods that, as far as can be predicted, will preclude current or future assays have been avoided. The protocol was developed through a review of the literature on sample handling and processing, wide consultation within the academic community and peer review. Protocol development addressed which samples should be collected, how and when they should be processed and how the processed samples should be stored to ensure their long-term integrity. The recommended protocol was extensively tested in a series of validation studies. UK Biobank collects about 45 ml blood and 9 ml of urine with minimal local processing from each participant using the vacutainer system. A variety of preservatives, anti-coagulants and clot accelerators is used appropriate to the expected end use of the samples. Collection of other material (hair, nails, saliva and faeces) was also considered but rejected for the full cohort. Blood and urine samples from participants are transported overnight by commercial courier to a central laboratory where they are processed and aliquots of urine, plasma, serum, white cells and red cells stored in ultra-low temperature archives. Aliquots of whole blood are also stored for potential future production of immortalized cell lines. A standard panel of haematology assays is

Systematic bias in genomic classification due to contaminating non-neoplastic tissue in breast tumor samples.

Science.gov (United States)

Elloumi, Fathi; Hu, Zhiyuan; Li, Yan; Parker, Joel S; Gulley, Margaret L; Amos, Keith D; Troester, Melissa A

2011-06-30

Genomic tests are available to predict breast cancer recurrence and to guide clinical decision making. These predictors provide recurrence risk scores along with a measure of uncertainty, usually a confidence interval. The confidence interval conveys random error and not systematic bias. Standard tumor sampling methods make this problematic, as it is common to have a substantial proportion (typically 30-50%) of a tumor sample comprised of histologically benign tissue. This "normal" tissue could represent a source of non-random error or systematic bias in genomic classification. To assess the performance characteristics of genomic classification to systematic error from normal contamination, we collected 55 tumor samples and paired tumor-adjacent normal tissue. Using genomic signatures from the tumor and paired normal, we evaluated how increasing normal contamination altered recurrence risk scores for various genomic predictors. Simulations of normal tissue contamination caused misclassification of tumors in all predictors evaluated, but different breast cancer predictors showed different types of vulnerability to normal tissue bias. While two predictors had unpredictable direction of bias (either higher or lower risk of relapse resulted from normal contamination), one signature showed predictable direction of normal tissue effects. Due to this predictable direction of effect, this signature (the PAM50) was adjusted for normal tissue contamination and these corrections improved sensitivity and negative predictive value. For all three assays quality control standards and/or appropriate bias adjustment strategies can be used to improve assay reliability. Normal tissue sampled concurrently with tumor is an important source of bias in breast genomic predictors. All genomic predictors show some sensitivity to normal tissue contamination and ideal strategies for mitigating this bias vary depending upon the particular genes and computational methods used in the predictor.

Multispectral Imaging Analysis of Circulating Tumor Cells in Negatively Enriched Peripheral Blood Samples.

Science.gov (United States)

Miller, Brandon; Lustberg, Maryam; Summers, Thomas A; Chalmers, Jeffrey J

2017-01-01

A variety of biomarkers are present on cells in peripheral blood of patients with a variety of disorders, including solid tumor malignancies. While rare, characterization of these cells for specific protein levels with the advanced technology proposed, will lead to future validation studies of blood samples as "liquid biopsies" for the evaluation of disease status and therapeutic response. While circulating tumor cells (CTCs) have been isolated in the blood samples of patients with solid tumors, the exact role of CTCs as clinically useful predictive markers is still debated. Current commercial technology has significant bias in that a positive selection technology is used that preassumes specific cell surface markers (such as EpCAM) are present on CTCs. However, CTCs with low EpCAM expression have been experimentally demonstrated to be more likely to be missed by this method. In contrast, this application uses a previously developed, technology that performs a purely negative enrichment methodology on peripheral blood, yielding highly enriched blood samples that contain CTCs as well as other, undefined cell types. The focus of this contribution is the use of multispectral imaging of epifluorescent, microscopic images of these enriched cells in order to help develop clinically relevant liquid biopsies from peripheral blood samples.

Eosinophilia in routine blood samples as a biomarker for solid tumor development

DEFF Research Database (Denmark)

Andersen, Christen Bertel L; Siersma, V.D.; Hasselbalch, H.C.

2014-01-01

eosinophilia in routine blood samples as a potential biomarker of solid tumor development in a prospective design. MATERIAL AND METHODS: From the Copenhagen Primary Care Differential Count (CopDiff) Database, we identified 356 196 individuals with at least one differential cell count (DIFF) encompassing...... was increased with mild eosinophilia [OR 1.93 (CI 1.29-2.89), p = 0.0013]. No associations with eosinophilia were observed for the remaining solid cancers. CONCLUSION: We demonstrate that eosinophilia in routine blood samples associates with an increased risk of bladder cancer. Our data emphasize...... that additional preclinical studies are needed in order to shed further light on the role of eosinophils in carcinogenesis, where it is still unknown whether the cells contribute to tumor immune surveillance or neoplastic evolution....

Matched rabbit monoclonal antibodies against αv-series integrins reveal a novel αvβ3-LIBS epitope, and permit routine staining of archival paraffin samples of human tumors

Science.gov (United States)

Goodman, Simon L.; Grote, Hans Juergen; Wilm, Claudia

2012-01-01

Summary The relationship between integrin expression and function in pathologies is often contentious as comparisons between human pathological expression and expression in cell lines is difficult. In addition, the expression of even integrins αvβ6 and αvβ8 in tumor cell lines is not comprehensively documented. Here, we describe rabbit monoclonal antibodies (RabMabs) against the extracellular domains of αv integrins that react with both native integrins and formalin fixed, paraffin embedded (FFPE) human tissues. These RabMabs, against αvβ3 (EM22703), αvβ5 (EM09902), αvβ6 (EM05201), αvβ8 (EM13309), and pan-αv (EM01309), recognize individual integrin chains in Western blots and in flow cytometry. EM22703 detected a ligand-induced binding site (LIBS), reporting an epitope enhanced by the binding of an RGD-peptide to αvβ3. αvβ8 was rarely expressed in human tumor specimens, and weakly expressed in non-small-cell lung carcinoma (NSCLC). However, ovarian carcinoma cell lines expressed αvβ8, as did some melanoma cells, whereas U87MG glioma lacked αvβ8 expression. We observed an unexpected strong expression of αvβ6 in tumor samples of invasive ductal breast adenoma, colorectal carcinoma (CRC), and NSCLC. αvβ3 was strongly expressed in some invasive NSCLC cohorts. Interestingly, PC3 prostate cell and human prostate tumors did not express αvβ3. The RabMabs stained plasma membranes in FFPE-immunohistochemistry (IHC) samples of tumor cell lines from lung, ovary, colon, prostate, squamous cell carcinoma of head and neck (SCCHN), breast, and pancreas carcinomas. The RabMabs are unique tools for probing αv integrin biology, and suggest that especially αvβ6 and αvβ8 biologies still have much to reveal. PMID:23213423

Whole transcriptome sequencing enables discovery and analysis of viruses in archived primary central nervous system lymphomas.

Directory of Open Access Journals (Sweden)

Christopher DeBoever

Full Text Available Primary central nervous system lymphomas (PCNSL have a dramatically increased prevalence among persons living with AIDS and are known to be associated with human Epstein Barr virus (EBV infection. Previous work suggests that in some cases, co-infection with other viruses may be important for PCNSL pathogenesis. Viral transcription in tumor samples can be measured using next generation transcriptome sequencing. We demonstrate the ability of transcriptome sequencing to identify viruses, characterize viral expression, and identify viral variants by sequencing four archived AIDS-related PCNSL tissue samples and analyzing raw sequencing reads. EBV was detected in all four PCNSL samples and cytomegalovirus (CMV, JC polyomavirus (JCV, and HIV were also discovered, consistent with clinical diagnoses. CMV was found to express three long non-coding RNAs recently reported as expressed during active infection. Single nucleotide variants were observed in each of the viruses observed and three indels were found in CMV. No viruses were found in several control tumor types including 32 diffuse large B-cell lymphoma samples. This study demonstrates the ability of next generation transcriptome sequencing to accurately identify viruses, including DNA viruses, in solid human cancer tissue samples.

Archive of Samples for Long-Term Preservation of RNA and Other Nucleic Acids

Science.gov (United States)

2016-05-15

workflow can be developed for large scale blood collection , transport , and long-term archiving without the use of costly and unreliable cold chain...management, using commercially available biopreservation products. For the development of the automated workflow we have chosen Biomatrica’s commercially...This ambient workflow can be developed for large scale blood collection, transport and long-term nucleic acid archiving without the use of costly

Development of an inventory/archive program for the retention, management, and disposition of tank characterization samples at the 222-S laboratory

International Nuclear Information System (INIS)

Seidel, C.M.

1998-01-01

The Hanford Tank Waste Remediation Systems (TWRS) Characterization Program is responsible for coordinating the sampling and analysis of the 177 large underground storage tanks at the Hanford site. The 222-S laboratory has been the primary laboratory for chemical analysis of this highly-radioactive material and has been accumulating these samples for many years. As part of the Fiscal Year 1998 laboratory work scope, the 222-S laboratory has performed a formal physical inventory of all tank characterization samples which are currently being stored. In addition, an updated inventory/archive program has been designed. This program defines sample storage, retention, consolidation, maintenance, and disposition activities which will ensure that the sample integrity is preserved to the greatest practical extent. In addition, the new program provides for continued availability of waste material in a form which will be useful for future bench-scale studies. Finally, when the samples have exceeded their useful lifetime, the program provides for sample disposition from,the laboratory in a controlled, safe and environmentally compliant manner. The 222-S laboratory maintains custody over samples of tank waste material which have been shipped to the laboratory for chemical analysis. The storage of these samples currently requires an entire hotcell, fully dedicated to sample archive storage, and is rapidly encroaching on additional hotcell space. As additional samples are received, they are beginning to limit the 222-S laboratory hotcell utility for other activities such as sample extrusion and subsampling. The 222-S laboratory tracks the number of sample containers and the mass of each sample through an internal database which has recently been verified and updated via a physical inventory

Chroni - an Android Application for Geochronologists to Access Archived Sample Analyses from the NSF-Funded Geochron.Org Data Repository.

Science.gov (United States)

Nettles, J. J.; Bowring, J. F.

2014-12-01

NSF requires data management plans as part of funding proposals and geochronologists, among other scientists, are archiving their data and results to the public cloud archives managed by the NSF-funded Integrated Earth Data Applications, or IEDA. GeoChron is a database for geochronology housed within IEDA. The software application U-Pb_Redux developed at the Cyber Infrastructure Research and Development Lab for the Earth Sciences (CIRDLES.org) at the College of Charleston provides seamless connectivity to GeoChron for uranium-lead (U-Pb) geochronologists to automatically upload and retrieve their data and results. U-Pb_Redux also manages publication-quality documents including report tables and graphs. CHRONI is a lightweight mobile application for Android devices that provides easy access to these archived data and results. With CHRONI, U-Pb geochronologists can view archived data and analyses downloaded from the Geochron database, or any other location, in a customizable format. CHRONI uses the same extensible markup language (XML) schema and documents used by U-Pb_Redux and GeoChron. Report Settings are special XML files that can be customized in U-Pb_Redux, stored in the cloud, and then accessed and used in CHRONI to create the same customized data display on the mobile device. In addition to providing geologists effortless and mobile access to archived data and analyses, CHRONI allows users to manage their GeoChron credentials, quickly download private and public files via a specified IEDA International Geo Sample Number (IGSN) or URL, and view specialized graphics associated with particular IGSNs. Future versions of CHRONI will be developed to support iOS compatible devices. CHRONI is an open source project under the Apache 2 license and is hosted at https://github.com/CIRDLES/CHRONI. We encourage community participation in its continued development.

Treasures in Archived Histolopathology Collections: Preserving the Past for Future Understanding

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater mollusks, crustaceans, echinoderms, and other organisms are archived in the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency, NOAA’s National Marine Fishe...

Optimizing 4-Dimensional Magnetic Resonance Imaging Data Sampling for Respiratory Motion Analysis of Pancreatic Tumors

Energy Technology Data Exchange (ETDEWEB)

Stemkens, Bjorn, E-mail: b.stemkens@umcutrecht.nl [Department of Radiotherapy, University Medical Center Utrecht, Utrecht (Netherlands); Tijssen, Rob H.N. [Department of Radiotherapy, University Medical Center Utrecht, Utrecht (Netherlands); Senneville, Baudouin D. de [Imaging Division, University Medical Center Utrecht, Utrecht (Netherlands); L' Institut de Mathématiques de Bordeaux, Unité Mixte de Recherche 5251, Centre National de la Recherche Scientifique/University of Bordeaux, Bordeaux (France); Heerkens, Hanne D.; Vulpen, Marco van; Lagendijk, Jan J.W.; Berg, Cornelis A.T. van den [Department of Radiotherapy, University Medical Center Utrecht, Utrecht (Netherlands)

2015-03-01

Purpose: To determine the optimum sampling strategy for retrospective reconstruction of 4-dimensional (4D) MR data for nonrigid motion characterization of tumor and organs at risk for radiation therapy purposes. Methods and Materials: For optimization, we compared 2 surrogate signals (external respiratory bellows and internal MRI navigators) and 2 MR sampling strategies (Cartesian and radial) in terms of image quality and robustness. Using the optimized protocol, 6 pancreatic cancer patients were scanned to calculate the 4D motion. Region of interest analysis was performed to characterize the respiratory-induced motion of the tumor and organs at risk simultaneously. Results: The MRI navigator was found to be a more reliable surrogate for pancreatic motion than the respiratory bellows signal. Radial sampling is most benign for undersampling artifacts and intraview motion. Motion characterization revealed interorgan and interpatient variation, as well as heterogeneity within the tumor. Conclusions: A robust 4D-MRI method, based on clinically available protocols, is presented and successfully applied to characterize the abdominal motion in a small number of pancreatic cancer patients.

A HIGH FIDELITY SAMPLE OF COLD FRONT CLUSTERS FROM THE CHANDRA ARCHIVE

International Nuclear Information System (INIS)

Owers, Matt S.; Nulsen, Paul E. J.; Markevitch, Maxim; Couch, Warrick J.

2009-01-01

This paper presents a sample of 'cold front' clusters selected from the Chandra archive. The clusters are selected based purely on the existence of surface brightness edges in their Chandra images which are modeled as density jumps. A combination of the derived density and temperature jumps across the fronts is used to select nine robust examples of cold front clusters: 1ES0657 - 558, Abell 1201, Abell 1758N, MS1455.0+2232, Abell 2069, Abell 2142, Abell 2163, RXJ1720.1+2638, and Abell 3667. This sample is the subject of an ongoing study aimed at relating cold fronts to cluster merger activity, and understanding how the merging environment affects the cluster constituents. Here, temperature maps are presented along with the Chandra X-ray images. A dichotomy is found in the sample in that there exists a subsample of cold front clusters which are clearly mergers based on their X-ray morphologies, and a second subsample of clusters which harbor cold fronts, but have surprisingly relaxed X-ray morphologies, and minimal evidence for merger activity at other wavelengths. For this second subsample, the existence of a cold front provides the sole evidence for merger activity at X-ray wavelengths. We discuss how cold fronts can provide additional information which may be used to constrain merger histories, and also the possibility of using cold fronts to distinguish major and minor mergers.

Archival Descriptions from the National Archives Catalog

Data.gov (United States)

National Archives and Records Administration — Archival Descriptions from the National Archives Catalog data set provides archival descriptions of the permanent holdings of the federal government in the custody...

Cytogenetic and molecular-genetic aberrations in malignant primary bone tumors

International Nuclear Information System (INIS)

Zoubek, A.; Kovar, H.; Gadner, H.

1998-01-01

Osteosarcoma, chondrosarcoma and tumors of the Ewing group are the most frequently observed primary malignant bone tumors. In an Internet homepage recently constructed for the Orthopedic Hospital Rizzoli Bologna, Italy, these tumors have represented the majority of 4423 malignant bone tumors in the archives of this institution since 1920 (http://www.tizeta.it/rizzoli). Malignant fibrous histiocytoma, fibrosarcoma, hemangioendothelioma, malignant hemangiopericytoma and giant-cell tumors are diagnosed less frequently. Since the introduction of modern molecular and cytogenic techniques, knowledge of genetic aberrations in malginant bone tumors has steadily increased. However, so far only for the group of Ewing tumors has a recurrent chromosomal marker, the translocation t(11; 22)(q24; q12), been identified. (orig.) [de

Matrix Metalloproteinase-9/Neutrophil Gelatinase-Associated Lipocalin Complex Activity in Human Glioma Samples Predicts Tumor Presence and Clinical Prognosis

Directory of Open Access Journals (Sweden)

Ming-Fa Liu

2015-01-01

Full Text Available Matrix metalloproteinase-9/neutrophil gelatinase-associated lipocalin (MMP-9/NGAL complex activity is elevated in brain tumors and may serve as a molecular marker for brain tumors. However, the relationship between MMP-9/NGAL activity in brain tumors and patient prognosis and treatment response remains unclear. Here, we compared the clinical characteristics of glioma patients with the MMP-9/NGAL activity measured in their respective tumor and urine samples. Using gelatin zymography assays, we found that MMP-9/NGAL activity was significantly increased in tumor tissues (TT and preoperative urine samples (Preop-1d urine. Activity was reduced by seven days after surgery (Postop-1w urine and elevated again in cases of tumor recurrence. The MMP-9/NGAL status correlated well with MRI-based tumor assessments. These findings suggest that MMP-9/NGAL activity could be a novel marker to detect gliomas and predict the clinical outcome of patients.

Detection of a Hobi-like virus in archival samples suggests circulation of this emerging pestivirus species in Europe prior to 2007

Science.gov (United States)

The first reported incidence of Hobi-like viruses in Europe dates to a 2010 outbreak of respiratory disease in cattle in Italy. In this study, a Hobi-like virus was detected in archival samples, collected in 2007 in Italy from a cattle herd displaying respiratory disease, during the validation of a...

Tumor-associated macrophages: Oblivious confederates in invasive mammary carcinoma

Directory of Open Access Journals (Sweden)

Imtiaz Ahmed

2017-01-01

Full Text Available Background: The infiltrating margins of carcinomas are associated with presence of inflammatory cell infiltrate which are an integral part of the tumor microenvironment. Amongst the inflammatory cells, Tumor Associated Macrophages (TAMs play a key role in the tumorigenesis. This study elucidates the density of TAMs in invasive mammary carcinomas and attempts to establish aa association with the following pathological variables: tumor size, histological grade, nodal status, hormonal expression status and Her2Neu overexpression. Materials and Methods: 90 diagnosed archival cases of invasive mammary carcinomas at a tertiary care centre were included. Density of TAMs was assessed by using CD68 which is a pan-macrophage marker by immunohistochemistry on the archival tissue blocks. The density TAMs (CD68 positive cells was dichotomised into high (>50 CD68 positive cells/ HPF and low (<5050 CD68 positive cells/ HPF and compared with the above mentioned pathological variables using appropriate statistical tests. Results: The density of TAMs was significantly higher around the infiltrating edge of the carcinoma in comparison to the adjoining normal terminal duct lobular units. The density of TAMs was more in the infiltrating edge of the tumor than within the tumor nodule/nests. A higher TAM density showed a significant association in tumors having large tumor size, higher histological grade, nodal metastasis, absence of ER and PR expression and Her2Neu overexpression (p value <0.05. Conclusion: TAMs play an important role in tumor progression in invasive mammary carcinomas. This is as a result of the multiple roles enacted by TAMs in the various stages of tumor development starting from tumor growth, invasion, angiogenesis and metastases. Targeted therapy against TAMs has great potential in the being important components of future treatment strategies against breast carcinomas.

Rapid Surface Sampling and Archival Record (RSSAR) system. Final report, October 1995 - May 1997

International Nuclear Information System (INIS)

1998-01-01

This report describes the results of Phase 2 efforts to develop a Rapid Surface Sampling and Archival Record (RSSAR) System for the detection of semivolatile organic contaminants on concrete, transite, and metal surfaces. The characterization of equipment and building surfaces for the presence of contaminants as part of building decontamination and decommissioning activities is an immensely large task of concern to both government and industry. Because of the high cost of hazardous waste disposal, old, contaminated buildings cannot simply be demolished and scrapped. Contaminated and clean materials must be clearly identified and segregated so that the clean material can be recycled or reused, if possible, or disposed of more cheaply as nonhazardous waste. DOE has a number of sites requiring surface characterization. These sites are large, contain very heterogeneous patterns of contamination (requiring high sampling density), and will thus necessitate an enormous number of samples to be taken and analyzed. Characterization of building and equipment surfaces will be needed during initial investigations, during cleanup operations, and during the final confirmation process, increasing the total number of samples well beyond that needed for initial characterization. This multiplicity of information places a premium on the ability to handle and track data as efficiently as possible

Rapid Surface Sampling and Archival Record (RSSAR) system. Final report, October 1995--May 1997

Energy Technology Data Exchange (ETDEWEB)

NONE

1998-12-31

This report describes the results of Phase 2 efforts to develop a Rapid Surface Sampling and Archival Record (RSSAR) System for the detection of semivolatile organic contaminants on concrete, transite, and metal surfaces. The characterization of equipment and building surfaces for the presence of contaminants as part of building decontamination and decommissioning activities is an immensely large task of concern to both government and industry. Because of the high cost of hazardous waste disposal, old, contaminated buildings cannot simply be demolished and scrapped. Contaminated and clean materials must be clearly identified and segregated so that the clean material can be recycled or reused, if possible, or disposed of more cheaply as nonhazardous waste. DOE has a number of sites requiring surface characterization. These sites are large, contain very heterogeneous patterns of contamination (requiring high sampling density), and will thus necessitate an enormous number of samples to be taken and analyzed. Characterization of building and equipment surfaces will be needed during initial investigations, during cleanup operations, and during the final confirmation process, increasing the total number of samples well beyond that needed for initial characterization. This multiplicity of information places a premium on the ability to handle and track data as efficiently as possible.

Comparison of ESR1 Mutations in Tumor Tissue and Matched Plasma Samples from Metastatic Breast Cancer Patients

Directory of Open Access Journals (Sweden)

Takashi Takeshita

2017-10-01

Full Text Available BACKGROUND: ESR1 mutation in circulating cell-free DNA (cfDNA is emerging as a noninvasive biomarker of acquired resistance to endocrine therapy, but there is a paucity of data comparing the status of ESR1 gene in cfDNA with that in its corresponding tumor tissue. The objective of this study is to validate the degree of concordance of ESR1 mutations between plasma and tumor tissue. METHODS: ESR1 ligand-binding domain mutations Y537S, Y537N, Y537C, and D538G were analyzed using droplet digital PCR in 35 patients with metastatic breast cancer (MBC (35 tumor tissue samples and 67 plasma samples. RESULTS: Of the 35 paired samples, 26 (74.3% were concordant: one patient had detectable ESR1 mutations both plasma (ESR1 Y537S/Y537N and tumor tissue (ESR1 Y537S/Y537C, and 25 had WT ESR1 alleles in both. Nine (25.7% had discordance between the plasma and tissue results: five had mutations detected only in their tumor tissue (two Y537S, one Y537C, one D538G, and one Y537S/Y537N/D538G, and four had mutations detected only in their plasma (one Y537S, one Y537N, and two Y537S/Y537N/D538G. Furthermore, longitudinal plasma samples from 19 patients were used to assess changes in the presence of ESR1 mutations during treatment. Eleven patients had cfDNA ESR1 mutations over the course of treatment. A total of eight of 11 patients with MBC with cfDNA ESR1 mutations (72.7% had the polyclonal mutations. CONCLUSION: We have shown the independent distribution of ESR1 mutations between plasma and tumor tissue in 35 patients with MBC.

Treasures in Archived Histopathology Collections: Preserving the Past for Future Understanding.(SETAC)

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater mollusks, crustaceans, echinoderms, and other organisms are archived in the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency, NOAA’s National Marine Fisheri...

Treasures in Archived Histopathology Collections: Preserving the Past for Future Understanding (NACSETAC)

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater mollusks, crustaceans, echinoderms, and other organisms are archived in the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency, NOAA’s National Marine Fishe...

The Risk of Polychlorinated Biphenyls Facilitating Tumors in Hawaiian Green Sea Turtles (Chelonia mydas

Directory of Open Access Journals (Sweden)

Muting Yan

2018-06-01

Full Text Available The Hawaiian green turtle (Chelonia mydas is on the list of threatened species protected under the U.S. Endangered Species Act in 1978 in large part due to a severe tumor-forming disease named fibropapillomatosis. Chemical pollution is a prime suspect threatening the survival of C. mydas. In this study, PCBs concentrations were determined in 43 C. mydas plasma samples archived on Tern Island. The total PCBs concentration in male C. mydas (mean 1.10 ng/mL was two times more than that of females (mean 0.43 ng/mL. The relationship between straight carapace length and PCBs concentration in females has also been studied, which was negatively related. To figure out the possible existence of correlations between PCBs and tumor status, we measured the PCBs concentration in turtles with no tumor, moderate or severe tumor affliction. PCBs concentration of two afflicted groups was much higher than the healthy group, suggesting that PCBs may play a role in fibropapillomatosis in Hawaiian green turtle.

Success and failure rates of tumor genotyping techniques in routine pathological samples with non-small-cell lung cancer.

Science.gov (United States)

Vanderlaan, Paul A; Yamaguchi, Norihiro; Folch, Erik; Boucher, David H; Kent, Michael S; Gangadharan, Sidharta P; Majid, Adnan; Goldstein, Michael A; Huberman, Mark S; Kocher, Olivier N; Costa, Daniel B

2014-04-01

Identification of some somatic molecular alterations in non-small-cell lung cancer (NSCLC) has become evidence-based practice. The success and failure rate of using commercially available tumor genotyping techniques in routine day-to-day NSCLC pathology samples is not well described. We sought to evaluate the success and failure rate of EGFR mutation, KRAS mutation, and ALK FISH in a cohort of lung cancers subjected to routine clinical tumor genotype. Clinicopathologic data, tumor genotype success and failure rates were retrospectively compiled and analyzed from 381 patient-tumor samples. From these 381 patients with lung cancer, the mean age was 65 years, 61.2% were women, 75.9% were white, 27.8% were never smokers, 73.8% had advanced NSCLC and 86.1% had adenocarcinoma histology. The tumor tissue was obtained from surgical specimens in 48.8%, core needle biopsies in 17.9%, and as cell blocks from aspirates or fluid in 33.3% of cases. Anatomic sites for tissue collection included lung (49.3%), lymph nodes (22.3%), pleura (11.8%), bone (6.0%), brain (6.0%), among others. The overall success rate for EGFR mutation analysis was 94.2%, for KRAS mutation 91.6% and for ALK FISH 91.6%. The highest failure rates were observed when the tissue was obtained from image-guided percutaneous transthoracic core-needle biopsies (31.8%, 27.3%, and 35.3% for EGFR, KRAS, and ALK tests, respectively) and bone specimens (23.1%, 15.4%, and 23.1%, respectively). In specimens obtained from bone, the failure rates were significantly higher for biopsies than resection specimens (40% vs. 0%, p=0.024 for EGFR) and for decalcified compared to non-decalcified samples (60% vs. 5.5%, p=0.021 for EGFR). Tumor genotype techniques are feasible in most samples, outside small image-guided percutaneous transthoracic core-needle biopsies and bone samples from core biopsies with decalcification, and therefore expansion of routine tumor genotype into the care of patients with NSCLC may not require special

Quantitation of circulating tumor cells in blood samples from ovarian and prostate cancer patients using tumor-specific fluorescent ligands.

Science.gov (United States)

He, Wei; Kularatne, Sumith A; Kalli, Kimberly R; Prendergast, Franklyn G; Amato, Robert J; Klee, George G; Hartmann, Lynn C; Low, Philip S

2008-10-15

Quantitation of circulating tumor cells (CTCs) can provide information on the stage of a malignancy, onset of disease progression and response to therapy. In an effort to more accurately quantitate CTCs, we have synthesized fluorescent conjugates of 2 high-affinity tumor-specific ligands (folate-AlexaFluor 488 and DUPA-FITC) that bind tumor cells >20-fold more efficiently than fluorescent antibodies. Here we determine whether these tumor-specific dyes can be exploited for quantitation of CTCs in peripheral blood samples from cancer patients. A CTC-enriched fraction was isolated from the peripheral blood of ovarian and prostate cancer patients by an optimized density gradient centrifugation protocol and labeled with the aforementioned fluorescent ligands. CTCs were then quantitated by flow cytometry. CTCs were detected in 18 of 20 ovarian cancer patients (mean 222 CTCs/ml; median 15 CTCs/ml; maximum 3,118 CTCs/ml), whereas CTC numbers in 16 gender-matched normal volunteers were negligible (mean 0.4 CTCs/ml; median 0.3 CTCs/ml; maximum 1.5 CTCs/ml; p < 0.001, chi(2)). CTCs were also detected in 10 of 13 prostate cancer patients (mean 26 CTCs/ml, median 14 CTCs/ml, maximum 94 CTCs/ml) but not in 18 gender-matched healthy donors (mean 0.8 CTCs/ml, median 1, maximum 3 CTC/ml; p < 0.0026, chi(2)). Tumor-specific fluorescent antibodies were much less efficient in quantitating CTCs because of their lower CTC labeling efficiency. Use of tumor-specific fluorescent ligands to label CTCs in peripheral blood can provide a simple, accurate and sensitive method for determining the number of cancer cells circulating in the bloodstream.

Treasures in Archived Histopathology Collections: Preserving the Past for Future Understanding (Histologic)

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater fish, mollusks, crustaceans, echinoderms, and other organisms are archived at the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency (EPA), NOAA’s National Ma...

Tumores malignos de pálpebra Malignant eyelid tumors

Directory of Open Access Journals (Sweden)

Luis Henrique Schneider Soares

2001-08-01

Full Text Available Objetivos: Estudar a incidência de tumores malignos de pálpebra no Hospital Banco de Olhos de Porto Alegre. Métodos: Estudo retrospectivo dos casos de tumores malignos de pálpebra no período de 1985 a 1997, que tiveram diagnóstico confirmado por exame anátomopatológico. Resultados: Foram encontradas 54 neoplasias malignas, sendo 75,92% carcinoma basocelular, 12,96% carcinoma espinocelular, 7,40% melanoma e 1,85% lentigo maligna. A maioria dos pacientes apresentava mais de 40 anos e não houve prevalência de sexo. Conclusões: O tumor de pálpebra mais freqüente em nosso meio foi o carcinoma basocelular, seguido do carcinoma espinocelular. O melanoma foi o terceiro em freqüência mais encontrado em nossa pesquisa.Purposes: To study the incidence of eyelid malignant tumors in the Banco de Olhos Hospital of Porto Alegre from 1985 to 1997. Methods: We retrospectivelly analyzed clinical archives and in this study all cases of malignant eyelid tumors with histopathologic examination were included. Results: We found 54 eyelid tumors: 75.92% basal cell, 12.96% squamous cell, 7.40% melanoma, 1.85% undifferentiated carcinoma and 1.85% lentigo maligna. The majority of the patients was over 40 years old, 50% were male and 50% female. The diagnosis was confirmed in all cases through histopathologic examination. Conclusions: Basal cell carcinoma was the most frequent eyelid malignancy followed by squamous cell carcinoma. Melanoma was the third most frequently found tumor in our study.

Collecting and Storing Blood and Brain Tumor Tissue Samples From Children With Brain Tumors

Science.gov (United States)

2017-12-11

Childhood Atypical Teratoid/Rhabdoid Tumor; Childhood Central Nervous System Germ Cell Tumor; Childhood Choroid Plexus Tumor; Childhood Craniopharyngioma; Childhood Grade I Meningioma; Childhood Grade II Meningioma; Childhood Grade III Meningioma; Childhood High-grade Cerebral Astrocytoma; Childhood Infratentorial Ependymoma; Childhood Low-grade Cerebral Astrocytoma; Childhood Oligodendroglioma; Childhood Supratentorial Ependymoma; Newly Diagnosed Childhood Ependymoma; Recurrent Childhood Cerebellar Astrocytoma; Recurrent Childhood Cerebral Astrocytoma; Recurrent Childhood Ependymoma; Recurrent Childhood Medulloblastoma; Recurrent Childhood Supratentorial Primitive Neuroectodermal Tumor; Recurrent Childhood Visual Pathway and Hypothalamic Glioma; Recurrent Childhood Visual Pathway Glioma

Treasures in Archived Histopathology Collections: Preserving the Past for Future Understanding (IMCC09)

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater fish, mollusks, crustaceans, echinoderms, and other organisms are archived in the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency, NOAA’s National Marine...

Increasing Access to Archival Records in Library Online Public Access Catalogs.

Science.gov (United States)

Gilmore, Matthew B.

1988-01-01

Looks at the use of online public access catalogs, the utility of subject and call-number searching, and possible archival applications. The Wallace Archives at the Claremont Colleges is used as an example of the availability of bibliographic descriptions of multiformat archival materials through the library catalog. Sample records and searches…

Archival approaches in the work of Paul Otlet

Directory of Open Access Journals (Sweden)

Leomar José Montilla Peña

2015-02-01

Full Text Available We present a bibliometric study of the Treaty of Documentation of Paul Otlet where the goal was to analyze approaches the archival area registered on it. For this study, used the descriptive words method and the associated words method. We applied a longitudinal statistical sampling for periods 1898 to 1933, because he published the first three scientists manuals the classical Archives. The results revealed that there is a total of 10 references related to the archives, the author being Otlet else mentioned, it has more citations and references on this area. The topics most frequently used by Otlet on archival science for discursive reasoning were: methods of organization and administrative documents. The analysis finds that archival approaches registered in the Treaty of Documentation have centrality and low density.

Web archives

DEFF Research Database (Denmark)

Finnemann, Niels Ole

2018-01-01

This article deals with general web archives and the principles for selection of materials to be preserved. It opens with a brief overview of reasons why general web archives are needed. Section two and three present major, long termed web archive initiatives and discuss the purposes and possible...... values of web archives and asks how to meet unknown future needs, demands and concerns. Section four analyses three main principles in contemporary web archiving strategies, topic centric, domain centric and time-centric archiving strategies and section five discuss how to combine these to provide...... a broad and rich archive. Section six is concerned with inherent limitations and why web archives are always flawed. The last sections deal with the question how web archives may fit into the rapidly expanding, but fragmented landscape of digital repositories taking care of various parts...

A novel SNP analysis method to detect copy number alterations with an unbiased reference signal directly from tumor samples

Directory of Open Access Journals (Sweden)

LaFramboise William A

2011-01-01

Full Text Available Abstract Background Genomic instability in cancer leads to abnormal genome copy number alterations (CNA as a mechanism underlying tumorigenesis. Using microarrays and other technologies, tumor CNA are detected by comparing tumor sample CN to normal reference sample CN. While advances in microarray technology have improved detection of copy number alterations, the increase in the number of measured signals, noise from array probes, variations in signal-to-noise ratio across batches and disparity across laboratories leads to significant limitations for the accurate identification of CNA regions when comparing tumor and normal samples. Methods To address these limitations, we designed a novel "Virtual Normal" algorithm (VN, which allowed for construction of an unbiased reference signal directly from test samples within an experiment using any publicly available normal reference set as a baseline thus eliminating the need for an in-lab normal reference set. Results The algorithm was tested using an optimal, paired tumor/normal data set as well as previously uncharacterized pediatric malignant gliomas for which a normal reference set was not available. Using Affymetrix 250K Sty microarrays, we demonstrated improved signal-to-noise ratio and detected significant copy number alterations using the VN algorithm that were validated by independent PCR analysis of the target CNA regions. Conclusions We developed and validated an algorithm to provide a virtual normal reference signal directly from tumor samples and minimize noise in the derivation of the raw CN signal. The algorithm reduces the variability of assays performed across different reagent and array batches, methods of sample preservation, multiple personnel, and among different laboratories. This approach may be valuable when matched normal samples are unavailable or the paired normal specimens have been subjected to variations in methods of preservation.

Treasures in Archived Histopathology Collections: Preserving the Past for Future Understanding (ISAAH-6)

Science.gov (United States)

Extensive collections of histopathology materials from studies of marine and freshwater fish, mollusks, crustaceans, echinoderms, and other organisms are archived in the Registry of Tumors in Lower Animals (RTLA), the U.S. Environmental Protection Agency, NOAA’s National Marine F...

Deciphering the Correlation between Breast Tumor Samples and Cell Lines by Integrating Copy Number Changes and Gene Expression Profiles

Directory of Open Access Journals (Sweden)

Yi Sun

2015-01-01

Full Text Available Breast cancer is one of the most common cancers with high incident rate and high mortality rate worldwide. Although different breast cancer cell lines were widely used in laboratory investigations, accumulated evidences have indicated that genomic differences exist between cancer cell lines and tissue samples in the past decades. The abundant molecular profiles of cancer cell lines and tumor samples deposited in the Cancer Cell Line Encyclopedia and The Cancer Genome Atlas now allow a systematical comparison of the breast cancer cell lines with breast tumors. We depicted the genomic characteristics of breast primary tumors based on the copy number variation and gene expression profiles and the breast cancer cell lines were compared to different subgroups of breast tumors. We identified that some of the breast cancer cell lines show high correlation with the tumor group that agrees with previous knowledge, while a big part of them do not, including the most used MCF7, MDA-MB-231, and T-47D. We presented a computational framework to identify cell lines that mostly resemble a certain tumor group for the breast tumor study. Our investigation presents a useful guide to bridge the gap between cell lines and tumors and helps to select the most suitable cell line models for personalized cancer studies.

Multimodal Raman-fluorescence spectroscopy of formalin fixed samples is able to discriminate brain tumors from dysplastic tissue

Science.gov (United States)

Anand, Suresh; Cicchi, Riccardo; Giordano, Flavio; Buccoliero, Anna Maria; Pavone, Francesco Saverio

2014-05-01

In the recent years, there has been a considerable surge in the application of spectroscopy for disease diagnosis. Raman and fluorescence spectra provide characteristic spectral profile related to biochemical and morphological changes when tissues progress from normal state towards malignancy. Spectroscopic techniques offer the advantage of being minimally invasive compared to traditional histopathology, real time and quantitative. In biomedical optical diagnostics, freshly excised specimens are preferred for making ex-vivo spectroscopic measurements. With regard to fresh tissues, if the lab is located far away from the clinic it could pose a problem as spectral measurements have to be performed immediately after dissection. Tissue samples are usually placed in a fixative agent such as 4% formaldehyde to preserve the samples before processing them for routine histopathological studies. Fixation prevents the tissues from decomposition by arresting autolysis. In the present study, we intend to investigate the possibility of using formalin fixed samples for discrimination of brain tumours from dysplastic tissue using Raman and fluorescence spectroscopy. Formalin fixed samples were washed with phosphate buffered saline for about 5 minutes in order to remove the effects of formalin during spectroscopic measurements. In case of fluorescence spectroscopy, changes in spectral profile have been observed in the region between 550-670 nm between dysplastic and tumor samples. For Raman measurements, we found significant differences in the spectral profiles between dysplasia and tumor. In conclusion, formalin fixed samples can be potentially used for the spectroscopic discrimination of tumor against dysplastic tissue in brain samples.

Mutational status of synchronous and metachronous tumor samples in patients with metastatic non-small-cell lung cancer

International Nuclear Information System (INIS)

Quéré, Gilles; Descourt, Renaud; Robinet, Gilles; Autret, Sandrine; Raguenes, Odile; Fercot, Brigitte; Alemany, Pierre; Uguen, Arnaud; Férec, Claude; Quintin-Roué, Isabelle; Le Gac, Gérald

2016-01-01

Despite reported discordance between the mutational status of primary lung cancers and their metastases, metastatic sites are rarely biopsied and targeted therapy is guided by genetic biomarkers detected in the primary tumor. This situation is mostly explained by the apparent stability of EGFR-activating mutations. Given the dramatic increase in the range of candidate drugs and high rates of drug resistance, rebiopsy or liquid biopsy may become widespread. The purpose of this study was to test genetic biomarkers used in clinical practice (EGFR, ALK) and candidate biomarkers identified by the French National Cancer Institute (KRAS, BRAF, PIK3CA, HER2) in patients with metastatic non-small-cell lung cancer for whom two tumor samples were available. A retrospective study identified 88 tumor samples collected synchronously or metachronously, from the same or two different sites, in 44 patients. Mutation analysis used SNaPshot (EGFR, KRAS, BRAF missense mutations), pyrosequencing (EGFR and PIK3CA missense mutations), sizing assays (EGFR and HER2 indels) and IHC and/or FISH (ALK rearrangements). About half the patients (52 %) harbored at least one mutation. Five patients had an activating mutation of EGFR in both the primary tumor and the metastasis. The T790M resistance mutation was detected in metastases in 3 patients with acquired resistance to EGFR tyrosine kinase inhibitors. FISH showed discordance in ALK status between a small biopsy sample and the surgical specimen. KRAS mutations were observed in 36 % of samples, six patients (14 %) having discordant genotypes; all discordances concerned sampling from different sites. Two patients (5 %) showed PI3KCA mutations. One metastasis harbored both PI3KCA and KRAS mutations, while the synchronously sampled primary tumor was mutation free. No mutations were detected in BRAF and HER2. This study highlighted noteworthy intra-individual discordance in KRAS mutational status, whereas EGFR status was stable. Intratumoral

Sequential enzymatic derivatization coupled with online microdialysis sampling for simultaneous profiling of mouse tumor extracellular hydrogen peroxide, lactate, and glucose.

Science.gov (United States)

Su, Cheng-Kuan; Tseng, Po-Jen; Chiu, Hsien-Ting; Del Vall, Andrea; Huang, Yu-Fen; Sun, Yuh-Chang

2017-03-01

Probing tumor extracellular metabolites is a vitally important issue in current cancer biology. In this study an analytical system was constructed for the in vivo monitoring of mouse tumor extracellular hydrogen peroxide (H 2 O 2 ), lactate, and glucose by means of microdialysis (MD) sampling and fluorescence determination in conjunction with a smart sequential enzymatic derivatization scheme-involving a loading sequence of fluorogenic reagent/horseradish peroxidase, microdialysate, lactate oxidase, pyruvate, and glucose oxidase-for step-by-step determination of sampled H 2 O 2 , lactate, and glucose in mouse tumor microdialysate. After optimization of the overall experimental parameters, the system's detection limit reached as low as 0.002 mM for H 2 O 2 , 0.058 mM for lactate, and 0.055 mM for glucose, based on 3 μL of microdialysate, suggesting great potential for determining tumor extracellular concentrations of lactate and glucose. Spike analyses of offline-collected mouse tumor microdialysate and monitoring of the basal concentrations of mouse tumor extracellular H 2 O 2 , lactate, and glucose, as well as those after imparting metabolic disturbance through intra-tumor administration of a glucose solution through a prior-implanted cannula, were conducted to demonstrate the system's applicability. Our results evidently indicate that hyphenation of an MD sampling device with an optimized sequential enzymatic derivatization scheme and a fluorescence spectrometer can be used successfully for multi-analyte monitoring of tumor extracellular metabolites in living animals. Copyright © 2016 Elsevier B.V. All rights reserved.

Development and Application of a Microfluidics-Based Panel in the Basal/Luminal Transcriptional Characterization of Archival Bladder Cancers.

Directory of Open Access Journals (Sweden)

Doris Kim

Full Text Available In the age of personalized medicine stratifying tumors into molecularly defined subtypes associated with distinctive clinical behaviors and predictable responses to therapies holds tremendous value. Towards this end, we developed a custom microfluidics-based bladder cancer gene expression panel for characterization of archival clinical samples. In silico analysis indicated that the content of our panel was capable of accurately segregating bladder cancers from several public datasets into the clinically relevant basal and luminal subtypes. On a technical level, our bladder cancer panel yielded robust and reproducible results when analyzing formalin-fixed, paraffin-embedded (FFPE tissues. We applied our panel in the analysis of a novel set of 204 FFPE samples that included non-muscle invasive bladder cancers (NMIBCs, muscle invasive disease (MIBCs, and bladder cancer metastases (METs. We found NMIBCs to be mostly luminal-like, MIBCs to include both luminal- and basal-like types, and METs to be predominantly of a basal-like transcriptional profile. Mutational analysis confirmed the expected enrichment of FGFR3 mutations in luminal samples, and, consistently, FGFR3 IHC showed high protein expression levels of the receptor in these tumors. Our bladder cancer panel enables basal/luminal characterization of FFPE tissues and with further development could be used for stratification of bladder cancer samples in the clinic.

Overexpression of prostate tumor overexpressed 1 correlates with tumor progression and predicts poor prognosis in breast cancer

International Nuclear Information System (INIS)

Lei, Fangyong; Zhang, Longjuan; Li, Xinghua; Lin, Xi; Wu, Shu; Li, Fengyan; Liu, Junling

2014-01-01

Prostate tumor overexpressed 1 (PTOV1) was demonstrated to play an important role in cancer progression and was correlated with unfavorable clinical outcome. However, the clinical role of PTOV1 in cancer remains largely unknown. This study aimed to investigate the expression and clinicopathological significance of PTOV1 in breast cancer. The mRNA and protein expression levels of PTOV1 were analyzed in 12 breast cancer cell lines and eight paired breast cancer tumors by semi-quantitative real time-PCR and western blotting, respectively. Immunohistochemistry was performed to assess PTOV1 protein expression in 169 paraffin-embedded, archived breast cancer samples. Survival analysis and Cox regression analysis were performed to investigate the clinicopathological significance of PTOV1 expression. Our data revealed that PTOV1 was frequently overexpressed in breast cancer cell lines compared to normal human breast epithelial cells and in primary breast cancer samples compared to adjacent noncancerous breast tissues, at both the mRNA and protein levels. Moreover, high expression of PTOV1 in breast cancer is strongly associated with clinicopathological characteristics and estrogen receptor expression status (P = 0.003). Breast cancer patients with higher PTOV1 expression had substantially shorter survival times than patients with lower PTOV1 expression (P < 0.001). Univariate and multivariate analysis revealed that PTOV1 might be an independent prognostic factor for breast cancer patients (P = 0.005). Our study showed that PTOV1 is upregulated in breast cancer cell lines and clinical samples, and its expression was positively associated with progression and aggressiveness of breast cancer, suggesting that PTOV1 could serve as an independent prognostic marker

Genetic Sample Inventory

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This database archives genetic tissue samples from marine mammals collected primarily from the U.S. east coast. The collection includes samples from field programs,...

Investigating intra-tumor heterogeneity and expression gradients of miR-21, miR-92a and miR-200c and their potential of predicting lymph node metastases in early colorectal cancer

DEFF Research Database (Denmark)

Jepsen, Rikke Karlin; Novotny, Guy Wayne; Klarskov, Louise Laurberg

2016-01-01

Introduction miR-21, miR-92a and miR-200c are regulators of pathways involved in migration, intravasation and metastasis, and their tumor expression levels have been proposed as potential prognostic markers in colorectal cancer (CRC). In two parallel cohorts we examine intra-tumor expression levels...... in early stage CRC tissue in order to determine intra-tumor heterogeneity, potential systematic intra-tumor expression gradients of the miRNAs and to investigate the association to metastatic disease in early stage CRC. Material and methods Two parallel studies on archived formalin-fixed paraffin......-embedded (FFPE) CRC tissue. Intra-tumor and inter-patient variances were analyzed in 9 early metastatic CRCs by measuring expression levels by qRT-PCR on isolated tissue samples from luminal, central and invasive border zones. Associations between miRNA expression levels and early metastasizing tumors...

Sample Curation in Support of the OSIRIS-REx Asteroid Sample Return Mission

Science.gov (United States)

Righter, Kevin; Nakamura-Messenger, Keiko

2017-01-01

The OSIRIS-REx asteroid sample return mission launched to asteroid Bennu Sept. 8, 2016. The spacecraft will arrive at Bennu in late 2019, orbit and map the asteroid, and perform a touch and go (TAG) sampling maneuver in July 2020. After sample is stowed and confirmed the spacecraft will return to Earth, and the sample return capsule (SRC) will land in Utah in September 2023. Samples will be recovered from Utah [2] and then transported and stored in a new sample cleanroom at NASA Johnson Space Center in Houston [3]. The materials curated for the mission are described here. a) Materials Archive and Witness Plate Collection: The SRC and TAGSAM were built between March 2014 and Summer of 2015, and instruments (OTES,OVIRS, OLA, OCAMS, REXIS) were integrated from Summer 2015 until May 2016. A total of 395 items were received for the materials archive at NASA-JSC, with archiving finishing 30 days after launch (with the final archived items being related to launch operations)[4]. The materials fall into several general categories including metals (stainless steel, aluminum, titanium alloys, brass and BeCu alloy), epoxies, paints, polymers, lubricants, non-volatile-residue samples (NVR), sapphire, and various miscellaneous materials. All through the ATLO process (from March 2015 until late August 2016) contamination knowledge witness plates (Si wafer and Al foil) were deployed in the various cleanrooms in Denver and KSC to provide an additional record of particle counts and volatiles that is archived for current and future scientific studies. These plates were deployed in roughly monthly increments with each unit containing 4 Si wafers and 4 Al foils. We archived 128 individual witness plates (64 Si wafers and 64 Al foils); one of each witness plate (Si and Al) was analyzed immediately by the science team after archiving, while the remaining 3 of each are archived indefinitely. Information about each material archived is stored in an extensive database at NASA-JSC, and key

Pathway Relevance Ranking for Tumor Samples through Network-Based Data Integration.

Directory of Open Access Journals (Sweden)

Lieven P C Verbeke

Full Text Available The study of cancer, a highly heterogeneous disease with different causes and clinical outcomes, requires a multi-angle approach and the collection of large multi-omics datasets that, ideally, should be analyzed simultaneously. We present a new pathway relevance ranking method that is able to prioritize pathways according to the information contained in any combination of tumor related omics datasets. Key to the method is the conversion of all available data into a single comprehensive network representation containing not only genes but also individual patient samples. Additionally, all data are linked through a network of previously identified molecular interactions. We demonstrate the performance of the new method by applying it to breast and ovarian cancer datasets from The Cancer Genome Atlas. By integrating gene expression, copy number, mutation and methylation data, the method's potential to identify key pathways involved in breast cancer development shared by different molecular subtypes is illustrated. Interestingly, certain pathways were ranked equally important for different subtypes, even when the underlying (epi-genetic disturbances were diverse. Next to prioritizing universally high-scoring pathways, the pathway ranking method was able to identify subtype-specific pathways. Often the score of a pathway could not be motivated by a single mutation, copy number or methylation alteration, but rather by a combination of genetic and epi-genetic disturbances, stressing the need for a network-based data integration approach. The analysis of ovarian tumors, as a function of survival-based subtypes, demonstrated the method's ability to correctly identify key pathways, irrespective of tumor subtype. A differential analysis of survival-based subtypes revealed several pathways with higher importance for the bad-outcome patient group than for the good-outcome patient group. Many of the pathways exhibiting higher importance for the bad

The GIK-Archive of sediment core radiographs with documentation

Science.gov (United States)

Grobe, Hannes; Winn, Kyaw; Werner, Friedrich; Driemel, Amelie; Schumacher, Stefanie; Sieger, Rainer

2017-12-01

The GIK-Archive of radiographs is a collection of X-ray negative and photographic images of sediment cores based on exposures taken since the early 1960s. During four decades of marine geological work at the University of Kiel, Germany, several thousand hours of sampling, careful preparation and X-raying were spent on producing a unique archive of sediment radiographs from several parts of the World Ocean. The archive consists of more than 18 500 exposures on chemical film that were digitized, geo-referenced, supplemented with metadata and archived in the data library PANGAEA®. With this publication, the images have become available open-access for use by the scientific community at https://doi.org/10.1594/PANGAEA.854841.

Optimisation and validation of methods to assess single nucleotide polymorphisms (SNPs) in archival histological material

DEFF Research Database (Denmark)

Andreassen, C N; Sørensen, Flemming Brandt; Overgaard

2004-01-01

only archival specimens are available. This study was conducted to validate protocols optimised for assessment of SNPs based on paraffin embedded, formalin fixed tissue samples.PATIENTS AND METHODS: In 137 breast cancer patients, three TGFB1 SNPs were assessed based on archival histological specimens...... precipitation).RESULTS: Assessment of SNPs based on archival histological material is encumbered by a number of obstacles and pitfalls. However, these can be widely overcome by careful optimisation of the methods used for sample selection, DNA extraction and PCR. Within 130 samples that fulfil the criteria...

The Materiality of Method: The Case of the Mass Observation Archive

OpenAIRE

Liz Moor; Emma Uprichard

2014-01-01

The Mass Observation Archive presents numerous methodological issues for social researchers. The data are idiosyncratic, difficult to analyze, and the sample design is nonsystematic. Such issues seriously challenge conventional social research protocols. This article highlights a further characteristic of the archive: its unwieldy materiality. Focusing on the sensory experiences of the archive and its particular type of data, the article shows how the experience of getting ‘dirty with dataâ...

Main - RPSD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ... as rice. Data file File name: rpsd_main_sjis.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rpsd/LATEST/r.../ftp.biosciencedbc.jp/archive/rpsd/LATEST/rpsd_main_utf8.zip File size: 120 KB Simple search URL http://togo...nse Update History of This Database Site Policy | Contact Us Main - RPSD | LSDB Archive ...

Protocol - RPD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...e version) File URL: ftp://ftp.biosciencedbc.jp/archive/rpd/LATEST/rpd_protocol_jp.zip File size: 535 KB Fil...e name: rpd_protocol_en.zip (English version) File URL: ftp://ftp.biosciencedbc.jp/archiv...tabase Database Description Download License Update History of This Database Site Policy | Contact Us Protocol - RPD | LSDB Archive ...

Archive & Data Management Activities for ISRO Science Archives

Science.gov (United States)

Thakkar, Navita; Moorthi, Manthira; Gopala Krishna, Barla; Prashar, Ajay; Srinivasan, T. P.

2012-07-01

ISRO has kept a step ahead by extending remote sensing missions to planetary and astronomical exploration. It has started with Chandrayaan-1 and successfully completed the moon imaging during its life time in the orbit. Now, in future ISRO is planning to launch Chandrayaan-2 (next moon mission), Mars Mission and Astronomical mission ASTROSAT. All these missions are characterized by the need to receive process, archive and disseminate the acquired science data to the user community for analysis and scientific use. All these science missions will last for a few months to a few years but the data received are required to be archived, interoperable and requires a seamless access to the user community for the future. ISRO has laid out definite plans to archive these data sets in specified standards and develop relevant access tools to be able to serve the user community. To achieve this goal, a Data Center is set up at Bangalore called Indian Space Science Data Center (ISSDC). This is the custodian of all the data sets of the current and future science missions of ISRO . Chandrayaan-1 is the first among the planetary missions launched/to be launched by ISRO and we had taken the challenge and developed a system for data archival and dissemination of the payload data received. For Chandrayaan-1 the data collected from all the instruments are processed and is archived in the archive layer in the Planetary Data System (PDS 3.0) standards, through the automated pipeline. But the dataset once stored is of no use unless it is made public, which requires a Web-based dissemination system that can be accessible to all the planetary scientists/data users working in this field. Towards this, a Web- based Browse and Dissemination system has been developed, wherein users can register and search for their area of Interest and view the data archived for TMC & HYSI with relevant Browse chips and Metadata of the data. Users can also order the data and get it on their desktop in the PDS

The Self-Organized Archive: SPASE, PDS and Archive Cooperatives

Science.gov (United States)

King, T. A.; Hughes, J. S.; Roberts, D. A.; Walker, R. J.; Joy, S. P.

2005-05-01

Information systems with high quality metadata enable uses and services which often go beyond the original purpose. There are two types of metadata: annotations which are items that comment on or describe the content of a resource and identification attributes which describe the external properties of the resource itself. For example, annotations may indicate which columns are present in a table of data, whereas an identification attribute would indicate source of the table, such as the observatory, instrument, organization, and data type. When the identification attributes are collected and used as the basis of a search engine, a user can constrain on an attribute, the archive can then self-organize around the constraint, presenting the user with a particular view of the archive. In an archive cooperative where each participating data system or archive may have its own metadata standards, providing a multi-system search engine requires that individual archive metadata be mapped to a broad based standard. To explore how cooperative archives can form a larger self-organized archive we will show how the Space Physics Archive Search and Extract (SPASE) data model will allow different systems to create a cooperative and will use Planetary Data System (PDS) plus existing space physics activities as a demonstration.

Genetic Sample Inventory - NRDA

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This database archives genetic tissue samples from marine mammals collected in the North-Central Gulf of Mexico from 2010-2015. The collection includes samples from...

A biological survey on the Ottoman Archive papers and determination of the D10 value

Science.gov (United States)

Kantoğlu, Ömer; Ergun, Ece; Ozmen, Dilan; Halkman, Hilal B. D.

2018-03-01

The Ottoman Archives have one of the richest archive collections in the world. However, not all the archived documents are well preserved and some undergo biodeterioration. Therefore, a rapid and promising treatment method is necessary to preserve the collection for following generations as heritage. Radiation presents as an alternative for the treatment of archival materials for this purpose. In this study, we conducted a survey to determine the contamination species and the D10 values of the samples obtained from the shelves of the Ottoman Archives. The samples also included several insect pests collected at using a pheromone trap placed in the archive storage room. With the exception of few localized problems, no active pest presence was observed. The D10 values of mold contamination and reference mold (A. niger) were found to be 1.0 and 0.68 kGy, respectively. Based on these results, it can be concluded that an absorbed dose of 6 kGy is required to remove the contamination from the materials stored in the Ottoman Archives.

Images - RPSD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ta file File name: rpsd_images.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rpsd/LATEST/rpsd_images.zip ... History of This Database Site Policy | Contact Us Images - RPSD | LSDB Archive ...

Main - PLACE | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ilable. Data file File name: place_main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/place/LATEST/place_...se Update History of This Database Site Policy | Contact Us Main - PLACE | LSDB Archive ...

Calorimeter Process Variable Archiving

International Nuclear Information System (INIS)

Huffman, David

2002-01-01

These steps were taken to maintain weekly archives: (1) Friday morning you stop the archiver and wait for it to finish writing data (the lock file will be removed from the directory); (2) move the current archive information to a PC via FTP; (3) remove all previous archive information in the previous directory; (4) move the current archive into the previous directory; (5) start a new archive; (6) burn a CDROM of the archive; and (7) copy the current archive to a specific directory. There are 2 ways to check if the Calorimeter Archiver is running, either through the WEB based front end or directly from a command line. Once the archiver is running it can be monitored from a WEB page. This only works with a browser launched from the online machine running the archiver. Each time the browser is reloaded there should be an update reported in the last write check field. You might have to wait a few minutes to see the update. Calorimetry currently takes readings every (300 sec.) 5 minutes. The second method to verify the archiver is running is to issue a command from a Linux cluster machine.

Analyzing Archival Intelligence: A Collaboration Between Library Instruction and Archives

Directory of Open Access Journals (Sweden)

Merinda Kaye Hensley

2014-07-01

Full Text Available Although recent archival scholarship promotes the use of primary sources for developing students’ analytical research skills, few studies focus on standards or protocols for teaching or assessing archival instruction. Librarians have designed and tested standards and learning assessment strategies for library instruction and archivists would do well to collaborate with and learn from their experience. This study examines lessons learned from one such collaboration between an instructional services librarian and archivist to evaluate and enhance archival instruction in the University Archives’ Student Life and Culture Archival Program (SLC Archives at the University of Illinois at Urbana-Champaign Library. Based on evaluative data from a student survey and in-depth interviews, the authors offer strategies for meeting and exceeding learning outcomes for archival intelligence more successfully.

Analysis of silver stained nucleolar organizing regions in odontogenic cysts and tumors.

Science.gov (United States)

Prasanna, Md; Charan, Cr; Reddy Ealla, Kranti Kiran; Surekha, V; Kulkarni, Ganesh; Gokavarapu, Sandhya

2014-09-01

The present study aimed to investigate the probable differences in cell proliferation index of odontogenic cysts and tumors by means of a comparative silver stained nucleolar organizing region (AgNOR) quantification. This descriptive cross-sectional study was done on archival paraffin blocks (n = 62), consisting of 10 odontogenic keratocysts, 10 dentigerous cysts, 10 radicular cysts, 10 conventional ameloblastomas, 10 adenomatoid odontogenic tumors, 10 calcifying epithelial odontogenic tumors and 2 ameloblasic carcinomas. The mean AgNOR count of odontogenic cysts was 1.709 and the benign odontogenic tumors was 1.862. Highest AgNOR count was recorded in odontogenic keratocyst and lowest was seen in radicular cyst. Statistically significant difference in AgNOR counts of ameloblastoma and adenomatoid odontogenic tumor, amelobalastoma and calcifying epithelial odontogenic tumor, benign odontogenic tumors and ameloblastic carcinoma were seen. AgNORs in ameloblastic carcinoma were more in number and more widely spread. AgNOR technique may be considered a good indicator of cell proliferation in odontogenic cysts and tumors.

Coupling meteorology, metal concentrations, and Pb isotopes for source attribution in archived precipitation samples.

Science.gov (United States)

Graney, Joseph R; Landis, Matthew S

2013-03-15

A technique that couples lead (Pb) isotopes and multi-element concentrations with meteorological analysis was used to assess source contributions to precipitation samples at the Bondville, Illinois USA National Trends Network (NTN) site. Precipitation samples collected over a 16month period (July 1994-October 1995) at Bondville were parsed into six unique meteorological flow regimes using a minimum variance clustering technique on back trajectory endpoints. Pb isotope ratios and multi-element concentrations were measured using high resolution inductively coupled plasma-sector field mass spectrometry (ICP-SFMS) on the archived precipitation samples. Bondville is located in central Illinois, ~250km downwind from smelters in southeast Missouri. The Mississippi Valley Type ore deposits in Missouri provided a unique multi-element and Pb isotope fingerprint for smelter emissions which could be contrasted to industrial emissions from the Chicago and Indianapolis urban areas (~125km north and east, of Bondville respectively) and regional emissions from electric utility facilities. Differences in Pb isotopes and element concentrations in precipitation corresponded to flow regime. Industrial sources from urban areas, and thorogenic Pb from coal use, could be differentiated from smelter emissions from Missouri by coupling Pb isotopes with variations in element ratios and relative mass factors. Using a three endmember mixing model based on Pb isotope ratio differences, industrial processes in urban airsheds contributed 56±19%, smelters in southeast Missouri 26±13%, and coal combustion 18±7%, of the Pb in precipitation collected in Bondville in the mid-1990s. Copyright © 2012 Elsevier B.V. All rights reserved.

Archives and the computer

CERN Document Server

Cook, Michael Garnet

1986-01-01

Archives and the Computer deals with the use of the computer and its systems and programs in archiving data and other related materials. The book covers topics such as the scope of automated systems in archives; systems for records management, archival description, and retrieval; and machine-readable archives. The selection also features examples of archives from different institutions such as the University of Liverpool, Berkshire County Record Office, and the National Maritime Museum.The text is recommended for archivists who would like to know more about the use of computers in archiving of

Archives and the computer

CERN Document Server

Cook, Michael Garnet

1980-01-01

Archives and the Computer deals with the use of the computer and its systems and programs in archiving data and other related materials. The book covers topics such as the scope of automated systems in archives; systems for records management, archival description, and retrieval; and machine-readable archives. The book also features examples of systems for records management from different institutions such as theTyne and Wear Archive Department, Dyfed Record Office, and the University of Liverpool. Included in the last part are appendices. Appendix A is a directory of archival systems, Appen

Main - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ntents List of datasets Data file File name: kome_main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome...ase Database Description Download License Update History of This Database Site Policy | Contact Us Main - KOME | LSDB Archive ...

Reference - PLACE | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ailable. Data file File name: place_reference.zip File URL: ftp://ftp.biosciencedbc.jp/archive/place/LATEST/...ber About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Reference - PLACE | LSDB Archive ...

Detection of tumor-associated cells in cryopreserved peripheral blood mononuclear cell samples for retrospective analysis.

Science.gov (United States)

Zhu, Peixuan; Stanton, Melissa L; Castle, Erik P; Joseph, Richard W; Adams, Daniel L; Li, Shuhong; Amstutz, Platte; Tang, Cha-Mei; Ho, Thai H

2016-07-02

Cryopreserved peripheral blood mononuclear cells (PBMCs) are commonly collected in biobanks. However, little data exist regarding the preservation of tumor-associated cells in cryopreserved collections. The objective of this study was to determine the feasibility of using the CellSieve™ microfiltration assay for the isolation of circulating tumor cells (CTCs) and circulating cancer-associated macrophage-like cells (CAMLs) from cryopreserved PBMC samples. Blood samples spiked with breast (MCF-7), prostate (PC-3), and renal (786-O) cancer cell lines were used to establish analytical accuracy, efficiency, and reproducibility after cryopreservation. The spiked samples were processed through Ficoll separation, and cryopreservation was followed by thawing and microfiltration. MCF-7 cells were successfully retrieved with recovery efficiencies of 90.5 % without cryopreservation and 87.8 and 89.0 %, respectively, on day 7 and day 66 following cryopreservation. The corresponding recovery efficiencies of PC-3 cells were 83.3 % without cryopreservation and 85.3 and 84.7 %, respectively, after cryopreservation. Recovery efficiencies of 786-O cells were 92.7 % without cryopreservation, and 82.7 and 81.3 %, respectively, after cryopreservation. The recovered cells retained the morphologic characteristics and immunohistochemical markers that had been observed before freezing. The protocols were further validated by quantitation of CAMLs in blood samples from two patients with renal cell carcinoma (RCC). The recovery rates of CTCs and CAMLs from cryopreserved samples were not statistically significant different (P > 0.05) from matched fresh samples. To our knowledge, this is the first report that CAMLs could be cryopreserved and analyzed after thawing with microfiltration technology. The application of microfiltration technology to cryopreserved samples will enable much greater retrospective study of cancer patients in relation to long-term outcomes.

Alignment - SAHG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...e URL: ftp://ftp.biosciencedbc.jp/archive/sahg/LATEST/sahg_alignment.zip File size: 12.0 MB Simple search UR...s Database Database Description Download License Update History of This Database Site Policy | Contact Us Alignment - SAHG | LSDB Archive ...

Exon - ASTRA | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ontents Exons in variants Data file File name: astra_exon.zip File URL: ftp://ftp.biosciencedbc.jp/archive/a... About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Exon - ASTRA | LSDB Archive ...

Access to Archives at the National Archives of Namibia ...

African Journals Online (AJOL)

This article is based on findings of a study of the National Archives of Namibia conducted in 2015. The study investigated the terms and conditions that guide access at the National Archives of Namibia. The study also investigated how the National Archives of Namibia has conformed to the ICA Code of Ethics and The ...

Ewing's sarcoma of bone tumor cells produces MCSF that stimulates monocyte proliferation in a novel mouse model of Ewing's sarcoma of bone.

Science.gov (United States)

Margulies, B S; DeBoyace, S D; Damron, T A; Allen, M J

2015-10-01

Ewing's sarcoma of bone is a primary childhood malignancy of bone that is treated with X-radiation therapy in combination with surgical excision and chemotherapy. To better study Ewing's sarcoma of bone we developed a novel model of primary Ewing's sarcoma of bone and then treated animals with X-radiation therapy. We identified that uncontrolled tumor resulted in lytic bone destruction while X-radiation therapy decreased lytic bone destruction and increased limb-length asymmetry, a common, crippling complication of X-radiation therapy. Osteoclasts were indentified adjacent to the tumor, however, we were unable to detect RANK-ligand in the Ewing's tumor cells in vitro, which lead us to investigate alternate mechanisms for osteoclast formation. Ewing's sarcoma tumor cells and archival Ewing's sarcoma of bone tumor biopsy samples were shown to express MCSF, which could promote osteoclast formation. Increased monocyte numbers were detected in peripheral blood and spleen in animals with untreated Ewing's sarcoma tumor while monocyte number in animals treated with x-radiation had normal numbers of monocytes. Our data suggest that our Ewing's sarcoma of bone model will be useful in the study Ewing's sarcoma tumor progression in parallel with the effects of chemotherapy and X-radiation therapy. Copyright © 2015 Elsevier Inc. All rights reserved.

Ewing's Sarcoma of Bone Tumor Cells Produce MCSF that Stimulates Monocyte Proliferation in a Novel Mouse Model of Ewing's Sarcoma of Bone

Science.gov (United States)

Margulies, BS; DeBoyace, SD; Damron, TA; Allen, MJ

2015-01-01

Ewing's sarcoma of bone is a primary childhood malignancy of bone that is treated with X-radiation therapy in combination with surgical excision and chemotherapy. To better study Ewing's sarcoma of bone we developed a novel model of primary Ewing's sarcoma of bone and then treated animals with X-radiation therapy. We identified that uncontrolled tumor resulted in lytic bone destruction while X-radiation therapy decreased lytic bone destruction and increased limb-length asymmetry, a common, crippling complication of X-radiation therapy. Osteoclasts were indentified adjacent to the tumor, however, we were unable to detect RANK-ligand in the Ewing's tumor cells in vitro, which lead us to investigate alternate mechanisms for osteoclast formation. Ewing's sarcoma tumor cells and archival Ewing's sarcoma of bone tumor biopsy samples were shown to express MCSF, which could promote osteoclast formation. Increased monocyte numbers were detected in peripheral blood and spleen in animals with untreated Ewing's sarcoma tumor while monocyte number in animals treated with x-radiation had normal numbers of monocytes. Our data suggest that our Ewing's sarcoma of bone model will be useful in the study Ewing's sarcoma tumor progression in parallel with the effects of chemotherapy and X-radiation therapy. PMID:26051470

A novel method for sample preparation of fresh lung cancer tissue for proteomics analysis by tumor cell enrichment and removal of blood contaminants

Directory of Open Access Journals (Sweden)

Orre Lotta

2010-02-01

Full Text Available Abstract Background In-depth proteomics analyses of tumors are frequently biased by the presence of blood components and stromal contamination, which leads to large experimental variation and decreases the proteome coverage. We have established a reproducible method to prepare freshly collected lung tumors for proteomics analysis, aiming at tumor cell enrichment and reduction of plasma protein contamination. We obtained enriched tumor-cell suspensions (ETS from six lung cancer cases (two adenocarcinomas, two squamous-cell carcinomas, two large-cell carcinomas and from two normal lung samples. The cell content of resulting ETS was evaluated with immunocytological stainings and compared with the histologic pattern of the original specimens. By means of a quantitative mass spectrometry-based method we evaluated the reproducibility of the sample preparation protocol and we assessed the proteome coverage by comparing lysates from ETS samples with the direct lysate of corresponding fresh-frozen samples. Results Cytological analyses on cytospin specimens showed that the percentage of tumoral cells in the ETS samples ranged from 20% to 70%. In the normal lung samples the percentage of epithelial cells was less then 10%. The reproducibility of the sample preparation protocol was very good, with coefficient of variation at the peptide level and at the protein level of 13% and 7%, respectively. Proteomics analysis led to the identification of a significantly higher number of proteins in the ETS samples than in the FF samples (244 vs 109, respectively. Albumin and hemoglobin were among the top 5 most abundant proteins identified in the FF samples, showing a high contamination with blood and plasma proteins, whereas ubiquitin and the mitochondrial ATP synthase 5A1 where among the top 5 most abundant proteins in the ETS samples. Conclusion The method is feasible and reproducible. We could obtain a fair enrichment of cells but the major benefit of the method

Locus - ASTRA | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...URL: ftp://ftp.biosciencedbc.jp/archive/astra/LATEST/astra_locus.zip File size: 887 KB Simple search URL htt...icing type (ex. cassette) About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Locus - ASTRA | LSDB Archive ...

Sample (S) - Metabolonote | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available the company name and catalog id. Preparation Growing methods, conditions, particular processing, sampling... portions, sampling methods, and preparation methods for reagents Comment Comment An

Protein - TP Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...p_atlas_protein.zip File URL: ftp://ftp.biosciencedbc.jp/archive/tp_atlas/LATEST/...story of This Database Site Policy | Contact Us Protein - TP Atlas | LSDB Archive ...

HyperArchiver: an EPICS archiver prototype based on Hypertable

International Nuclear Information System (INIS)

Giacchini, M.; Giovannini, L.; Montis, M.; Bassato, G.; Vasquez, J.A.; Prete, G.; Andrighetto, A.; Petkus, R.; Lange, R.; Kasemir, K.; Del Campo, M.; Jugo, J.

2012-01-01

This work started in the context of NSLS2 project at Brookhaven National Laboratory. The NSLS2 control system foresees a very high number of PV variables and has strict requirements in terms of archiving/retrieving rate: our goal was to store 10 K PV/sec and retrieve 4 K PV/sec for a group of 4 signals. The HyperArchiver is an EPICS Archiver implementation engined by Hypertable, an open source database whose internal architecture is derived from Google's Big Table. We discuss the performance of HyperArchiver and present the results of some comparative tests. (authors)

Solubility - eSOL | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ta file File name: esol.zip File URL: ftp://ftp.biosciencedbc.jp/archive/esol/LAT... License Update History of This Database Site Policy | Contact Us Solubility - eSOL | LSDB Archive ...

Halogenated organic compounds in archived whale oil: A pre-industrial record

International Nuclear Information System (INIS)

Teuten, Emma L.; Reddy, Christopher M.

2007-01-01

To provide additional evidence that several halogenated organic compounds (HOCs) found in environmental samples are natural and not industrially produced, we analyzed an archived whale oil sample collected in 1921 from the last voyage of the whaling ship Charles W. Morgan. This sample, which pre-dates large-scale industrial manufacture of HOCs, contained two methoxylated polybrominated diphenyl ethers (MeO-PBDEs), five halogenated methyl bipyrroles (MBPs), one halogenated dimethyl bipyrrole (DMBP), and tentatively one dimethoxylated polybrominated biphenyl (diMeO-PBB). This result indicates, at least in part, a natural source of the latter compounds. - Nine halogenated organic compounds have been detected in archived whale oil from the early 1920s

Halogenated organic compounds in archived whale oil: A pre-industrial record

Energy Technology Data Exchange (ETDEWEB)

Teuten, Emma L. [Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, 360 Woods Hole Road, Woods Hole, MA 02543 (United States)]. E-mail: emma.teuten@plymouth.ac.uk; Reddy, Christopher M. [Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, 360 Woods Hole Road, Woods Hole, MA 02543 (United States)]. E-mail: creddy@whoi.edu

2007-02-15

To provide additional evidence that several halogenated organic compounds (HOCs) found in environmental samples are natural and not industrially produced, we analyzed an archived whale oil sample collected in 1921 from the last voyage of the whaling ship Charles W. Morgan. This sample, which pre-dates large-scale industrial manufacture of HOCs, contained two methoxylated polybrominated diphenyl ethers (MeO-PBDEs), five halogenated methyl bipyrroles (MBPs), one halogenated dimethyl bipyrrole (DMBP), and tentatively one dimethoxylated polybrominated biphenyl (diMeO-PBB). This result indicates, at least in part, a natural source of the latter compounds. - Nine halogenated organic compounds have been detected in archived whale oil from the early 1920s.

Seabird tissue archival and monitoring project: Protocol for collecting and banking seabird eggs

Science.gov (United States)

Weston-York, Geoff; Porter, Barbara J.; Pugh, Rebecca S.; Roseneau, David G.; Simac, Kristin S.; Becker, Paul R.; Thorsteinson, Lyman K.; Wise, Stephen A.

2001-01-01

Archiving biological and environmental samples for retrospective analysis is a major component of systematic environmental monitoring. The long-term storage of carefully selected, representative samples in an environmental specimen bank is an important complement to the real-time monitoring of the environment. These archived samples permit:The use of subsequently developed innovative analytical technology that was not available at the time the samples were archived, for clear state-of-art identification an~ quantification of analytes of interest,The identification and quantification of analytes that are of subsequent interest but that were not of interest at the time the samples were archived, andThe comparison of present and past analytical techniques and values, providing continued credibility of past analytical values, and allowing flexibility in environmental monitoring programs.Seabirds, including albatrosses, pelicans, cormorants, terns, kittiwakes, murres, guillemots, and puffins spend most of their lives at sea and have special adaptations for feeding in the marine environment, including the ability to excrete the excess salt obtained from ingesting seawater. Many species nest in dense groups (colonies) on steep, precipitous sea-cliffs and headlands.Seabirds are long-lived and slow to mature. They occupy high positions in the marine food web and are considered sensitive indicators for the marine environment (prey includes krill, small fish, and squid). Breeding success, timing of nesting, diets, and survival rates may provide early indications of changing environmental conditions (e.g., see Hatch et aI., 1993). Chemical analysis of seabird tissues, including egg contents, can be particularly useful in determining whether contaminants (and potential biological effects) associated with human industrial activities, such as offshore petroleum and mineral exploration and development, are accumulating in marine environments. The collection and archival of seabird

Bioanalysis of a panel of neurotransmitters and their metabolites in plasma samples obtained from pediatric patients with neuroblastoma and Wilms' tumor.

Science.gov (United States)

Konieczna, Lucyna; Roszkowska, Anna; Stachowicz-Stencel, Teresa; Synakiewicz, Anna; Bączek, Tomasz

2018-02-01

This paper details the quantitative analysis of neurotransmitters, including dopamine (DA), norepinephrine (NE), epinephrine (E), and serotonin (5-HT), along with their respective precursors and metabolites in children with solid tumors: Wilms' tumor (WT) and neuroblastoma (NB). A panel of neurotransmitters was determined with the use of dispersive liquid-liquid microextraction (DLLME) technique combined with liquid-chromatography mass spectrometry (LC-MS/MS) in plasma samples obtained from a group of pediatric subjects with solid tumors and a control group of healthy children. Next, statistical univariate analysis (t-test) and multivariate analysis (Principal Component Analysis) were performed using chromatographic data. The levels of tyrosine (Tyr) and tryptophan (Trp) (the precursors of analyzed neurotransmitters) as well as 3,4-dihydroxyphenylacetic acid (DOPAC) (a product of metabolism of DA) were significantly higher in the plasma samples obtained from pediatric patients with WT than in the samples taken from the control group. Moreover, statistically significant differences were observed between the levels of 5-HT and homovanillic acid (HVA) in the plasma samples from pediatric patients with solid tumors and the control group. However, elevated levels of these analytes did not facilitate a clear distinction between pediatric patients with WT and those with NB. Nonetheless, the application of advanced statistical tools allowed the healthy controls to be differentiated from the pediatric oncological patients. The identification and quantification of a panel of neurotransmitters as potential prognostic factors in selected childhood malignancies may provide clinically relevant information about ongoing metabolic alterations, and it could potentially serve as an adjunctive strategy in the effective diagnosis and treatment of solid tumors in children. Copyright © 2017 Elsevier B.V. All rights reserved.

Open archive solutions to traditional archive/library cooperation

Directory of Open Access Journals (Sweden)

Donatella Castelli

2003-09-01

Full Text Available The diffusion of Internet is changing the role of archives and libraries and it is opening a wide range of new possibilities. The new vision is that in few years it will be possible to cross-access multiple libraries, archives, museums, and data repositories. The implementation of this revolutionary vision requires the solution of a number of technical, organizational, sociological, and economical issues. Recently, the proposal of a new, low cost technical solution for open repositories of pre-print material, the Open Archives Initiative Protocol for Metadata Harvesting ( OAI-PMH, has greatly stimulated the discussion about these issues in many application frameworks. This paper overviews the status of this discussion in the library and conventional archives frameworks.

Main - TP Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...me: tp_atlas_en.zip File URL: ftp://ftp.biosciencedbc.jp/archive/tp_atlas/LATEST/...d License Update History of This Database Site Policy | Contact Us Main - TP Atlas | LSDB Archive ...

Main - AT Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ... name: at_atlas_en.zip File URL: ftp://ftp.biosciencedbc.jp/archive/at_atlas/LATE... Database Description Download License Update History of This Database Site Policy | Contact Us Main - AT Atlas | LSDB Archive ...

Flat Files - JSNP | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ... Data file File name: jsnp_flat_files File URL: ftp://ftp.biosciencedbc.jp/archiv...his Database Database Description Download License Update History of This Database Site Policy | Contact Us Flat Files - JSNP | LSDB Archive ...

OPS index - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...listed. Data file File name: kome_ops_index.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kom...e History of This Database Site Policy | Contact Us OPS index - KOME | LSDB Archive ...

Clone - ClEST | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...le URL: ftp://ftp.biosciencedbc.jp/archive/clest/LATEST/clest_clone.zip File size: 660 KB Simple search URL ...ion Download License Update History of This Database Site Policy | Contact Us Clone - ClEST | LSDB Archive ...

Image files - RPD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ftp://ftp.biosciencedbc.jp/archive/rpd/LATEST/rpd_gel_image.zip File size: 38.5 MB Simple search URL - Data ... License Update History of This Database Site Policy | Contact Us Image files - RPD | LSDB Archive ...

Protein - AT Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ..._protein.zip File URL: ftp://ftp.biosciencedbc.jp/archive/at_atlas/LATEST/at_atla...About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Protein - AT Atlas | LSDB Archive ...

Cluster - ClEST | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...e File name: clest_cluster.zip File URL: ftp://ftp.biosciencedbc.jp/archive/clest/LATEST/clest_cluster.zip F...ownload License Update History of This Database Site Policy | Contact Us Cluster - ClEST | LSDB Archive ...

Researchers’ Attitudes and Behaviour to Data Archiving Policies and Practice is Typified by Low Awareness and Little Planning. A Review of: Perry, Carol Marie. “Archiving of Publicly Funded Research Data: A Survey of Canadian Researchers.” Government Information Quarterly 25 (2008: 133-48.

Directory of Open Access Journals (Sweden)

Gaby Haddow

2008-12-01

Full Text Available Objective – To assess researchers’ attitudes and behaviours in relation to archiving research data and to determine researchers’views about policies relating to data archiving.Design – Survey.Setting – Canadian universities.Subjects – Social sciences and humanities researchers from universities across Canada.Methods – A questionnaire comprising 15 questions was mailed to 175 researchers randomly sampled from a publicly available list of 5,821 individuals who had received grants and awards from the Social Sciences and Humanities Research Council of Canada (SSHRC. From this sample, 75 (43.4% responded within the five week time-frame stipulated. The questionnaire was constructed using four existing surveys and asked researchers for information about: geographical location, years of research experience, research funding sources, current plans to archive research data, awareness of archiving policies, attitude to mandated research data archiving, effect of mandatory data archiving policies on grant-seeking, attitude to making archived research data accessible, and use of research data collected by others. The questionnaire also included space for respondents to make comments. Responses to each question were analyzed, followed by a series of cross-analyses to investigate associations between findings. These cross-analyses include: whether attitudes to making data accessible differed according to length of experience, support for a national archive initiative, or agreement with a mandatory policy; and whether plans to archive research data were associated with awareness of policy, agreement with mandatory policy, or funding from government agencies other than SSHRC. Some cross-analyses were conducted between responses to questions and the comments provided by respondents. Most of the questionnaire responses were analyzed as percentages in two categories only. For example, length of service responses were presented as “up to 20years�

Gel table - RPD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...d_main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rpd/LATEST/rpd_main.zip File size: 1 KB Simple searc...iption Download License Update History of This Database Site Policy | Contact Us Gel table - RPD | LSDB Archive ...

tRNA - RMG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...File URL: ftp://ftp.biosciencedbc.jp/archive/rmg/LATEST/rmg_trna.zip File size: 1 KB Simple search URL http:...ption Download License Update History of This Database Site Policy | Contact Us tRNA - RMG | LSDB Archive ...

Enhancers - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...d phase2.0 Data file File name: Enhancers File URL: ftp://ftp.biosciencedbc.jp/archive/fantom...load License Update History of This Database Site Policy | Contact Us Enhancers - FANTOM5 | LSDB Archive ...

Sample information - RED | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available type C : Control sample T : Target sample treatment Keyword Treatment keyword Physiology1 Physiological con...Cultivar Tissue stage detail Details of tissue stage stage Keyword Developmental stage other stage Keyword... Other developmental stage tissue Keyword Collected organ other tissue Keyword Othe

All 5' EST - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...n of data contents 5' EST sequences Data file File name: CSV: kome_est_5end_all.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...fasta.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_est_5end_...se Description Download License Update History of This Database Site Policy | Contact Us All 5' EST - KOME | LSDB Archive ...

All 3' EST - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...n of data contents 3' EST sequences Data file File name: CSV: kome_est_3end_all.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...fasta.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_est_3end_...se Description Download License Update History of This Database Site Policy | Contact Us All 3' EST - KOME | LSDB Archive ...

About Libraries - AcEST | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ormat text file. Data file File name: acest_library.zip File URL: ftp://ftp.biosciencedbc.jp/archive/acest/L...ATEST/acest_library.zip File size: 2KB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/archiv...s Database Database Description Download License Update History of This Database Site Policy | Contact Us About Libraries - AcEST | LSDB Archive ...

The Dora Lange Archive

DEFF Research Database (Denmark)

Holm, Isak Winkel; Bjering, Jens Christian Borrebye

2016-01-01

The first season of Nic Pizzolatto's True Detective (2014) is not only a show about a murder, but also a show about how to gather and organize information in an archive. Having identified two archival problems—its temporal and topical extension—the article turns to Jacques Derrida's Archive Fever......: a Freudian Impression in order to explain how the archiving problems of the crime investigation are, in fact, intrinsic to any archiving practice. Lastly, the article addresses the political significance of the show's archiving problems by help of Derrida's text on the American Constitution and of Hardt...

Free radicals induced archive paper by irradiation

International Nuclear Information System (INIS)

Cutrubinis, M.; Moise, I.V.; Negut, C.D.; Georgescu, R.; Suvaila, R.; Virgolici, M.; Manea, M.M.

2011-01-01

Complete text of publication follows. Irradiation of archive paper (document archives of institutions, companies etc. and library or museum collections of books and documents) can solve the problems related to the bio-deterioration and bio-contamination of paper and sometimes save valuable cultural heritage paper items. For valuable paper items care should be taken to the degradation induced instantly by the ionising radiation to the cellulosic support and also to the long term post-irradiation effects. The free radicals formed due to the irradiation treatment could contribute to instant degradation of paper. Part of them are also trapped for months and years after irradiation and they could be related to the post-irradiation effects in paper items. In this study, different sorts of cellulosic support samples (soft wood and hard wood cellulose, contemporary paper, paper from archives and from collections etc.) have been irradiated with dosis up to 100 kGy and the radiation induced free radicals have been measured by ESR spectrometry. The ESR signals have shown the type and quantity of radiation induced free radicals. Their study can be used for a realistic estimation of the degradative effect of the ionising radiation treatment of archive paper.

Main data - RMG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ftp://ftp.biosciencedbc.jp/archive/rmg/LATEST/rmg_main.zip File size: 1 KB Simple search URL http://togodb.b... This Database Database Description Download License Update History of This Database Site Policy | Contact Us Main data - RMG | LSDB Archive ...

PREIMS - AT Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...Targeted Proteins Research Program (TPRP). Data file File name: at_atlas_preims.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...base Database Description Download License Update History of This Database Site Policy | Contact Us PREIMS - AT Atlas | LSDB Archive ...

EST data - RED | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...st.zip File URL: ftp://ftp.biosciencedbc.jp/archive/red/LATEST/red_est.zip File size: 629 KB Simple search U...ase Database Description Download License Update History of This Database Site Policy | Contact Us EST data - RED | LSDB Archive ...

ORF information - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ... File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_orf_infomation.zip File size: 526 KB Simple s...ut This Database Database Description Download License Update History of This Database Site Policy | Contact Us ORF information - KOME | LSDB Archive ...

Mapping data - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...tional Rice Genome Sequencing Project (IRGSP) Data file File name: kome_mapping_data.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...(Transcriptional Unit) About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Mapping data - KOME | LSDB Archive ...

Spot table - RPD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...d_spot.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rpd/LATEST/rpd_spot.zip F... cDNA. (multiple entries) About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Spot table - RPD | LSDB Archive ...

Characterizing spatiotemporal information loss in sparse-sampling-based dynamic MRI for monitoring respiration-induced tumor motion in radiotherapy

Energy Technology Data Exchange (ETDEWEB)

Arai, Tatsuya J. [Department of Radiation Oncology, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Nofiele, Joris; Yuan, Qing [Department of Radiology, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Madhuranthakam, Ananth J.; Pedrosa, Ivan; Chopra, Rajiv [Department of Radiology, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Advanced Imaging Research Center, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Sawant, Amit, E-mail: amit.sawant@utsouthwestern.edu [Department of Radiation Oncology, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Department of Radiology, UT Southwestern Medical Center, Dallas, Texas 75390 (United States); Department of Radiation Oncology, University of Maryland School of Medicine, Baltimore, Maryland, 21201 (United States)

2016-06-15

Purpose: Sparse-sampling and reconstruction techniques represent an attractive strategy to achieve faster image acquisition speeds, while maintaining adequate spatial resolution and signal-to-noise ratio in rapid magnetic resonance imaging (MRI). The authors investigate the use of one such sequence, broad-use linear acquisition speed-up technique (k-t BLAST) in monitoring tumor motion for thoracic and abdominal radiotherapy and examine the potential trade-off between increased sparsification (to increase imaging speed) and the potential loss of “true” information due to greater reliance on a priori information. Methods: Lung tumor motion trajectories in the superior–inferior direction, previously recorded from ten lung cancer patients, were replayed using a motion phantom module driven by an MRI-compatible motion platform. Eppendorf test tubes filled with water which serve as fiducial markers were placed in the phantom. The modeled rigid and deformable motions were collected in a coronal image slice using balanced fast field echo in conjunction with k-t BLAST. Root mean square (RMS) error was used as a metric of spatial accuracy as measured trajectories were compared to input data. The loss of spatial information was characterized for progressively increasing acceleration factor from 1 to 16; the resultant sampling frequency was increased approximately from 2.5 to 19 Hz when the principal direction of the motion was set along frequency encoding direction. In addition to the phantom study, respiration-induced tumor motions were captured from two patients (kidney tumor and lung tumor) at 13 Hz over 49 s to demonstrate the impact of high speed motion monitoring over multiple breathing cycles. For each subject, the authors compared the tumor centroid trajectory as well as the deformable motion during free breathing. Results: In the rigid and deformable phantom studies, the RMS error of target tracking at the acquisition speed of 19 Hz was approximately 0.3–0

Archival standards, in archival open access software And offer appropriate software for internal archival centers

Directory of Open Access Journals (Sweden)

Abdolreza Izadi

2016-12-01

Full Text Available The purpose of this study is Study of Descriptive Metadata Standards in Archival open source software, to determine the most appropriate descriptive metadata standard (s and also Encoder Software support of these standards. The approach of present study is combination and library methods, Delphi and descriptive survey are used. Data gathering in library study is fiche, in the Delphi method is questionnaire and in descriptive survey is checklist. Statistical population contains 5 Archival open source software. The findings suggest that 5 metadata standards, consist of EAD, ISAD, EAC-CPF, ISAAR & ISDF, diagnosed appropriate by Delphi Panel members as the most appropriate descriptive metadata standards to use for archival software. Moreover, ICA-ATOM and Archivist toolkit in terms of support for standards that were suitable, diagnosed as the most appropriate archival software.

VLBA Archive &Distribution Architecture

Science.gov (United States)

Wells, D. C.

1994-01-01

Signals from the 10 antennas of NRAO's VLBA [Very Long Baseline Array] are processed by a Correlator. The complex fringe visibilities produced by the Correlator are archived on magnetic cartridges using a low-cost architecture which is capable of scaling and evolving. Archive files are copied to magnetic media to be distributed to users in FITS format, using the BINTABLE extension. Archive files are labelled using SQL INSERT statements, in order to bind the DBMS-based archive catalog to the archive media.

(reprocessed)CAGE peaks - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...g38/mm10). Data file File name: (reprocessed)CAGE_peaks (Homo sapiens) File URL: ftp://ftp.biosciencedbc.jp/archive/fantom...)CAGE_peaks (Mus musculus) File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/d...his Database Site Policy | Contact Us (reprocessed)CAGE peaks - FANTOM5 | LSDB Archive ...

(reprocessed)pooled_ctss - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...e: (reprocessed)pooled_ctss (Homo sapiens) File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/re...) File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/reprocessed/mm10...ory of This Database Site Policy | Contact Us (reprocessed)pooled_ctss - FANTOM5 | LSDB Archive ...

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Disease - MicrobeDB.jp | LSDB Archive [Life Science Database Archive metadata

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Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...File name: disease.tar.gz File URL: ftp://ftp.biosciencedbc.jp/archive/microbedb/...iption Download License Update History of This Database Site Policy | Contact Us Disease - MicrobeDB.jp | LSDB Archive ...

PSCID List - PSCDB | LSDB Archive [Life Science Database Archive metadata

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Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...t.zip File URL: ftp://ftp.biosciencedbc.jp/archive/pscdb/LATEST/pscdb_pscid_list.zip File size: 24.4 KB Simp...nd-binding sites About This Database Database Description Download License Update History of This Database Site Policy | Contact Us PSCID List - PSCDB | LSDB Archive ...

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Colorectal cancer prognosis depends on T-cell infiltration and molecular characteristics of the tumor.

Science.gov (United States)

Dahlin, Anna M; Henriksson, Maria L; Van Guelpen, Bethany; Stenling, Roger; Oberg, Ake; Rutegård, Jörgen; Palmqvist, Richard

2011-05-01

The aim of this study was to relate the density of tumor infiltrating T cells to cancer-specific survival in colorectal cancer, taking into consideration the CpG island methylator phenotype (CIMP) and microsatellite instability (MSI) screening status. The T-cell marker CD3 was stained by immunohistochemistry in 484 archival tumor tissue samples. T-cell density was semiquantitatively estimated and scored 1-4 in the tumor front and center (T cells in stroma), and intraepithelially (T cells infiltrating tumor cell nests). Total CD3 score was calculated as the sum of the three CD3 scores (range 3-12). MSI screening status was assessed by immunohistochemistry. CIMP status was determined by quantitative real-time PCR (MethyLight) using an eight-gene panel. We found that patients whose tumors were highly infiltrated by T cells (total CD3 score ≥7) had longer survival compared with patients with poorly infiltrated tumors (total CD3 score ≤4). This finding was statistically significant in multivariate analyses (multivariate hazard ratio, 0.57; 95% confidence interval, 0.31-1.00). Importantly, the finding was consistent in rectal cancer patients treated with preoperative radiotherapy. Although microsatellite unstable tumor patients are generally considered to have better prognosis, we found no difference in survival between microsatellite unstable and microsatellite stable (MSS) colorectal cancer patients with similar total CD3 scores. Patients with MSS tumors highly infiltrated by T cells had better prognosis compared with intermediately or poorly infiltrated microsatellite unstable tumors (log rank P=0.013). Regarding CIMP status, CIMP-low was associated with particularly poor prognosis in patients with poorly infiltrated tumors (multivariate hazard ratio for CIMP-low versus CIMP-negative, 3.07; 95% confidence interval, 1.53-6.15). However, some subset analyses suffered from low power and are in need of confirmation by independent studies. In conclusion, patients whose

Archives: Mathematics Connection

African Journals Online (AJOL)

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Archives: Philosophical Papers

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Archives: Kenya Veterinarian

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Archives: Agronomie Africaine

African Journals Online (AJOL)

Items 1 - 50 of 55 ... Archives: Agronomie Africaine. Journal Home > Archives: Agronomie Africaine. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 of 55 Items, 1 2 > >>. 2017 ...

A Critical Archival Pedagogy: The Lesbian Herstory Archives and a Course in Radical Lesbian Thought

Directory of Open Access Journals (Sweden)

Kailah R. Carden

2016-07-01

Full Text Available This paper is the story of a critical archival pedagogy that emerged through the undergraduate course Radical Lesbian Thought. As teachers and students, we dialogically co-constructed the praxis and content of the course throughout the semester. We employed archives throughout the course as theory, site, and pedagogy. In this paper we identify three archival frameworks: dialogue and difference, collaborative knowledge production, and archival methodology; and detail how they informed three course activities: reading and writing archival letters, visiting the Lesbian Herstory Archives, and completing final archival projects. We argue that archives provide theoretical and practical opportunities, in the tradition of critical pedagogy, to challenge and rearrange powered classroom structures and practices of thought.

The NASA Ames Life Sciences Data Archive: Biobanking for the Final Frontier

Science.gov (United States)

Rask, Jon; Chakravarty, Kaushik; French, Alison J.; Choi, Sungshin; Stewart, Helen J.

2017-01-01

The NASA Ames Institutional Scientific Collection involves the Ames Life Sciences Data Archive (ALSDA) and a biospecimen repository, which are responsible for archiving information and non-human biospecimens collected from spaceflight and matching ground control experiments. The ALSDA also manages a biospecimen sharing program, performs curation and long-term storage operations, and facilitates distribution of biospecimens for research purposes via a public website (https:lsda.jsc.nasa.gov). As part of our best practices, a tissue viability testing plan has been developed for the repository, which will assess the quality of samples subjected to long-term storage. We expect that the test results will confirm usability of the samples, enable broader science community interest, and verify operational efficiency of the archives. This work will also support NASA open science initiatives and guides development of NASA directives and policy for curation of biological collections.

License - JSNP | LSDB Archive [Life Science Database Archive metadata

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New in vitro system to predict chemotherapeutic efficacy of drug combinations in fresh tumor samples

Directory of Open Access Journals (Sweden)

Frank Christian Kischkel

2017-03-01

Full Text Available Background To find the best individual chemotherapy for cancer patients, the efficacy of different chemotherapeutic drugs can be predicted by pretesting tumor samples in vitro via the chemotherapy-resistance (CTR-Test®. Although drug combinations are widely used among cancer therapy, so far only single drugs are tested by this and other tests. However, several first line chemotherapies are combining two or more chemotherapeutics, leading to the necessity of drug combination testing methods. Methods We established a system to measure and predict the efficacy of chemotherapeutic drug combinations with the help of the Loewe additivity concept in combination with the CTR-test. A combination is measured by using half of the monotherapy’s concentration of both drugs simultaneously. With this method, the efficacy of a combination can also be calculated based on single drug measurements. Results The established system was tested on a data set of ovarian carcinoma samples using the combination carboplatin and paclitaxel and confirmed by using other tumor species and chemotherapeutics. Comparing the measured and the calculated values of the combination testings revealed a high correlation. Additionally, in 70% of the cases the measured and the calculated values lead to the same chemotherapeutic resistance category of the tumor. Conclusion Our data suggest that the best drug combination consists of the most efficient single drugs and the worst drug combination of the least efficient single drugs. Our results showed that single measurements are sufficient to predict combinations in specific cases but there are exceptions in which it is necessary to measure combinations, which is possible with the presented system.

Test Results for Caustic Demand Measurements on Tank 241-AX-101 and Tank 241-AX-103 Archive Samples

International Nuclear Information System (INIS)

Doll, Stephanie R.; Bolling, Stacie D.

2016-01-01

Caustic demand testing is used to determine the necessary amount of caustic required to neutralize species present in the Hanford tank waste and obtain a target molarity of free hydroxide for tank corrosion control. The presence and quantity of hydroxide-consuming analytes are just as important in determining the caustic demand as is the amount of free hydroxide present. No single data point can accurately predict whether a satisfactory hydroxide level is being met, as it is dependent on multiple factors (e.g., free hydroxide, buffers, amphoteric metal hydroxides, bicarbonate, etc.). This enclosure contains the caustic demand, scanning electron microscopy (SEM), polarized light microscopy (PLM), and X-ray diffraction (XRD) analysis for the tank 241-AX-101 (AX-101) and 241-AX-103 (AX-103) samples. The work was completed to fulfill a customer request outlined in the test plan, WRPS-1505529, ''Test Plan and Procedure for Caustic Demand Testing on Tank 241-AX-101 and Tank 241-AX-103 Archive Samples.'' The work results will provide a baseline to support planned retrieval of AX-101 and AX-103.

Test Results for Caustic Demand Measurements on Tank 241-AX-101 and Tank 241-AX-103 Archive Samples

Energy Technology Data Exchange (ETDEWEB)

Doll, Stephanie R. [Washington River Protection Solutions, Richland, WA (United States); Bolling, Stacie D. [Washington River Protection Solutions, Richland, WA (United States)

2016-07-14

Caustic demand testing is used to determine the necessary amount of caustic required to neutralize species present in the Hanford tank waste and obtain a target molarity of free hydroxide for tank corrosion control. The presence and quantity of hydroxide-consuming analytes are just as important in determining the caustic demand as is the amount of free hydroxide present. No single data point can accurately predict whether a satisfactory hydroxide level is being met, as it is dependent on multiple factors (e.g., free hydroxide, buffers, amphoteric metal hydroxides, bicarbonate, etc.). This enclosure contains the caustic demand, scanning electron microscopy (SEM), polarized light microscopy (PLM), and X-ray diffraction (XRD) analysis for the tank 241-AX-101 (AX-101) and 241-AX-103 (AX-103) samples. The work was completed to fulfill a customer request outlined in the test plan, WRPS-1505529, “Test Plan and Procedure for Caustic Demand Testing on Tank 241-AX-101 and Tank 241-AX-103 Archive Samples.” The work results will provide a baseline to support planned retrieval of AX-101 and AX-103.

Availability and quality of paraffin blocks identified in pathology archives: A multi-institutional study by the Shared Pathology Informatics Network (SPIN)

International Nuclear Information System (INIS)

Patel, Ashokkumar A; Dry, Sarah; Schirripa, Osvaldo; Yu, Hong; Becich, Michael J; Parwani, Anil V; Gupta, Dilipkumar; Seligson, David; Hattab, Eyas M; Balis, Ulysses J; Ulbright, Thomas M; Kohane, Isaac S; Berman, Jules J; Gilbertson, John R

2007-01-01

%). Assessment shows availability and quality of archival tissue blocks that are retrievable and associated electronic data that can be of value for researchers. This study serves to compliment the data from which uniform use of the SPIN query tools by all four centers will be measured to assure and highlight the usefulness of archival material for obtaining tumor tissues for research

Archives: Water SA

African Journals Online (AJOL)

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License - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Lifescience Database Archive (English)

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CAGE peaks - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...E Data file File name: CAGE_peaks File URL: ftp://ftp.biosciencedbc.jp/archive/fantom... This Database Database Description Download License Update History of This Database Site Policy | Contact Us CAGE peaks - FANTOM5 | LSDB Archive ...

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Private political archives

Directory of Open Access Journals (Sweden)

Waldemar Chorążyczewski

2010-12-01

Full Text Available "Private political archives" are understood by me as all acts collected intently by a private person. These acts are connected with the person's participation in political life and gathered in order to be used in public activity as the source of argumentation and information about factors and mechanisms of political processes. Private political archives of the first half of the XVI century were mainly created by royal servants, often with reference to their job duties. These duties could inspire to collect political acts for private purposes. During the reign of Sigismund Augustus, archives of gentry activists were developed to small extent and they mainly focused on parliamentary life. Private political archives were created outside the executionist movement, namely in the community gathered around the royal court. After 1572, Crown and Lithuanian magnates greatly influenced the creation of political archives. Archives of lesser gentry, scarce and poor, did not disappear completely. However, they became difficult for identification. Therefore, developmental process concerned exclusively documentary "treasure troves" created by magnates. They had the financial means and possibilities to create truly valuable political archives. The same as in the previous period the dynamisms of executionist movement was reflected in political archival documentation, now the creation of patronage system and clientele, or traditionally understood magnate oligarchy, (depending on the point of view corresponded best to archives development. The heritage of previous generations was the treasure trove of patterns and solutions. However, this trove was used selectively, on one hand giving up patterns and rights that were uncomfortable, and, on the other, giving the value of precedence to unexpected acts that gained more importance or even new content in changed political conditions. The application of interpretation principle raised interest in old acts and patterns

BRC - MicrobeDB.jp | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...table). Data file File name: brc.tar.gz File URL: ftp://ftp.biosciencedbc.jp/archive/microbedb/LATEST/brc.ta...rains in JCM. About This Database Database Description Download License Update History of This Database Site Policy | Contact Us BRC - MicrobeDB.jp | LSDB Archive ...

SRA - MicrobeDB.jp | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...e following table). Data file File name: sra.tar.gz File URL: ftp://ftp.biosciencedbc.jp/archive/microbedb/L...t This Database Database Description Download License Update History of This Database Site Policy | Contact Us SRA - MicrobeDB.jp | LSDB Archive ...

Archives: ORiON

African Journals Online (AJOL)

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High-risk human papilloma virus in archival tissues of oral pathosis and normal oral mucosa

Directory of Open Access Journals (Sweden)

Raghu Dhanapal

2015-01-01

Full Text Available Objectives: Oral cancer ranks third among all cancers in the Indian population. Human papilloma virus (HPV plays a significant role in oral carcinogenesis. Population-based subtype variations are present in the HPV prevalence. This study gives an emphasis on the parameters to be considered in formalin fixed paraffin embedded tissues for polymerase chain reaction (PCR-based research work. Materials and Methods: Cross-sectional study on archival paraffin-embedded tissue samples of oral squamous cell carcinoma (OSCC, epithelial dysplasia, and normal oral mucosa surrounding impacted tooth was amplified by PCR for the E6 gene of HPV type 16 and E1 gene of HPV type 18. Results: HPV 18 was positive in three OSCC cases. There was no statistically significant association of the positivity of HPV with the age, gender or habit. The HPV positive patients had a tobacco habit and were of a younger age group. Conclusion: The presence of HPV in carcinomatous tissue highlights the possible role of HPV in carcinogenesis and archival paraffin embedded tissue specimen can be used for this analysis. Recent studies on genomic analyses have highlighted that the HPV positive tumors are a separate subgroup based on genomic sequencing. The results of a larger retrospective study will help further in our understanding of the role of HPV in carcinogenesis, this study could form the baseline for such follow-up studies.

High-risk human papilloma virus in archival tissues of oral pathosis and normal oral mucosa.

Science.gov (United States)

Dhanapal, Raghu; Ranganathan, K; Kondaiah, Paturu; Devi, R Uma; Joshua, Elizabeth; Saraswathi, T R

2015-01-01

Oral cancer ranks third among all cancers in the Indian population. Human papilloma virus (HPV) plays a significant role in oral carcinogenesis. Population-based subtype variations are present in the HPV prevalence. This study gives an emphasis on the parameters to be considered in formalin fixed paraffin embedded tissues for polymerase chain reaction (PCR)-based research work. Cross-sectional study on archival paraffin-embedded tissue samples of oral squamous cell carcinoma (OSCC), epithelial dysplasia, and normal oral mucosa surrounding impacted tooth was amplified by PCR for the E6 gene of HPV type 16 and E1 gene of HPV type 18. HPV 18 was positive in three OSCC cases. There was no statistically significant association of the positivity of HPV with the age, gender or habit. The HPV positive patients had a tobacco habit and were of a younger age group. The presence of HPV in carcinomatous tissue highlights the possible role of HPV in carcinogenesis and archival paraffin embedded tissue specimen can be used for this analysis. Recent studies on genomic analyses have highlighted that the HPV positive tumors are a separate subgroup based on genomic sequencing. The results of a larger retrospective study will help further in our understanding of the role of HPV in carcinogenesis, this study could form the baseline for such follow-up studies.

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Intra-Tumor Genetic Heterogeneity in Wilms Tumor: Clonal Evolution and Clinical Implications

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George D. Cresswell

2016-07-01

Full Text Available The evolution of pediatric solid tumors is poorly understood. There is conflicting evidence of intra-tumor genetic homogeneity vs. heterogeneity (ITGH in a small number of studies in pediatric solid tumors. A number of copy number aberrations (CNA are proposed as prognostic biomarkers to stratify patients, for example 1q+ in Wilms tumor (WT; current clinical trials use only one sample per tumor to profile this genetic biomarker. We multisampled 20 WT cases and assessed genome-wide allele-specific CNA and loss of heterozygosity, and inferred tumor evolution, using Illumina CytoSNP12v2.1 arrays, a custom analysis pipeline, and the MEDICC algorithm. We found remarkable diversity of ITGH and evolutionary trajectories in WT. 1q+ is heterogeneous in the majority of tumors with this change, with variable evolutionary timing. We estimate that at least three samples per tumor are needed to detect >95% of cases with 1q+. In contrast, somatic 11p15 LOH is uniformly an early event in WT development. We find evidence of two separate tumor origins in unilateral disease with divergent histology, and in bilateral WT. We also show subclonal changes related to differential response to chemotherapy. Rational trial design to include biomarkers in risk stratification requires tumor multisampling and reliable delineation of ITGH and tumor evolution.

Movie collection - TogoTV | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...ols. Data file File name: movie File URL: ftp://ftp.biosciencedbc.jp/archive/togotv/movie/ File size: 200 GB...ata entries 1169 entries - About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Movie collection - TogoTV | LSDB Archive ...

Frequency of Odontogenic Tumors in Zahedan-Iran from 2000 to 2010

Directory of Open Access Journals (Sweden)

Hamideh Kadeh

2012-01-01

Full Text Available Introduction: Odontogenic tumors constitute an important aspect of oral and maxillofacial pathology. Frequency of odontogenic tumors varies in different societies but no study has been done in Zahedan so far. The purpose of this study was to achieve the sex, location and age distribution of odontogenic tumors and frequency of each one in a period of ten years.Materials & Methods: In this study, documents in archive of maxillofacial pathology department of Zahedan dental school, Khatamolanbia, Tamin ejtemaei Hospital and private laboratories were reviewed from 2000 to 2010. Data about age, sex, location of tumors and relation with impacted tooth were extracted and were submitted in the forms.Results: In this study, among the 1125 cases of the oromaxillofacial lesions, 50 cases of odontogenic tumors were found. Among the different tumors, keratocyst odontogenic tumor (KOT was the most common odontogenic tumor (48%, followed by ameloblastoma and odontoma with frequency of 24% and 12%, respectively. There were no cases of malignancy. The incidence of these lesions was 52% in women and 48% in men. The most common location of tumors was posterior of mandible and tumors were more frequent in the third decade of life. In 12 cases, the lesions were accompanied by impacted teeth.Conclusion: In this study the most frequent tumors were KOT, Ameloblastoma and odontoma respectively.

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The ERASMUS experiment archive

Science.gov (United States)

Isakeit, Dieter; Sabbatini, Massimo; Carey, William

2005-08-01

The Erasmus Experiment Archive is an electronic database, accessible through the Internet, that collects in a single reference repository scientific, technical and operational information regarding the experiments performed in the experiment facilities which fall under the responsibility of the ESA Directorate of Human Spaceflight, Microgravity and Exploration. The archive is operated, filled with content and kept up-to-date by the Erasmus User Centre. which forms part of the Directorate. The archive shares its records and is interoperable with similar experiment archives of the partner agencies NASA USA) and JAXA (Japan) through a mutually agreed standard for experiment records called the International Distributed Experiment Archive (IDEA).

Body weight - Open TG-GATEs | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...le URL: ftp://ftp.biosciencedbc.jp/archive/open-tggates/LATEST/open_tggates_body_...atabase Description Download License Update History of This Database Site Policy | Contact Us Body weight - Open TG-GATEs | LSDB Archive ...

(reprocessed)CAGE_peaks_annotation - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/reprocessed/hg38_latest/extra/CAGE_peaks_annotation/ ...e URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/reprocessed/mm10_latest/extra/CAGE_peaks_annotat...te History of This Database Site Policy | Contact Us (reprocessed)CAGE_peaks_annotation - FANTOM5 | LSDB Archive ...

(reprocessed)CAGE_peaks_expression - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...sciencedbc.jp/archive/fantom5/datafiles/reprocessed/hg38_latest/extra/CAGE_peaks_expression/ File size: 3.3 ...tp.biosciencedbc.jp/archive/fantom5/datafiles/reprocessed/mm10_latest/extra/CAGE_peaks_expression/ File size...f This Database Site Policy | Contact Us (reprocessed)CAGE_peaks_expression - FANTOM5 | LSDB Archive ...

Download - fRNAdb | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Download - TogoTV | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Does the pretreatment tumor sampling location correspond with metabolic activity on 18F-FDG PET/CT in breast cancer patients scheduled for neoadjuvant chemotherapy?

Energy Technology Data Exchange (ETDEWEB)

Koolen, Bas B., E-mail: b.koolen@nki.nl [Department of Nuclear Medicine, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Department of Surgical Oncology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Elshof, Lotte E. [Department of Nuclear Medicine, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Department of Surgical Oncology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Loo, Claudette E. [Department of Radiology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Wesseling, Jelle [Department of Pathology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Vrancken Peeters, Marie-Jeanne T.F.D. [Department of Surgical Oncology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Vogel, Wouter V. [Department of Nuclear Medicine, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Rutgers, Emiel J.Th. [Department of Surgical Oncology, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Valdés Olmos, Renato A. [Department of Nuclear Medicine, Netherlands Cancer Institute – Antoni van Leeuwenhoek Hospital, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands)

2013-12-01

Purpose: To define the correlation between the core biopsy location and the area with highest metabolic activity on 18F-FDG PET/CT in stage II–III breast cancer patients before neoadjuvant chemotherapy. Also, we would like to select a subgroup of patients in which PET/CT information may optimize tumor sampling. Methods: A PET/CT in prone position was acquired in 199 patients with 203 tumors. The distance and relative difference in standardized uptake value (SUV) between core biopsy localization (indicated by a marker) and area with highest degree of FDG uptake were evaluated. A distance ≥2 cm and a relative difference in SUV ≥25% were considered clinically relevant and a combination of both was defined as non-correspondence. Non-correspondence for different tumor characteristics (TNM stage, lesion morphology on MRI and PET/CT, histology, subtype, grade, and Ki-67) was assessed. Results: Non-correspondence was found in 28 (14%) of 203 tumors. Non-correspondence was significantly associated with T-stage, lesion morphology on MRI and PET/CT, tumor diameter, and histologic type. It was more often seen in tumors with a higher T-stage (p = 0.028), diffuse (non-mass) and multifocal tumors on MRI (p = 0.001), diffuse and multifocal tumors on PET/CT (p < 0.001), tumors >3 cm (p < 0.001), and lobular carcinomas (p < 0.001). No association was found with other features. Conclusion: Non-correspondence between the core biopsy location and area with highest FDG uptake is regularly seen in stage II–III breast cancer patients. PET/CT information and possibly FDG-guided biopsies are most likely to improve pretreatment tumor sampling in tumors >3 cm, lobular carcinomas, and diffuse and multifocal tumors.

The CORDEX archive in ESGF: a global archive for regional data

Science.gov (United States)

Juckes, Martin; Lautenschlager, Michael; Legutke, Stephanie; Bøssing Christensen, Ole; Kolax, Michael; Denvil, Sébastien

2013-04-01

The CORDEX program will produce regional model simulations for all areas of the globe, run by many modelling centres but with a consistent set of experimental parameters. Following the example set with the Coupled Model Inter-comparison Project, Phase 5 (CMIP5) archive of global climate simulations, a federated archive infrastructure will be exploited to support efficient distribution of the data and provide a single catalogue with a flexible search interface. Initial work towards establishing the European component of federated archive for CORDEX using the Earth System Grid Federation (ESGF) software has been started in the FP7 project IS-ENES (InfraStructure for the European Network for Earth System Modelling http://is.enes.org) and will be continued under IS-ENES2 (with additional support for an archive node at the University of Cape Town, S. Africa). The ESGF system allows data held at multiple sites to be accessed by users in a transparent manner. This poster will describe key adaptations of the ESGF CMIP5 infrastructure for CORDEX and some of the data services the system will provide. The vocabularies which underpin the facets of the search interface have been adapted and extended, a strategy for quality control has been developed. For the CMIP5 archive, most modelling centres contributing data also deployed an ESGF archive node. For the CORDEX archive a different approach will be followed because data is expected from a larger number of contributors without the resources needed to run such software. Instead, the CORDEX federated archive will be hosted at a moderate number of institutions with the required resources and expertise.

License - dbQSNP | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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License - eSOL | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Archiving Websites

DEFF Research Database (Denmark)

Brügger, Niels

This book treats the micro archiving of websites, i.e. archiving by researchers, students or others without special technical knowledge who, using a standard computer, wish to save a website for further study. The phenomenon is discussed from the standpoint that Internet research must be able...

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(Per)Forming Archival Research Methodologies

Science.gov (United States)

Gaillet, Lynee Lewis

2012-01-01

This article raises multiple issues associated with archival research methodologies and methods. Based on a survey of recent scholarship and interviews with experienced archival researchers, this overview of the current status of archival research both complicates traditional conceptions of archival investigation and encourages scholars to adopt…

Limitations in the Use of Archived Vent Mussel Samples to Assess Genetic Connectivity Among Seafloor Massive Sulfide Deposits: A Case Study with Implications for Environmental Management

OpenAIRE

Boschen, Rachel E.; Rowden, Ashley A.; Clark, Malcolm R.; Gardner, Jonathan P. A.

2015-01-01

Genetic connectivity studies can inform the design of mitigation strategies used in environmental management. However, the expense of developing species-specific molecular markers and collecting samples at appropriate spatial and temporal scales can be prohibitive. Using archived material and existing molecular markers may provide a cost-effective way to assess population connectivity. Genetic connectivity studies are increasingly in demand in the deep sea in response to mounting anthropogeni...

CAGE_peaks_annotation - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...file File name: CAGE_peaks_annotation File URL: ftp://ftp.biosciencedbc.jp/archive/fantom...on Download License Update History of This Database Site Policy | Contact Us CAGE_peaks_annotation - FANTOM5 | LSDB Archive ...

pSort search result - KOME | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...name: kome_psort_search_result.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_psort_searc...abase Description Download License Update History of This Database Site Policy | Contact Us pSort search result - KOME | LSDB Archive ...

Endocrine tumors other than thyroid tumors

International Nuclear Information System (INIS)

Takeichi, Norio; Dohi, Kiyohiko

1992-01-01

This paper discusses the tendency for the occurrence of tumors in the endocrine glands, other than the thyroid gland, in A-bomb survivors using both autopsy and clinical data. ABCC-RERF sample data using 4136 autopsy cases (1961-1977) revealed parathyroid tumors in 13 A-bomb survivors, including 3 with the associated hyperparathyroidism, with the suggestion of dose-dependent increase in the occurrence of tumors. Based on clinical data from Hiroshima University, 7 (46.7%) of 15 parathyroid tumors cases were A-bomb survivors. Data (1974-1987) from the Tumor Registry Committee (TRC) in Hiroshima Prefecture revealed that a relative risk of parathyroid tumors was 5.6 times higher in the entire group of A-bomb survivors and 16.2 times higher in the group of heavily exposed A-bomb survivors, suggesting the dose-dependent increase in their occurrence. Adrenal tumors were detected in 47 of 123 cases from the TRC data, and 15 (31.5%) of these 47 were A-bomb survivors. Particularly, 11 cases of adrenal tumors associated with Cushing syndrome included 6 A-bomb survivors (54.5%). The incidence of multiple endocrine gonadial tumors (MEGT) tended to be higher with increasing exposure doses; and the 1-9 rad group, the 10-99 rad group, and the 100 or more rad group had a risk of developing MEGT of 4.1, 5.7, and 7.1, respectively, relative to both the not-in the city group and the 0 rad group. These findings suggested that there is a correlation between A-bomb radiation and the occurrence of parathyroid tumors (including hyperparathyroidism), adrenal tumors associated with Cushing syndrome and MEGT (especially, the combined thyroid and ovarian tumors and the combined thyroid and parathyroid tumors). (N.K.)

A Comparison of Fresh Frozen vs. Formalin-Fixed, Paraffin-Embedded Specimens of Canine Mammary Tumors via Branched-DNA Assay

Directory of Open Access Journals (Sweden)

Florenza Lüder Ripoli

2016-05-01

Full Text Available Mammary neoplasms are the tumors most affecting female dogs and women. Formalin-fixed, paraffin-embedded (FFPE tissues are an invaluable source of archived biological material. Fresh frozen (FF tissue is considered ideal for gene expression analysis. However, strategies based on FFPE material offer several advantages. Branched-DNA assays permit a reliable and fast workflow when analyzing gene expression. The aim of this study was to assess the comparability of the branched-DNA assay when analyzing certain gene expression patterns between FF and FFPE samples in canine mammary tumors. RNA was isolated from 109 FFPE samples and from 93 FF samples of different canine mammary tissues. Sixteen (16 target genes (Tp53; Myc; HMGA1; Pik3ca; Mcl1; MAPK3; FOXO3; PTEN; GATA4; PFDN5; HMGB1; MAPK1; BRCA2; BRCA1; HMGA2; and Her2 were analyzed via branched-DNA assay (b-DNA. ACTB, GAPDH, and HPRT1 were used as data normalizers. Overall, the relative gene expression of the two different origins of samples showed an agreement of 63%. Still, care should be taken, as FFPE specimens showed lower expression of the analyzed targets when compared to FF samples. The fact that the gene expression in FFPE proved to be lower than in FF specimens is likely to have been caused by the effect of storage time. ACTB had the best performance as a data normalizer.

Toward Automatic Georeferencing of Archival Aerial Photogrammetric Surveys

Science.gov (United States)

Giordano, S.; Le Bris, A.; Mallet, C.

2018-05-01

Images from archival aerial photogrammetric surveys are a unique and relatively unexplored means to chronicle 3D land-cover changes over the past 100 years. They provide a relatively dense temporal sampling of the territories with very high spatial resolution. Such time series image analysis is a mandatory baseline for a large variety of long-term environmental monitoring studies. The current bottleneck for accurate comparison between epochs is their fine georeferencing step. No fully automatic method has been proposed yet and existing studies are rather limited in terms of area and number of dates. State-of-the art shows that the major challenge is the identification of ground references: cartographic coordinates and their position in the archival images. This task is manually performed, and extremely time-consuming. This paper proposes to use a photogrammetric approach, and states that the 3D information that can be computed is the key to full automation. Its original idea lies in a 2-step approach: (i) the computation of a coarse absolute image orientation; (ii) the use of the coarse Digital Surface Model (DSM) information for automatic absolute image orientation. It only relies on a recent orthoimage+DSM, used as master reference for all epochs. The coarse orthoimage, compared with such a reference, allows the identification of dense ground references and the coarse DSM provides their position in the archival images. Results on two areas and 5 dates show that this method is compatible with long and dense archival aerial image series. Satisfactory planimetric and altimetric accuracies are reported, with variations depending on the ground sampling distance of the images and the location of the Ground Control Points.

TOWARD AUTOMATIC GEOREFERENCING OF ARCHIVAL AERIAL PHOTOGRAMMETRIC SURVEYS

Directory of Open Access Journals (Sweden)

S. Giordano

2018-05-01

Full Text Available Images from archival aerial photogrammetric surveys are a unique and relatively unexplored means to chronicle 3D land-cover changes over the past 100 years. They provide a relatively dense temporal sampling of the territories with very high spatial resolution. Such time series image analysis is a mandatory baseline for a large variety of long-term environmental monitoring studies. The current bottleneck for accurate comparison between epochs is their fine georeferencing step. No fully automatic method has been proposed yet and existing studies are rather limited in terms of area and number of dates. State-of-the art shows that the major challenge is the identification of ground references: cartographic coordinates and their position in the archival images. This task is manually performed, and extremely time-consuming. This paper proposes to use a photogrammetric approach, and states that the 3D information that can be computed is the key to full automation. Its original idea lies in a 2-step approach: (i the computation of a coarse absolute image orientation; (ii the use of the coarse Digital Surface Model (DSM information for automatic absolute image orientation. It only relies on a recent orthoimage+DSM, used as master reference for all epochs. The coarse orthoimage, compared with such a reference, allows the identification of dense ground references and the coarse DSM provides their position in the archival images. Results on two areas and 5 dates show that this method is compatible with long and dense archival aerial image series. Satisfactory planimetric and altimetric accuracies are reported, with variations depending on the ground sampling distance of the images and the location of the Ground Control Points.

Transnational archives: the Canadian case

Directory of Open Access Journals (Sweden)

Julia Creet

2011-05-01

Full Text Available This paper is a brief overview of the concept of the transnational archive as a counterpoint to the idea that a national archive is necessarily a locus of a static idea of nation. The Canadian national archives is used as a case study of an archives that was transnational in its inception, and one that has continued to change in its mandate and materials as a response to patterns in migration and changing notions of multiculturalism as a Canadian federal policy. It introduces the most recent formation of the transnational archive and its denizens: the genealogical archive inhabited by family historians.

A molecular analysis by gene expression profiling reveals Bik/NBK overexpression in sporadic breast tumor samples of Mexican females

International Nuclear Information System (INIS)

García, Normand; Salamanca, Fabio; Astudillo-de la Vega, Horacio; Curiel-Quesada, Everardo; Alvarado, Isabel; Peñaloza, Rosenda; Arenas, Diego

2005-01-01

Breast cancer is one of the most frequent causes of death in Mexican women over 35 years of age. At molecular level, changes in many genetic networks have been reported as associated with this neoplasia. To analyze these changes, we determined gene expression profiles of tumors from Mexican women with breast cancer at different stages and compared these with those of normal breast tissue samples. 32 P-radiolabeled cDNA was synthesized by reverse transcription of mRNA from fresh sporadic breast tumor biopsies, as well as normal breast tissue. cDNA probes were hybridized to microarrays and expression levels registered using a phosphorimager. Expression levels of some genes were validated by real time RT-PCR and immunohistochemical assays. We identified two subgroups of tumors according to their expression profiles, probably related with cancer progression. Ten genes, unexpressed in normal tissue, were turned on in some tumors. We found consistent high expression of Bik gene in 14/15 tumors with predominant cytoplasmic distribution. Recently, the product of the Bik gene has been associated with tumoral reversion in different neoplasic cell lines, and was proposed as therapy to induce apoptosis in cancers, including breast tumors. Even though a relationship among genes, for example those from a particular pathway, can be observed through microarrays, this relationship might not be sufficient to assign a definitive role to Bik in development and progression of the neoplasia. The findings herein reported deserve further investigation

Analysis list - ChIP-Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...://ftp.biosciencedbc.jp/archive/chip-atlas/LATEST/chip_atlas_analysis_list.zip File size: 44.8 KB Simple sea...e class. About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Analysis list - ChIP-Atlas | LSDB Archive ...

[Imaging manifestations and pathologic basis for hepatic capsular retraction syndrome caused by benign and malignant liver tumors].

Science.gov (United States)

Ou, Youkuan; Xiao, Enhua; Shang, Quanliang; Chen, Juan

2015-10-01

To investigate the imaging manifestations of CT, MRI and pathological basis for hepatic capsular retraction syndrome caused by benign and malignant liver tumors.
 CT or MRI images and pathological features for hepatic capsular retraction syndrome were retrospectively analyzed in 50 patients with benign and malignant liver tumors. Picture archive and communication system (PACS) was used to observe and compare the morphology, size, width, depth, edge of the capsular retraction and the status of liquid under the liver capsule. The structure, differentiation and proliferation of the tumor were analyzed under the microscope.
 There were malignant liver tumors in 44 patients and benign tumor in 6 patients. The smooth or rough for the edge of capsular retraction was significant difference between the benign tumors and the malignant tumors with three differentiated grades (all PBenign and malignant hepatic tumors may appear capsule retraction syndrome, but there are morphological differences between them. The differences are closely related with the lesion size, differentiated degree of tumor and fibrous tissue proliferation.

A method to evaluate genome-wide methylation in archival formalin-fixed, paraffin-embedded ovarian epithelial cells.

Directory of Open Access Journals (Sweden)

Qiling Li

Full Text Available The use of DNA from archival formalin and paraffin embedded (FFPE tissue for genetic and epigenetic analyses may be problematic, since the DNA is often degraded and only limited amounts may be available. Thus, it is currently not known whether genome-wide methylation can be reliably assessed in DNA from archival FFPE tissue.Ovarian tissues, which were obtained and formalin-fixed and paraffin-embedded in either 1999 or 2011, were sectioned and stained with hematoxylin-eosin (H&E.Epithelial cells were captured by laser micro dissection, and their DNA subjected to whole genomic bisulfite conversion, whole genomic polymerase chain reaction (PCR amplification, and purification. Sequencing and software analyses were performed to identify the extent of genomic methylation. We observed that 31.7% of sequence reads from the DNA in the 1999 archival FFPE tissue, and 70.6% of the reads from the 2011 sample, could be matched with the genome. Methylation rates of CpG on the Watson and Crick strands were 32.2% and 45.5%, respectively, in the 1999 sample, and 65.1% and 42.7% in the 2011 sample.We have developed an efficient method that allows DNA methylation to be assessed in archival FFPE tissue samples.

ArchiveDB—Scientific and technical data archive for Wendelstein 7-X

International Nuclear Information System (INIS)

Hennig, Christine; Maier, Josef; Grün, Martin; Krom, Jon; Blum, Torsten; Grahl, Michael; Heimann, Peter; Riemann, Heike; Laqua, Heike; Lewerentz, Marc; Spring, Anett; Werner, Andreas

2016-01-01

Highlights: • ArchiveDB archives all scientific and technical data of Wendelstein. • Primary index is the measured absolute time. • Continuously arising data is chunked in time for storage. • The Big Data Lambda Architecture pattern is applied. • The system is in place since a decade and a major change of underlying technology has been mastered. - Abstract: ArchiveDB is the data archive for all scientific and technical data collected at the Wendelstein 7-X project. It is a distributed system allowing continuous data archival. ArchiveDB has demanding requirements regarding performance efficiency (storage performance of 30 GB/s during experiments, expected storage amount of 1.4 PB/year), reliability (availability of 364 days/year), maintainability (testability) and portability (including change of hardware and software). Data acquisition with continuous operation and high time resolutions (up to nanoseconds scale) for physics data is supported as well as long-term recording up to 24 h/7 days for operational data (∼1 Hz rate). Moreover, all results of data analysis are stored in the archive. Another challenge, uniform retrieval of measured and analyzed data, allowing time and structure information as selection criteria, is mastered as well. The key concepts of data storage and retrieval are: (1) partitioning of incoming data in groups and stream, (2) chunking of data in boxes of manageable size covering a finite time period, and (3) indexing of data using absolute time as ordering and indexing criteria. Continuous operation of the ArchiveDB software and hardware for various systems and components relevant to Wendelstein 7-X has been done successfully for several years, thus, showing that the key requirements are satisfied. The overall data amount so far has reached 7 Terabyte over 9 years of data taking. Round-the-clock operation of the archive is in place since 5 years. Initial plasma operation OP1.1 of Wendelstein 7-X has been supported with no downtime

ArchiveDB—Scientific and technical data archive for Wendelstein 7-X

Energy Technology Data Exchange (ETDEWEB)

Hennig, Christine, E-mail: Christine.Hennig@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Maier, Josef, E-mail: Josef.Maier@ipp.mpg.de [Max Planck Institute for Plasma Physics, Boltzmannstraße 2, 85748 Garching (Germany); Grün, Martin, E-mail: Martin.Gruen@ipp.mpg.de [FERCHAU Engineering GmbH, Steinmüllerallee 2, 51643 Gummersbach (Germany); Krom, Jon, E-mail: Jon.Krom@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Blum, Torsten, E-mail: Torsten.Bluhm@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Grahl, Michael, E-mail: Michael.Grahl@ipp.mpg.dem [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Heimann, Peter, E-mail: Peter.Heimann@ipp.mpg.de [Max Planck Institute for Plasma Physics, Boltzmannstraße 2, 85748 Garching (Germany); Riemann, Heike, E-mail: Heike.Riemann@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Laqua, Heike, E-mail: Heike.Laqua@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Lewerentz, Marc, E-mail: Marc.Lewerentz@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Spring, Anett, E-mail: Anett.Spring@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany); Werner, Andreas, E-mail: Andreas.Werner@ipp.mpg.de [Max Planck Institute for Plasma Physics, Wendelsteinstraße 1, 17491 Greifswald (Germany)

2016-11-15

Highlights: • ArchiveDB archives all scientific and technical data of Wendelstein. • Primary index is the measured absolute time. • Continuously arising data is chunked in time for storage. • The Big Data Lambda Architecture pattern is applied. • The system is in place since a decade and a major change of underlying technology has been mastered. - Abstract: ArchiveDB is the data archive for all scientific and technical data collected at the Wendelstein 7-X project. It is a distributed system allowing continuous data archival. ArchiveDB has demanding requirements regarding performance efficiency (storage performance of 30 GB/s during experiments, expected storage amount of 1.4 PB/year), reliability (availability of 364 days/year), maintainability (testability) and portability (including change of hardware and software). Data acquisition with continuous operation and high time resolutions (up to nanoseconds scale) for physics data is supported as well as long-term recording up to 24 h/7 days for operational data (∼1 Hz rate). Moreover, all results of data analysis are stored in the archive. Another challenge, uniform retrieval of measured and analyzed data, allowing time and structure information as selection criteria, is mastered as well. The key concepts of data storage and retrieval are: (1) partitioning of incoming data in groups and stream, (2) chunking of data in boxes of manageable size covering a finite time period, and (3) indexing of data using absolute time as ordering and indexing criteria. Continuous operation of the ArchiveDB software and hardware for various systems and components relevant to Wendelstein 7-X has been done successfully for several years, thus, showing that the key requirements are satisfied. The overall data amount so far has reached 7 Terabyte over 9 years of data taking. Round-the-clock operation of the archive is in place since 5 years. Initial plasma operation OP1.1 of Wendelstein 7-X has been supported with no downtime

License - Q-TARO | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...thout notice. About This Database Database Description Download License Update History of This Database Site Policy | Contact Us License - Q-TARO | LSDB Archive ...

Download - GenLibi | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...access [here]. About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - GenLibi | LSDB Archive ...

Prognostic impact of tumor MET expression among patients with stage IV gastric cancer

DEFF Research Database (Denmark)

Erichsen, Rune; Kelsh, Michael A; Oliner, Kelly S

2016-01-01

PURPOSE: We aimed to investigate the prevalence and prognostic impact of tumor mesenchymal epithelial transition factor (MET) expression in stage IV gastric cancers in a real-world clinical setting because existing evidence is sparse. METHODS: The study included archived cancer specimens from 103...... stage IV gastric cancer patients (2003-2010). We analyzed MET-protein expression by immunohistochemistry (MET-positive if ≥25% of tumor cells showed MET expression). We calculated overall survival using the Kaplan-Meier method and hazard ratios comparing mortality among MET-positive and MET.......6 months), corresponding to an adjusted hazard ratio of 2.2 (95% confidence interval, 1.3-3.7). CONCLUSIONS: Tumor MET expression is prevalent and has substantial prognostic impact in stage IV gastric cancer patients....

Diagnostic Modalities for FGF23-Producing Tumors in Patients with Tumor-Induced Osteomalacia

Directory of Open Access Journals (Sweden)

Seiji Fukumoto

2014-06-01

Full Text Available Fibroblast growth factor 23 (FGF23 is a hormone that is produced by osteocytes and regulates phosphate and vitamin D metabolism through binding to the Klotho-FGF receptor complex. Excessive actions of FGF23 cause several kinds of hypophosphatemic rickets/osteomalacia. Tumor-induced rickets/osteomalacia (TIO is a paraneoplastic syndrome caused by overproduction of FGF23 from the responsible tumors. Because TIO is cured by complete resection of the causative tumors, it is of great clinical importance to locate these tumors. Several imaging methods including skeletal survey by magnetic resonance imaging and octreotide scintigraphy have been used to identify the tumors that cause TIO. However, none of these imaging studies indicate that the detected tumors are actually producing FGF23. Recently, systemic venous sampling was conducted for locating FGF23-producing tumor in suspected patients with TIO and demonstrated that this test might be beneficial to a subset of patient. Further studies with more patients are necessary to establish the clinical utility of venous sampling in patients with TIO.

GPCR Interaction - GRIPDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GRI...ed information (disease etc.). Data file File name: gripdb_main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/gripdb/LATEST/gri...godb.biosciencedbc.jp/togodb/view/gripdb_main#en Data acquisition method PDB, Refseq Data analysis method - ...Number of data entries 409 entries Data item Description GRIP ID Interaction ID Main Title Interaction title...tabase Database Description Download License Update History of This Database Site Policy | Contact Us GPCR Interaction - GRIPDB | LSDB Archive ...

License - RGP gmap | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Download - Plabrain DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

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Application of a global proteomic approach to archival precursor lesions: deleted in malignant brain tumors 1 and tissue transglutaminase 2 are upregulated in pancreatic cancer precursors

DEFF Research Database (Denmark)

Cheung, Wang; Darfler, Marlene M; Alvarez, Hector

2008-01-01

BACKGROUND: Pancreatic cancer is an almost uniformly fatal disease, and early detection is a critical determinant of improved survival. A variety of noninvasive precursor lesions of pancreatic adenocarcinoma have been identified, which provide a unique opportunity for intervention prior to onset ...... their overexpression in IPMNs. CONCLUSION: Global proteomics analysis using the Liquid Tissue workflow is a feasible approach for unbiased biomarker discovery in limited archival material, particularly applicable to precursor lesions of cancer......., and mass spectrometry to conduct a global proteomic analysis of an intraductal papillary mucinous neoplasm (IPMN). Tissue microarrays comprised of 38 IPMNs were used for validation of candidate proteins. RESULTS: The proteomic analysis of the IPMN Liquid Tissue lysate resulted in identification of 1......,534 peptides corresponding to 523 unique proteins. A subset of 25 proteins was identified that had previously been reported as upregulated in pancreatic cancer. Immunohistochemical analysis for two of these, deleted in malignant brain tumors 1 (DMBT1) and tissue transglutaminase 2 (TGM2), confirmed...

National Archives Catalog and API

Data.gov (United States)

National Archives and Records Administration — The National Archives Catalog is the online catalog of NARA's nationwide holdings in the Washington, DC area, Regional Archives, and Presidential Libraries.

Lessons learned from planetary science archiving

Science.gov (United States)

Zender, J.; Grayzeck, E.

2006-01-01

The need for scientific archiving of past, current, and future planetary scientific missions, laboratory data, and modeling efforts is indisputable. To quote from a message by G. Santayama carved over the entrance of the US Archive in Washington DC “Those who can not remember the past are doomed to repeat it.” The design, implementation, maintenance, and validation of planetary science archives are however disputed by the involved parties. The inclusion of the archives into the scientific heritage is problematic. For example, there is the imbalance between space agency requirements and institutional and national interests. The disparity of long-term archive requirements and immediate data analysis requests are significant. The discrepancy between the space missions archive budget and the effort required to design and build the data archive is large. An imbalance exists between new instrument development and existing, well-proven archive standards. The authors present their view on the problems and risk areas in the archiving concepts based on their experience acquired within NASA’s Planetary Data System (PDS) and ESA’s Planetary Science Archive (PSA). Individual risks and potential problem areas are discussed based on a model derived from a system analysis done upfront. The major risk for a planetary mission science archive is seen in the combination of minimal involvement by Mission Scientists and inadequate funding. The authors outline how the risks can be reduced. The paper ends with the authors view on future planetary archive implementations including the archive interoperability aspect.

Resources for the User's Guide to the Royal Hetman's Archives in archives and library collections

Directory of Open Access Journals (Sweden)

Krzysztof Syta

2012-12-01

Full Text Available This article is an overview of archival collections with provenance of hetman's archives, but physically separated into collections in archives and libraries across Poland (Kraków, Kórnik, Łódź, Poznań, Warszawa and also Ukraine (Kiev, Lviv. Research, which later became an inspiration for this overview, has been conducted mainly in the early 90s. In the light of the above, this article does not claim to be called a "guide" to the royalhetmans' archives of the sixteenth through to the eighteenth century, but it could be viewed as an outline of such archival finding aid. This overview focuses on characteristics of different types of archival material, which author considered integrally connected to holding of an office of hetman, i.e.: personal, administrative and military, judiciary, financial, and also correspondence. Qualification criteria may raise some concerns, because selection of archives is subjective by nature, but also because in the discussed time period there was social consensus on the fact that one's private life and public sphere would overlap. Most of the archival materials used in this study comes from the hetman's archives of the eighteenth century (Jan Clement Branicki's; Franciszek Ksawery Branicki's; Stanisław Mateusz, Wacław, Seweryn Rzewuski's and Adam Mikołaj Sieniawski's. Eighteen century is considered to be the peak of development of private archives, which - without a doubt - had great impact on the preservation of hetman's archives of that period. Moreover, the fact that there is significantly larger collection of hetman's archives of that period, compared to previous two centuries, is the result of the hetman's office having a special place within the political system of the Polish-Lithuanian Commonwealth.

License - fRNAdb | LSDB Archive [Life Science Database Archive metadata

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License - AT Atlas | LSDB Archive [Life Science Database Archive metadata

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Lifescience Database Archive (English)

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Archives: Ethiopian Veterinary Journal

African Journals Online (AJOL)

Items 1 - 16 of 16 ... Archives: Ethiopian Veterinary Journal. Journal Home > Archives: Ethiopian Veterinary Journal. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 16 of 16 Items ...

Archives: Nigerian Veterinary Journal

African Journals Online (AJOL)

Items 1 - 49 of 49 ... Archives: Nigerian Veterinary Journal. Journal Home > Archives: Nigerian Veterinary Journal. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 49 of 49 Items ...

Archives: Continuing Medical Education

African Journals Online (AJOL)

Items 51 - 88 of 88 ... Archives: Continuing Medical Education. Journal Home > Archives: Continuing Medical Education. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 51 - 88 of 88 ...

Archives: African Studies Monographs

African Journals Online (AJOL)

Archives: African Studies Monographs. Journal Home > Archives: African Studies Monographs. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 5 of 5 Items. 2007. Vol 8 (2007) ...

Quantitative image analysis of intra-tumoral bFGF level as a molecular marker of paclitaxel resistance

Directory of Open Access Journals (Sweden)

Wientjes M Guillaume

2008-01-01

Full Text Available Abstract Background The role of basic fibroblast growth factor (bFGF in chemoresistance is controversial; some studies showed a relationship between higher bFGF level and chemoresistance while other studies showed the opposite finding. The goal of the present study was to quantify bFGF levels in archived tumor tissues, and to determine its relationship with chemosensitivity. Methods We established an image analysis-based method to quantify and convert the immunostaining intensity of intra-tumor bFGF to concentrations; this was accomplished by generating standard curves using human xenograft tumors as the renewable tissue source for simultaneous image analysis and ELISA. The relationships between bFGF concentrations and tumor chemosensitivity of patient tumors (n = 87 to paclitaxel were evaluated using linear regression analysis. Results The image analysis results were compared to our previous results obtained using a conventional, semi-quantitative visual scoring method. While both analyses indicated an inverse relationship between bFGF level and tumor sensitivity to paclitaxel, the image analysis method, by providing bFGF levels in individual tumors and therefore more data points (87 numerical values as opposed to four groups of staining intensities, further enabled the quantitative analysis of the relationship in subgroups of tumors with different pathobiological properties. The results show significant correlation between bFGF level and tumor sensitivity to the antiproliferation effect, but not the apoptotic effect, of paclitaxel. We further found stronger correlations of bFGF level and paclitaxel sensitivity in four tumor subgroups (high stage, positive p53 staining, negative aFGF staining, containing higher-than-median bFGF level, compared to all other groups. These findings suggest that the relationship between intra-tumoral bFGF level and paclitaxel sensitivity was context-dependent, which may explain the previous contradictory findings

Theoretical currents of Archival Science

Directory of Open Access Journals (Sweden)

Carlos Alberto Ávila Araújo

2013-08-01

Full Text Available Archival Science was formed, as a scientific discipline, in the late nineteenth century, from the consolidation of a custody and heritage model. In the twentieth century, several theories have been developed, systematized in this article in four axes. As a result, Archival Science has expanded its scope of studies. As a result of this expansion, there are contemporary perspectives with systemic models, covering different types of archives, concerned with the sociocultural context of the archives, and also insering digital technologies in the practice of archives.

Pre-Analytical Considerations for Successful Next-Generation Sequencing (NGS: Challenges and Opportunities for Formalin-Fixed and Paraffin-Embedded Tumor Tissue (FFPE Samples

Directory of Open Access Journals (Sweden)

Gladys Arreaza

2016-09-01

Full Text Available In cancer drug discovery, it is important to investigate the genetic determinants of response or resistance to cancer therapy as well as factors that contribute to adverse events in the course of clinical trials. Despite the emergence of new technologies and the ability to measure more diverse analytes (e.g., circulating tumor cell (CTC, circulating tumor DNA (ctDNA, etc., tumor tissue is still the most common and reliable source for biomarker investigation. Because of its worldwide use and ability to preserve samples for many decades at ambient temperature, formalin-fixed, paraffin-embedded tumor tissue (FFPE is likely to be the preferred choice for tissue preservation in clinical practice for the foreseeable future. Multiple analyses are routinely performed on the same FFPE samples (such as Immunohistochemistry (IHC, in situ hybridization, RNAseq, DNAseq, TILseq, Methyl-Seq, etc.. Thus, specimen prioritization and optimization of the isolation of analytes is critical to ensure successful completion of each assay. FFPE is notorious for producing suboptimal DNA quality and low DNA yield. However, commercial vendors tend to request higher DNA sample mass than what is actually required for downstream assays, which restricts the breadth of biomarker work that can be performed. We evaluated multiple genomics service laboratories to assess the current state of NGS pre-analytical processing of FFPE. Significant differences in pre-analytical capabilities were observed. Key aspects are highlighted and recommendations are made to improve the current practice in translational research.

GPCR Mutation information - GRIPDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GRI...s and exposed in molecular surface. Data file File name: gripdb_mutation_info.zip File URL: ftp://ftp.biosciencedbc.jp/archive/gri...pdb/LATEST/gripdb_mutation_info.zip File size: 766 bytes Si...mple search URL http://togodb.biosciencedbc.jp/togodb/view/gripdb_mutation_info#en Data acquisition method P... Site Policy | Contact Us GPCR Mutation information - GRIPDB | LSDB Archive ...

Optimization of methods to assess mitochondrial DNA in archival paraffin-embedded tissues from mammary canine tumors Otimização dos métodos para avaliar o DNA mitocondrial obtido a partir de tumores mamários caninos incluídos em parafina

Directory of Open Access Journals (Sweden)

Angélica C. Bertagnolli

2008-08-01

Full Text Available In this study we describe the alterations used to extract and amplify mitochondrial desoxyribonucleic acid (DNA from formalin-fixed paraffin-embedded samples of canine mammary tumors. The epithelial and mesenchymal components (chondromyxoid and chondroid of each tumor, as well as the normal mammary gland tissues, were manually microdissected from 19 mixed canine mammary tumors (10 benign mixed tumors and nine carcinomas arising in mixed tumors. DNA was extracted by Invisorb® Spin Tissue Mini Kit, with protocol changes proposed by the manufacturer. A 273-bp fragment was amplified by polymerase chain reaction (PCR and submitted to automatic sequence analysis. The fragment was successfully analyzed in 100% of the samples. However, an additional lysis step, the reduction of volume in buffer solutions and PCR, a higher annealing temperature and an increase in the number of PCR cycles were required. The initial PCR products were diluted and re-amplified in six samples so that they could be successfully analyzed.A presente comunicação descreve as modificações usadas para extrair e amplificar o DNA mitocondrial obtido de amostras de tumores mamários caninos fixados em formol tamponado a 10% e incluídos em parafina. Os componentes epiteliais e mesenquimais (condromixóide e condróide, bem como a mama normal adjacente, foram microdissectados manualmente de 19 tumores mamários (10 tumores mistos benignos e nove carcinomas em tumores mistos. O DNA foi extraído utilizando-se o Invisorb® Spin Tissue Mini Kit com modificações do protocolo proposto pelo fabricante. Um fragmento de 273-pb foi amplificado por reação em cadeia da polimerase (PCR e seqüenciado em seqüenciador automático. O fragmento foi analisado em 100% das amostras, entretanto modificações como lise adicional, redução do volume das soluções de extração e PCR, aumento da temperatura de anelamento e do número de ciclos de amplificação foram necessárias. Em seis

Archives: Malawi Medical Journal

African Journals Online (AJOL)

Items 1 - 50 of 72 ... Archives: Malawi Medical Journal. Journal Home > Archives: Malawi Medical Journal. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 of 72 Items, 1 2 > >> ...

Archives: African Health Sciences

African Journals Online (AJOL)

Items 1 - 50 of 67 ... Archives: African Health Sciences. Journal Home > Archives: African Health Sciences. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 of 67 Items, 1 2 > >> ...

Archives: Health SA Gesondheid

African Journals Online (AJOL)

Items 1 - 42 of 42 ... Archives: Health SA Gesondheid. Journal Home > Archives: Health SA Gesondheid. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 42 of 42 Items. 2018 ...

Download - Open TG-GATEs | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...Download License Update History of This Database Site Policy | Contact Us Download - Open TG-GATEs | LSDB Archive ...

FTP archives for physics

International Nuclear Information System (INIS)

Trunec, D.; Brablec, A.; Kapicka, V.

1995-01-01

We have established archives for programs, data, papers etc. in physics (mainly for plasma physics). The archives are located at computer ftp.muni.cz in the directory pub/muni.cz/physics. These archives can be reached by anonymous FTP or by gopher server gopher.muni.cz (147.251.4.33). At the present time, programs for PC, cross sections for electrons, swarm parameters and rate constants stored are in the archives. We would like to collect the programs for calculations in physics (mainly for PC). We suppose that each program should have a testing example and some description. We would also like to collect physical constants and experimental or theoretical data (e.g. cross sections, swarm parameters and rate constants), which are important for other calculation or for comparison with the results of others studies. Interested scholars are invited to sent us their programs, data, preprints and reports for these archives. All files in the archives are in public domain and can be obtained using computer network Internet

Download - tRNADB-CE | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us tRNAD...f This Database Site Policy | Contact Us Download - tRNADB-CE | LSDB Archive ...

Archives: Mizan Law Review

African Journals Online (AJOL)

Items 1 - 21 of 21 ... Archives: Mizan Law Review. Journal Home > Archives: Mizan Law Review. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 21 of 21 Items. 2017. Vol 11, No 2 ...

Update History of This Database - dbQSNP | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us dbQSNP Update History of This Database Date Update contents 2017/02/16 dbQSNP English archiv...e Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - dbQSNP | LSDB Archive ... ...e site is opened. 2002/10/23 dbQSNP (http://qsnp.gen.kyushu-u.ac.jp/) is opened. About This Database Databas

Fermilab History and Archives Project | Home

Science.gov (United States)

Special Events Early Users Meetings (1979 - 1989) The Tevatron Natural History Discoveries Technology Site Fermilab History and Archives Project Fermilab History and Archives Project Fermi National Accelerator Laboratory Home About the Archives History & Archives Online Request Contact Us Site Index

Update History of This Database - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available CAGE TSS aggregation 」 「 CAGE peaks 」 2015/12/07 FANTOM5 archive site is opened. (Archive V1) 2014/03/27 FANTOM5 ( http://fantom...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...5 Update History of This Database Date Update contents 2017/03/14 FANTOM5 English arch...escription Download License Update History of This Database Site Policy | Contact Us Update History of This Database - FANTOM5 | LSDB Archive ...

Data archiving in experimental physics

International Nuclear Information System (INIS)

Dalesio, L.R.; Watson, W. III; Bickley, M.; Clausen, M.

1998-01-01

In experimental physics, data is archived from a wide variety of sources and used for a wide variety of purposes. In each of these environments, trade-offs are made between data storage rate, data availability, and retrieval rate. This paper presents archive alternatives in EPICS, the overall archiver design and details on the data collection and retrieval requirements, performance studies, design choices, design alternatives, and measurements made on the beta version of the archiver

Update History of This Database - DMPD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us DMPD Update History of This Database Date Update contents 2010/03/29 DMPD English archive si....jp/macrophage/ ) is released. About This Database Database Description Download License Update History of Thi...s Database Site Policy | Contact Us Update History of This Database - DMPD | LSDB Archive ...

Archive-cup insert for liquid-metal sampling

International Nuclear Information System (INIS)

Nelson, P.A.; Kolba, V.M.; Filewicz, E.C.; Holmes, J.T.

1975-01-01

An insert for collecting liquid-metal samples within a vertical casing including an elongated housing with an upper and a lower overflow seal of annular shape is described. The lower seal includes a centrally located pedestal on which a sample cup is disposed. Liquid metal enters the annulus of the upper seal and overflows into the cup which fills and overflows into the lower seal. Liquid-metal overflow from the lower seal is discharged from the insert. On cooling, the liquid metal trapped within the seals solidifies to hermetically isolate the metal sample within the cup. The device is particularly applicable for use with sampling systems on liquid metal-cooled reactors. (U.S.)

The mycobiota associated with paper archives and their potential control

Directory of Open Access Journals (Sweden)

SAIFELDIN A. F. EL-NAGERABI

2014-07-01

Full Text Available El-Nagerabi SAF, Elshafie AE, Al-Hinai UA. 2014. The mycobiota associated with paper archives and their potential control. Nusantara Bioscience 6: 19-25. Historical collections kept in archives and libraries represent a cultural and artistic heritage of innumerable value. Recently in Oman, more than seventy thousand documents were collected from different countries and displayed as archives showed evident sign of mold contamination. The objectives of the present study were to screen these archives for mold invasion and a test for the effective control measure. For this, 102 samples were collected from documents of different sources and incubated on potato dextrose agar (PDA at ambient temperature (25○C±2. The isolated fungi were identified microscopically and confirmed with DNA extraction, PCR and DNA sequencing. Twenty-two fungal species belonging to 11 genera were recovered. The genus Penicillium (46.8% was the most prevalent, followed by Aspergillus (30.7%, Cladosporium (7%, Rhizopus (4%, and Chaetomium (3.5% whereas the remaining 6 genera represent only 8%. Eleven species were previously reported from similar substrates, whereas 11 species and one genus are new records for the mycoflora of archives. Sodium hypochlorite at 0.3-5.2% completely inhibited the fungal growth of the 10 tested fungal isolates with minimum inhibition concentration at 0.7%. Fumigation of books with 0.7-5.2% sodium hypochlorite completely inhibited all fungi without evident damage of the documents or ink discoloration. Therefore, sodium hypochlorite can be recommended as effective and eco-friendly disinfectant for archives comparable to other hazardous chemicals.

BPA and BSH accumulation in experimental tumors

International Nuclear Information System (INIS)

Patel, H.; Sedgwick, E.M.

2000-01-01

The accumulation of boronated compounds into tumors is a critical component to the success of BNCT. To date, great variability has been demonstrated in the tumor:blood ratio achieved in samples both from different patients and within samples taken from the same patient. The factors that probably influence the level of uptake include the vascular perfusion within the tumor, the permeability of these vessels and the viability of the tumor cells themselves. These experiments were designed to measure these various factors in different experimental tumor models and to relate these measurements to the uptake of both BPA (Boronophenylalanine) and BSH (Sodiumborocaptate). They demonstrate that within different tumors there can be wide variations in the vascular parameters. In addition, the viability of the tumor cells may also be an important determinant of tumor uptake. (author)

Ethics and Truth in Archival Research

Science.gov (United States)

Tesar, Marek

2015-01-01

The complexities of the ethics and truth in archival research are often unrecognised or invisible in educational research. This paper complicates the process of collecting data in the archives, as it problematises notions of ethics and truth in the archives. The archival research took place in the former Czechoslovakia and its turbulent political…

Epo receptors are not detectable in primary human tumor tissue samples.

Directory of Open Access Journals (Sweden)

Steve Elliott

Full Text Available Erythropoietin (Epo is a cytokine that binds and activates an Epo receptor (EpoR expressed on the surface of erythroid progenitor cells to promote erythropoiesis. While early studies suggested EpoR transcripts were expressed exclusively in the erythroid compartment, low-level EpoR transcripts were detected in nonhematopoietic tissues and tumor cell lines using sensitive RT-PCR methods. However due to the widespread use of nonspecific anti-EpoR antibodies there are conflicting data on EpoR protein expression. In tumor cell lines and normal human tissues examined with a specific and sensitive monoclonal antibody to human EpoR (A82, little/no EpoR protein was detected and it was not functional. In contrast, EpoR protein was reportedly detectable in a breast tumor cell line (MCF-7 and breast cancer tissues with an anti-EpoR polyclonal antibody (M-20, and functional responses to rHuEpo were reported with MCF-7 cells. In another study, a functional response was reported with the lung tumor cell line (NCI-H838 at physiological levels of rHuEpo. However, the specificity of M-20 is in question and the absence of appropriate negative controls raise questions about possible false-positive effects. Here we show that with A82, no EpoR protein was detectable in normal human and matching cancer tissues from breast, lung, colon, ovary and skin with little/no EpoR in MCF-7 and most other breast and lung tumor cell lines. We show further that M-20 provides false positive staining with tissues and it binds to a non-EpoR protein that migrates at the same size as EpoR with MCF-7 lysates. EpoR protein was detectable with NCI-H838 cells, but no rHuEpo-induced phosphorylation of AKT, STAT3, pS6RP or STAT5 was observed suggesting the EpoR was not functional. Taken together these results raise questions about the hypothesis that most tumors express high levels of functional EpoR protein.

Tumor producing fibroblast growth factor 23 localized by two-staged venous sampling.

NARCIS (Netherlands)

Boekel, G.A.J van; Ruinemans-Koerts, J.; Joosten, F.; Dijkhuizen, P.; Sorge, A.A. van; Boer, H. de

2008-01-01

BACKGROUND: Tumor-induced osteomalacia is a rare paraneoplastic syndrome characterized by hypophosphatemia, renal phosphate wasting, suppressed 1,25-dihydroxyvitamin D production, and osteomalacia. It is caused by a usually benign mesenchymal tumor producing fibroblast growth factor 23 (FGF-23).

Mutational profile of KIT and PDGFRA genes in gastrointestinal stromal tumors in Peruvian samples

Directory of Open Access Journals (Sweden)

José Buleje

2015-02-01

Full Text Available Introduction: Gastrointestinal stromal tumors (GISTs are mesenchymal neoplasms usually caused by somatic mutations in the genes KIT (c-KIT or PDGFRA. Mutation characterization has become an important exam for GIST patients because it is useful in predicting the response to the inhibitors of receptor tyrosine kinase (RTK. Objectives: The aim of this study was to determine the frequency of KIT and PDGFRA mutations in 25 GIST samples collected over two years at two national reference hospitals in Peru. There were 21 samples collected from the Instituto Nacional de Enfermedades Neoplásicas (INEN, national cancer center and 4 samples collected from Hospital A. Loayza. Methods and materials: In this retrospective study, we performed polymerase chain reaction (PCR amplification and deoxyribonucleic acid (DNA sequencing of KIT (exons 9, 11, 13, and 17 and PDGFRA (exons 12 and 18 genes in 20 FFPE (formalin-fixed, paraffin-embedded and 5 frozen GIST samples. Results: We report 21 mutations, including deletions, duplications, and missense, no mutations in 2 samples, and 2 samples with no useful DNA for further analysis. Eighty-six percent of these mutations were located in exon 11 of KIT, and 14 % were located in exon 18 of PDGFRA. Conclusions: Our study identified mutations in 21 out of 25 GIST samples from 2 referential national hospitals in Peru, and the mutation proportion follows a global tendency observed from previous studies (i.e., the majority of samples presented KIT mutations followed by a minor percentage of PDGFRA mutations. This study presents the first mutation data of the KIT and PDGFRA genes from Peruvian individuals with GIST.

Update History of This Database - SAHG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us SAHG Update History of This Database Date Update contents 2016/05/09 SAHG English archive si...te is opened. 2009/10 SAHG ( http://bird.cbrc.jp/sahg ) is opened. About This Database Database Description ...Download License Update History of This Database Site Policy | Contact Us Update History of This Database - SAHG | LSDB Archive ...

Update History of This Database - RMOS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us RMOS Update History of This Database Date Update contents 2015/10/27 RMOS English archive si...12 RMOS (http://cdna01.dna.affrc.go.jp/RMOS/) is opened. About This Database Database Description Download License Update Hi...story of This Database Site Policy | Contact Us Update History of This Database - RMOS | LSDB Archive ...

A MySQL Based EPICS Archiver

International Nuclear Information System (INIS)

Slominski, Christopher

2009-01-01

Archiving a large fraction of the EPICS signals within the Jefferson Lab (JLAB) Accelerator control system is vital for postmortem and real-time analysis of the accelerator performance. This analysis is performed on a daily basis by scientists, operators, engineers, technicians, and software developers. Archiving poses unique challenges due to the magnitude of the control system. A MySQL Archiving system (Mya) was developed to scale to the needs of the control system; currently archiving 58,000 EPICS variables, updating at a rate of 11,000 events per second. In addition to the large collection rate, retrieval of the archived data must also be fast and robust. Archived data retrieval clients obtain data at a rate over 100,000 data points per second. Managing the data in a relational database provides a number of benefits. This paper describes an archiving solution that uses an open source database and standard off the shelf hardware to reach high performance archiving needs. Mya has been in production at Jefferson Lab since February of 2007.

A MySQL Based EPICS Archiver

Energy Technology Data Exchange (ETDEWEB)

Christopher Slominski

2009-10-01

Archiving a large fraction of the EPICS signals within the Jefferson Lab (JLAB) Accelerator control system is vital for postmortem and real-time analysis of the accelerator performance. This analysis is performed on a daily basis by scientists, operators, engineers, technicians, and software developers. Archiving poses unique challenges due to the magnitude of the control system. A MySQL Archiving system (Mya) was developed to scale to the needs of the control system; currently archiving 58,000 EPICS variables, updating at a rate of 11,000 events per second. In addition to the large collection rate, retrieval of the archived data must also be fast and robust. Archived data retrieval clients obtain data at a rate over 100,000 data points per second. Managing the data in a relational database provides a number of benefits. This paper describes an archiving solution that uses an open source database and standard off the shelf hardware to reach high performance archiving needs. Mya has been in production at Jefferson Lab since February of 2007.

License - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM....0 International . If you use data from this database, please be sure attribute this database as follows: FANTOM...se Database Description Download License Update History of This Database Site Policy | Contact Us License - FANTOM5 | LSDB Archive ...

License - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us Trypanoso... Attribution-Share Alike 2.1 Japan . If you use data from this database, please be sure attribute this database as follows: Trypanoso...nse Update History of This Database Site Policy | Contact Us License - Trypanosomes Database | LSDB Archive ...

Utilization of Cell-Transfer Technique for Molecular Testing on Hematoxylin-Eosin-Stained Sections: A Viable Option for Small Biopsies That Lack Tumor Tissues in Paraffin Block.

Science.gov (United States)

Wu, Howard H; Jovonovich, Stephen M; Randolph, Melissa; Post, Kristin M; Sen, Joyashree D; Curless, Kendra; Cheng, Liang

2016-12-01

- In some instances the standard method of doing molecular testing from formalin-fixed, paraffin-embedded block is not possible because of limited tissue. Tumor cell-enriched cell-transfer technique has been proven useful for performing immunocytochemistry and molecular testing on cytologic smears. - To establish the cell-transfer technique as a viable option for isolating tumor cells from hematoxylin-eosin (H&E)-stained slides. - Molecular testing was performed by using the cell-transfer technique on 97 archived H&E-stained slides from a variety of different tumors. Results were compared to the conventional method of molecular testing. - Polymerase chain reaction-based molecular testing via the cell-transfer technique was successfully performed on 82 of 97 samples (85%). This included 39 of 47 cases for EGFR, 10 of 11 cases for BRAF, and 33 of 39 cases for KRAS mutations. Eighty-one of 82 cell-transfer technique samples (99%) showed agreement with previous standard method results, including 4 mutations and 35 wild-type alleles for EGFR, 4 mutations and 6 wild-type alleles for BRAF, and 11 mutations and 21 wild-type alleles for KRAS. There was only 1 discrepancy: a cell-transfer technique with a false-negative >KRAS result (wild type versus G12C). - Molecular testing performed on H&E-stained sections via cell-transfer technique is useful when tissue from cell blocks and small surgical biopsy samples is exhausted and the only available material for testing is on H&E-stained slides.

Long-Term Persistence of Pesticides and TPs in Archived Agricultural Soil Samples and Comparison with Pesticide Application.

Science.gov (United States)

Chiaia-Hernandez, Aurea C; Keller, Armin; Wächter, Daniel; Steinlin, Christine; Camenzuli, Louise; Hollender, Juliane; Krauss, Martin

2017-09-19

For polar and more degradable pesticides, not many data on long-term persistence in soil under field conditions and real application practices exist. To assess the persistence of pesticides in soil, a multiple-compound screening method (log K ow 1.7-5.5) was developed based on pressurized liquid extraction, QuEChERS and LC-HRMS. The method was applied to study 80 polar pesticides and >90 transformation products (TPs) in archived topsoil samples from the Swiss Soil Monitoring Network (NABO) from 1995 to 2008 with known pesticide application patterns. The results reveal large variations between crop type and field sites. For the majority of the sites 10-15 pesticides were identified with a detection rate of 45% at concentrations between 1 and 330 μg/kg dw in soil. Furthermore, TPs were detected in 47% of the cases where the "parent-compound" was applied. Overall, residues of about 80% of all applied pesticides could be detected with half of these found as TPs with a persistence of more than a decade.

Expression of VEGF₁₆₅b, VEGFR1, VEGFR2 and CD34 in benign and malignant tumors of parotid glands.

Science.gov (United States)

Błochowiak, Katarzyna J; Sokalski, Jerzy; Bodnar, Magdalena B; Trzybulska, Dorota; Marszałek, Andrzej K; Witmanowski, Henryk

2018-01-01

Vascular endothelial growth factor (VEGF) is an angiogenic factor and could be involved in the pathogenesis of salivary gland tumors. VEGF exerts its biological function by binding to its receptors, VEGFR1 and VEGFR2. An alternative splice variant of VEGF (VEGFxxxb) is an anti-angiogenic factor. Binding VEGF165b with VEGFR2 results in an impaired angiogenic response. The imbalance of VEGFxxx and VEGFxxxb isoforms can underpin pathological angiogenesis. The purpose of this study was to evaluate and compare the expression of VEGF165b, VEGFR1, VEGFR2, and CD34 in benign and malignant parotid gland tumors and to explore the possible correlations between their expression and clinicopathological features of tumors. The study was performed on archived paraffin-embedded tissue samples derived from 70 patients with benign and malignant parotid gland tumors (25 with malignant tumors, 23 with pleomorphic adenoma and 22 with Warthin's tumor). Immunohistochemical staining of selected tissue sections was performed using monoclonal antibodies. Immunohistochemical staining of selected molecules was used for evaluation of their expression in tissue sections. There were no statistically significant differences in the expression of the selected proteins localized in the tumor and surgical margin taken from the same patient. Expression of VEGFR2 correlated with VEGF165b in mixed tumors. There was a statistically significant difference in the expression of VEGFR1 in malignant tumors between females and males, and between the expression of VEGFR1 and the score of T classification in malignant tumors. VEGF165b cannot be treated as a prognostic factor. VEGF receptors correlated with selected clinicopathological data of malignant tumors, indicating their possible role as a prognostic marker. The balance of VEGF isoforms have a limited influence on the development of parotid glands tumors. The correlation between VEGF165b and VEGFR2 in mixed tumors suggests the existence of an additional

Online Archives

Directory of Open Access Journals (Sweden)

Julian D. Richards

2004-01-01

Full Text Available Online archives are of increasing importance in Archaeological Informatics, but like any new genre they prompt a number of questions. What is their relationship to publication? What should go in them? How should they be delivered and indexed? Can they be preserved? Whilst their delivery requires technology, we must also consider how that technology should best be employed in the service of our discipline. This article attempts to address some of these questions but it need not be read from start to finish. The links from this summary provide one fairly linear route through the text but each section is self-contained and can also be accessed directly from the Contents page. The problems posed by effective publication of archaeological fieldwork have exercised the profession for many decades. The issues raised go to the core of discussion of whether preservation by record is a valid concept, and indeed whether archaeological data exist. There are different schools of thought about the relationship between publication and archiving, but hopefully we can accept that data are recorded observations but still agree that they have a re-use value for re-examination and re-interpretation. Since the 1960s archaeology has experienced a publication crisis point. The scenario is familiar. Excavation is destruction; it is an unrepeatable experiment and the archaeologist has a professional obligation to make a full and accessible record of his/her observations. Yet full publication is increasingly expensive and difficult, and excavation monographs are read by few people, and bought by even fewer. In England the development of post-PPG16 fieldwork has exacerbated the problem by creating a mountain of unpublished grey literature and making the work of synthesis even harder; a similar situation exists in other countries. Meanwhile museum archives are also reaching breaking point; most are running out of storage space, few can provide facilities for access, and

Update History of This Database - SSBD | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us SSBD Update History of This Database Date Update contents 2016/07/25 SSBD English archive si...tion Download License Update History of This Database Site Policy | Contact Us Update History of This Database - SSBD | LSDB Archive ... ...te is opened. 2013/09/03 SSBD ( http://ssbd.qbic.riken.jp/ ) is opened. About This Database Database Descrip

The Comparison Study of Six University Archives

Directory of Open Access Journals (Sweden)

Chun-Fen Liu

2004-03-01

Full Text Available The university archives is not only the extension of a building, but also includes the archival records, archivists and equipments. The university archives is the historical memory of a university, which could let people to predict the future by reviewing the past. The university archives has abundant collections, both teachers and students can review history of this university. This paper mainly compares six university archives of Taiwan, and the interviewing method is used in this research. After comparison of the six university archives, we have found the six university archives have different organizational structures, budgets, and functions. Finally the authors propose some suggestions.[Article content in Chinese

Archives Library Information Center

Data.gov (United States)

National Archives and Records Administration — ALIC is an online library catalog of books, periodicals, and other materials contained in Archives I and II and book collections located in other facilities.

Comparison of Lumipulse® G1200 with Kryptor and Modular E170 for the measurement of 7 tumor markers

OpenAIRE

Marlet , Julien; Bernard , Maguy

2014-01-01

"This is the pre-peer reviewed version of the following article: "Comparison of LUMIPULSE® G1200 With Kryptor and Modular E170 for the Measurement of Seven Tumor Markers", which has been published in final form at http://onlinelibrary.wiley.com/doi/10.1002/jcla.21802/abstract. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Self-Archiving."; Background: Tumor marker measurements are becoming essential for prognosis and follow-up of patien...

The Ethics of Archival Research

Science.gov (United States)

McKee, Heidi A.; Porter, James E.

2012-01-01

What are the key ethical issues involved in conducting archival research? Based on examination of cases and interviews with leading archival researchers in composition, this article discusses several ethical questions and offers a heuristic to guide ethical decision making. Key to this process is recognizing the person-ness of archival materials.…

GRIP Database original data - GRIPDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GRI...PDB GRIP Database original data Data detail Data name GRIP Database original data DOI 10....18908/lsdba.nbdc01665-006 Description of data contents GRIP Database original data It consists of data table...s and sequences. Data file File name: gripdb_original_data.zip File URL: ftp://ftp.biosciencedbc.jp/archive/gripdb/LATEST/gri...e Database Description Download License Update History of This Database Site Policy | Contact Us GRIP Database original data - GRIPDB | LSDB Archive ...

Dynamic Data Management Based on Archival Process Integration at the Centre for Environmental Data Archival

Science.gov (United States)

Conway, Esther; Waterfall, Alison; Pepler, Sam; Newey, Charles

2015-04-01

In this paper we decribe a business process modelling approach to the integration of exisiting archival activities. We provide a high level overview of existing practice and discuss how procedures can be extended and supported through the description of preservation state. The aim of which is to faciliate the dynamic controlled management of scientific data through its lifecycle. The main types of archival processes considered are: • Management processes that govern the operation of an archive. These management processes include archival governance (preservation state management, selection of archival candidates and strategic management) . • Operational processes that constitute the core activities of the archive which maintain the value of research assets. These operational processes are the acquisition, ingestion, deletion, generation of metadata and preservation actvities, • Supporting processes, which include planning, risk analysis and monitoring of the community/preservation environment. We then proceed by describing the feasability testing of extended risk management and planning procedures which integrate current practices. This was done through the CEDA Archival Format Audit which inspected British Atmospherics Data Centre and National Earth Observation Data Centre Archival holdings. These holdings are extensive, comprising of around 2PB of data and 137 million individual files which were analysed and characterised in terms of format based risk. We are then able to present an overview of the risk burden faced by a large scale archive attempting to maintain the usability of heterogeneous environmental data sets. We conclude by presenting a dynamic data management information model that is capable of describing the preservation state of archival holdings throughout the data lifecycle. We provide discussion of the following core model entities and their relationships: • Aspirational entities, which include Data Entity definitions and their associated

Archives: Medical Journal of Zambia

African Journals Online (AJOL)

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Archives: Annals of Pediatric Surgery

African Journals Online (AJOL)

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Archives: Town and Regional Planning

African Journals Online (AJOL)

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Archives: Egyptian Journal of Biology

African Journals Online (AJOL)

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Archives: Pan African Medical Journal

African Journals Online (AJOL)

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Archives: Orient Journal of Medicine

African Journals Online (AJOL)

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Archives: Libyan Journal of Medicine

African Journals Online (AJOL)

Items 1 - 23 of 23 ... Archives: Libyan Journal of Medicine. Journal Home > Archives: Libyan Journal of Medicine. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 23 of 23 Items ...

Archives: African Crop Science Journal

African Journals Online (AJOL)

Items 1 - 50 of 99 ... Archives: African Crop Science Journal. Journal Home > Archives: African Crop Science Journal. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 of 99 ...

Archives: African Crop Science Journal

African Journals Online (AJOL)

Items 51 - 99 of 99 ... Archives: African Crop Science Journal. Journal Home > Archives: African Crop Science Journal. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 51 - 99 of 99 ...

The Index to Marine and Lacustrine Geological Samples: Improving Sample Accessibility and Enabling Current and Future Research

Science.gov (United States)

Moore, C.

2011-12-01

The Index to Marine and Lacustrine Geological Samples is a community designed and maintained resource enabling researchers to locate and request sea floor and lakebed geologic samples archived by partner institutions. Conceived in the dawn of the digital age by representatives from U.S. academic and government marine core repositories and the NOAA National Geophysical Data Center (NGDC) at a 1977 meeting convened by the National Science Foundation (NSF), the Index is based on core concepts of community oversight, common vocabularies, consistent metadata and a shared interface. Form and content of underlying vocabularies and metadata continue to evolve according to the needs of the community, as do supporting technologies and access methodologies. The Curators Consortium, now international in scope, meets at partner institutions biennially to share ideas and discuss best practices. NGDC serves the group by providing database access and maintenance, a list server, digitizing support and long-term archival of sample metadata, data and imagery. Over three decades, participating curators have performed the herculean task of creating and contributing metadata for over 195,000 sea floor and lakebed cores, grabs, and dredges archived in their collections. Some partners use the Index for primary web access to their collections while others use it to increase exposure of more in-depth institutional systems. The Index is currently a geospatially-enabled relational database, publicly accessible via Web Feature and Web Map Services, and text- and ArcGIS map-based web interfaces. To provide as much knowledge as possible about each sample, the Index includes curatorial contact information and links to related data, information and images; 1) at participating institutions, 2) in the NGDC archive, and 3) at sites such as the Rolling Deck to Repository (R2R) and the System for Earth Sample Registration (SESAR). Over 34,000 International GeoSample Numbers (IGSNs) linking to SESAR are

An Archival Search For Young Globular Clusters in Galaxies

Science.gov (United States)

Whitmore, Brad

1995-07-01

One of the most intriguing results from HST has been the discovery of ultraluminous star clusters in interacting and merging galaxies. These clusters have the luminosities, colors, and sizes that would be expected of young globular clusters produced by the interaction. We propose to use the data in the HST Archive to determine how prevalent this phenomena is, and to determine whether similar clusters are produced in other environments. Three samples will be extracted and studied in a systematic and consistent manner: 1} interacting and merging galaxies, 2} starburst galaxies, 3} a control sample of ``normal'' galaxies. A preliminary search of the archives shows that there are at least 20 galaxies in each of these samples, and the number will grow by about 50 observations become available. The data will be used to determine the luminosity function, color histogram , spatial distribution, and structural properties of the clusters using the same techniques employed in our study of NGC 7252 {``Atoms -for-Peace'' galaxy} and NGC 4038/4039 {``The Antennae''}. Our ultimate goals are: 1} to understand how globular clusters form, and 2} to use the clusters as evolutionary tracers to unravel the histories of interacting galaxies.

Avoiding Pitfalls in the Statistical Analysis of Heterogeneous Tumors

Directory of Open Access Journals (Sweden)

Judith-Anne W. Chapman

2009-01-01

Full Text Available Information about tumors is usually obtained from a single assessment of a tumor sample, performed at some point in the course of the development and progression of the tumor, with patient characteristics being surrogates for natural history context. Differences between cells within individual tumors (intratumor heterogeneity and between tumors of different patients (intertumor heterogeneity may mean that a small sample is not representative of the tumor as a whole, particularly for solid tumors which are the focus of this paper. This issue is of increasing importance as high-throughput technologies generate large multi-feature data sets in the areas of genomics, proteomics, and image analysis. Three potential pitfalls in statistical analysis are discussed (sampling, cut-points, and validation and suggestions are made about how to avoid these pitfalls.

Archives: African Journal of Urology

African Journals Online (AJOL)

Items 1 - 50 of 66 ... Archives: African Journal of Urology. Journal Home > Archives: African Journal of Urology. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 of 66 Items, 1 2 ...

Archives: Jos Journal of Medicine

African Journals Online (AJOL)

Items 1 - 18 of 18 ... Archives: Jos Journal of Medicine. Journal Home > Archives: Jos Journal of Medicine. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 18 of 18 Items. 2017 ...

Archives: Edo Journal of Counselling

African Journals Online (AJOL)

Items 1 - 6 of 6 ... Archives: Edo Journal of Counselling. Journal Home > Archives: Edo Journal of Counselling. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 6 of 6 Items. 2011 ...

Archives: les cahiers du cread

African Journals Online (AJOL)

Items 1 - 24 of 24 ... Archives: les cahiers du cread. Journal Home > Archives: les cahiers du cread. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 24 of 24 Items. 2016 ...

Archives: Annals of Modern Education

African Journals Online (AJOL)

Items 1 - 8 of 8 ... Archives: Annals of Modern Education. Journal Home > Archives: Annals of Modern Education. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 8 of 8 Items. 2016 ...

NASA's Astrophysics Data Archives

Science.gov (United States)

Hasan, H.; Hanisch, R.; Bredekamp, J.

2000-09-01

The NASA Office of Space Science has established a series of archival centers where science data acquired through its space science missions is deposited. The availability of high quality data to the general public through these open archives enables the maximization of science return of the flight missions. The Astrophysics Data Centers Coordinating Council, an informal collaboration of archival centers, coordinates data from five archival centers distiguished primarily by the wavelength range of the data deposited there. Data are available in FITS format. An overview of NASA's data centers and services is presented in this paper. A standard front-end modifyer called `Astrowbrowse' is described. Other catalog browsers and tools include WISARD and AMASE supported by the National Space Scince Data Center, as well as ISAIA, a follow on to Astrobrowse.

Download - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available e Description Download License Update History of This Database Site Policy | Contact Us Download - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Download First of all, please read the license of this database. Data na...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

SODA: Smart Objects, Dumb Archives

Science.gov (United States)

Nelson, Michael L.; Maly, Kurt; Zubair, Mohammad; Shen, Stewart N. T.

2004-01-01

We present the Smart Object, Dumb Archive (SODA) model for digital libraries (DLs). The SODA model transfers functionality traditionally associated with archives to the archived objects themselves. We are exploiting this shift of responsibility to facilitate other DL goals, such as interoperability, object intelligence and mobility, and heterogeneity. Objects in a SODA DL negotiate presentation of content and handle their own terms and conditions. In this paper we present implementations of our smart objects, buckets, and our dumb archive (DA). We discuss the status of buckets and DA and how they are used in a variety of DL projects.

Detection of alkaline phosphatase in canine cells previously stained with Wright-Giemsa and its utility in differentiating osteosarcoma from other mesenchymal tumors.

Science.gov (United States)

Ryseff, Julia K; Bohn, Andrea A

2012-09-01

Osteosarcoma (OSA) is a common primary bone tumor in dogs. Demonstration of alkaline phosphatase (ALP) reactivity by tumor cells on unstained slides is useful in differentiating osteosarcoma from other types of sarcoma. However, unstained slides are not always available. The objectives of this study were to evaluate the diagnostic utility of detecting ALP expression in differentiating osteosarcoma from other sarcomas in dogs using cytologic material previously stained with Wright-Giemsa stain and to assess the sensitivity and specificity of ALP expression for diagnosing osteosarcoma using a specific protocol. Archived aspirates of histologically confirmed sarcomas in dogs that had been previously stained with Wright-Giemsa stain were treated with 5-bromo, 4-chloro, 3-indolyl phosphate/nitroblue tetrazolium (BCIP/NBT) as a substrate for ALP. Cells were evaluated for expression of ALP after incubation with BCIP/NBT for 1 hour. Sensitivity and specificity of ALP expression for diagnosis of OSA were calculated. In samples from 83 dogs, cells from 15/17 OSAs and from 4/66 tumors other than OSA (amelanotic melanoma, gastrointestinal stromal tumor, collision tumor, and anaplastic sarcoma) expressed ALP. Sensitivity and specificity of ALP expression detected using BCIP/NBT substrate applied to cells previously stained with Wright-Giemsa stain for OSA were 88 and 94%, respectively. ALP expression detected using BCIP/NBT substrate applied to previously stained cells is useful in differentiating canine OSA from other mesenchymal neoplasms. © 2012 American Society for Veterinary Clinical Pathology.

Proton NMR-based metabolite analyses of archived serial paired serum and urine samples from myeloma patients at different stages of disease activity identifies acetylcarnitine as a novel marker of active disease.

Directory of Open Access Journals (Sweden)

Alessia Lodi

Full Text Available BACKGROUND: Biomarker identification is becoming increasingly important for the development of personalized or stratified therapies. Metabolomics yields biomarkers indicative of phenotype that can be used to characterize transitions between health and disease, disease progression and therapeutic responses. The desire to reproducibly detect ever greater numbers of metabolites at ever diminishing levels has naturally nurtured advances in best practice for sample procurement, storage and analysis. Reciprocally, since many of the available extensive clinical archives were established prior to the metabolomics era and were not processed in such an 'ideal' fashion, considerable scepticism has arisen as to their value for metabolomic analysis. Here we have challenged that paradigm. METHODS: We performed proton nuclear magnetic resonance spectroscopy-based metabolomics on blood serum and urine samples from 32 patients representative of a total cohort of 1970 multiple myeloma patients entered into the United Kingdom Medical Research Council Myeloma IX trial. FINDINGS: Using serial paired blood and urine samples we detected metabolite profiles that associated with diagnosis, post-treatment remission and disease progression. These studies identified carnitine and acetylcarnitine as novel potential biomarkers of active disease both at diagnosis and relapse and as a mediator of disease associated pathologies. CONCLUSIONS: These findings show that samples conventionally processed and archived can provide useful metabolomic information that has important implications for understanding the biology of myeloma, discovering new therapies and identifying biomarkers potentially useful in deciding the choice and application of therapy.

Archival Education in Scandinavian Countries

Directory of Open Access Journals (Sweden)

Muhammet Hanefi Kutluoğlu

2008-03-01

Full Text Available Every country has responsibilities to provide the necessary personnel needed for their archival inheritance by education. Education can be shaped through tradition, historical inheritance and scientifi c necessities by defi ning the right educational method. Scandinavian countries have determined different education models based on their tradition, historical inheritance and requirements. In this article we focused on the formation of archival tradition, application of archival education in Scandinavian countries and the infl uence of the developments taking place in Europe on these countries. The relation between the archival education in European and Scandinavian countries is evaluated through a comparative method, and similarities to other countries are also evaluated. Finally, the present situation of archival education and the measures needed in this fi eld are taken into consideration.

Digital Preservation at the Swiss Federal Archives

International Nuclear Information System (INIS)

Ohnesorge, Krystyna

2012-01-01

The Swiss Federal Archives (SFA) archives Swiss government data when it is no longer in use. The SFA is responsible for advising, inspecting and issuing directives in records management and archiving services in offices, agencies and institutions subjected to the Federal Act on Archiving; as well as archiving and disseminating records and data of archival value. With regard to RWM, it thus in fact is an additional regulator. The conceptual basis for digital archiving at the SFA is based on the ISO OAIS Open Archival Information System Reference Model (ISO 14721:2003). The SFA use a process-orientated approach. The SFA and the Federal Office decide jointly which documents and data are to be archived. Archive-worthy documents and data are selected on the basis of a systematic appraisal. Wherever possible this should be carried out pro-actively - before the documents are actually created - based on an indexing or classification system. If there is clarity, people will know what data - and metadata - to keep for the submission. The submission is split into several stages, from appraisal to the conclusion of the submission. Information is never changed once it is archived, except that it carries out conservation measures. New information is a new submission. The sustainable information management is a core expertise of national archives. The SFA preserves digital records and data and is responsible for their secure and appropriate safe-keeping, description and dissemination. For the archiving of relational databases (e.g. Microsoft Access, Oracle and SQL Server), the SFA have developed a format known as SIARD (Software Independent Archiving of Relational Databases). SIARD is an open standard and is supported by the SIARD Suite application, which can be used to convert relational databases into SIARD format. The SIARD Suite is now in use worldwide (over 170 downloads). The SFA distribute the SIARD Suite free of charge in conformity with the license agreement. Currently

Taxon (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available of This Database Site Policy | Contact Us Taxon (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Taxon (Viridiplantae) Data detail Data name Taxon (Viridiplantae) DOI 10...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

Taxon (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available of This Database Site Policy | Contact Us Taxon (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Taxon (Cyanobacteria) Data detail Data name Taxon (Cyanobacteria) DOI 10...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

Toward a Greater Discourse: Issues in Religious Archives

Directory of Open Access Journals (Sweden)

Robert Presutti

2010-06-01

Full Text Available The topic of religious archives, a catalyst of much discussion in archival literature, has traditionally been overlooked within the discourse of the American Theological Library Association (ATLA. This essay provides a survey analysis of three pertinent issues in religious archives with the intention of generating a wider discussion on religious archives within ATLA. These issues include the role of graduate archival education, the effects of religious faith on both the archival record and the individual archivist, and the idea of a theology of archives. An extended review of the contributions of James O’Toole to the discussion of religious archives is utilized.

Microbiological evaluation of ten French archives and link to occupational symptoms.

Science.gov (United States)

Roussel, S; Reboux, G; Millon, L; Parchas, M-D; Boudih, S; Skana, F; Delaforge, M; Rakotonirainy, M S

2012-12-01

Fungi that damage documents in archives may harm workers' health, depending on which mold species are inhaled, the concentrations of fungal species inhaled, and individual factors. Our aim was to identify and quantify fungi in archives and to investigate possible links with the symptoms experienced by workers. Ten French archives were sampled using an air impactor and electrostatic dust collectors. Allergies and general symptoms felt by 144 workers were reported using a self-report questionnaire. Utilizing culture-based analysis methods along with qPCR, Penicillium chrysogenum, Cladosporium sphaerospermum, and Aspergillus versicolor were the three main fungi in air and dust in terms of quantity and frequency. Median fungal concentrations in storage areas, ranged from 30 to 465 CFU/m(3). People working in the most contaminated archives did not report more symptoms of allergy than others. However, workers in contact with moldy documents reported more headaches (odds ratio, 2.4; 95% confidence interval, 1.1-5.3), fatigue (OR, 2.9; 95% CI, 1.2-6.7), eye irritation (OR, 5.4; 95% CI, 1.9-14.9), throat irritation (OR, 2.4; 95% CI, 1.0-5.7), coughing (OR, 3.2; 95% CI, 1.2-8.4), and rhinorrhea (OR, 2.6; 95% CI, 1.0-6.4) than others. Other parameters such as dust levels and concentrations of metabolites and chemical substances should be considered as confounding factors in further investigations to isolate the role of molds. Most studies about fungi and archives deal with the conservation of manuscripts and documents, and few discuss workers' health problems. Our study shows that archives do not represent a highly contaminated environment. Symptoms felt by workers were more often linked to direct contact with moldy documents than to high concentrations of mold in the air of archive storage areas. This study provides data on concentration levels in archives that could be used to interpret microbiological investigations in this type of environment in the future. © 2012 John

Phenome data - High-sugar stress - DGBY | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...s.zip File size: 90KB File name: Original file: High-sugar_stress.xls File URL: ftp://ftp.biosciencedbc.jp/archive/dgby/LATEST/Hi... Center for Protein Sequences） About This Database Database Description Download License Update History of Thi...s Database Site Policy | Contact Us Phenome data - High-sugar stress - DGBY | LSDB Archive ... ...List Contact us DGBY Phenome data - High-sugar stress Data detail Data name Phenome data - High-sugar stress

Internet FAQ Archives - Online Education - faqs.org

Science.gov (United States)

faqs.org Internet FAQ Archives - Online Education faqs.org faqs.org - Internet FAQ Archives Internet FAQ Archives Online Education Internet RFC Index Usenet FAQ Index Other FAQs Documents Tools IFC Rated FAQs Internet RFC/STD/FYI/BCP Archives The Internet RFC series of documents is also available from

Efficiency of PR communication in establishing links between archives and students: case study of the State Archives in Zadar

Directory of Open Access Journals (Sweden)

Goran Pavelin

2013-03-01

Full Text Available The aim of the paper is to highlight the changing role of archives and to use the case study to indicate the lacking communication with students due to the absence of PR activities, as well as to point to the difficulties of access to digital archival materials needed for student research. Using PR strategies the archives can sensitise the public for its material through different public programmes, exhibitions and fostering goodmedia relations. The archives try to develop good relations with target groups, in this case with students as potential users, taking into consideration their research needs and materials they are interested in. Research findings on student needs for archival data are extremely rare, even in recent American research. Therefore, we conducted this research using a questionnaire for students of four departments of the University of Zadar (geography, history, art history, tourism and communication, who were users of the State Archives in Zadar. The research results show whether the subjects use archival material, for what purposes, and what other resources they used prior to archival material. It also provides information on the level of familiarity with online archival material and use of web pages with archival resources. We can conclude that the students in Zadar are not well acquainted with the digital resources and use them rarely for their research purposes. The situation can be improved by having the State Archives in Zadar take a more proactive role in identifying target groups of students, their user profiles, difficulties they face, and by allowing a more flexible access to archival material. In addition to goo d relations with the Department of Information Sciences, the Archives should foster links with other departments and include them in planning and implementation of their programmes.

Update History of This Database - fRNAdb | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us fRNAdb Update History of This Database Date Update contents 2016/03/29 fRNAdb English archiv...on Download License Update History of This Database Site Policy | Contact Us Update History of This Database - fRNAdb | LSDB Archive ... ...e site is opened. 2006/12 fRNAdb ( http://www.ncrna.org/ ) is opened. About This Database Database Descripti

Archival analyses of eyewitness identification test outcomes: what can they tell us about eyewitness memory?

Science.gov (United States)

Horry, Ruth; Halford, Paul; Brewer, Neil; Milne, Rebecca; Bull, Ray

2014-02-01

Several archival studies of eyewitness identification have been conducted, but the results have been inconsistent and contradictory. We identify some avoidable pitfalls that have been present in previous analyses and present new data that address these pitfalls. We explored associations among various estimator variables and lineup outcomes for 833 "real life" lineups, including 588 lineups in which corroborating evidence of the suspect's guilt existed. Suspect identifications were associated with exposure duration, viewing distance, and the age of the witness. Nonidentifications were associated with the number of perpetrators. We also consider some of the inherent, unavoidable limitations with archival studies and consider what such studies can really tell researchers. We conclude that differences in sampling prohibit sensible comparisons between the results of laboratory and archival studies, and that the informational value of archival studies is actually rather limited.

Influence of solar activity and environment on 10Be in recent natural archives

International Nuclear Information System (INIS)

Berggren, Ann-Marie

2009-01-01

Understanding the link between the Sun and climate is vital in the current incidence of global climate change, and 10 Be in natural archives constitutes an excellent tracer for this purpose. As cosmic rays enter the atmosphere, cosmogenic isotopes like 10 Be and 14 C are formed. Variations in solar activity modulate the amount of incoming cosmic rays, and thereby cosmogenic isotope production. Atmospherically produced 10 Be enters natural archives such as sediments and glaciers by wet and dry deposition within about a year of production. 10 Be from natural archives therefore provides information on past solar activity, and because these archives also contain climate information, solar activity and climate can be linked. One remaining question is to what degree 10 Be in natural archives reflects production, and to what extent the local and regional environment overprints the production signal. To explore this, 10 Be was measured at annual resolution over the last 600 years in a Greenland ice core. Measurement potentials for these samples benefited from the development of a new laboratory method of co-precipitating 10 Be with niobium. To diversify geographic location and archive media type, a pioneer study of measuring 10 Be with annual resolution in varved lake sediments from Finland was conducted, with samples from the entire 20th century. Pathways of 10 Be into lake sediments are more complex than into glacial ice, inferring that contemporary atmospheric conditions may not be recorded. Here, it is shown for the first time that tracing the 11-year solar cycle through lake sediment 10 Be variations is possible. Results also show that on an annual basis, 10 Be deposition in ice and sediment archives is affected by local environmental conditions. On a slightly longer timescale, however, diverse 10 Be records exhibit similar trends and a negative correlation with solar activity. Cyclic variability of 10 Be deposition persisted throughout past grand solar minima, when

Planetary Data Archiving Activities of ISRO

Science.gov (United States)

Gopala Krishna, Barla; D, Rao J.; Thakkar, Navita; Prashar, Ajay; Manthira Moorthi, S.

ISRO has launched its first planetary mission to moon viz., Chandrayaan-1 on October 22, 2008. This mission carried eleven instruments; a wealth of science data has been collected during its mission life (November 2008 to August 2009), which is archived at Indian Space Science Data Centre (ISSDC). The data centre ISSDC is responsible for the Ingest, storage, processing, Archive, and dissemination of the payload and related ancillary data in addition to real-time spacecraft operations support. ISSDC is designed to provide high computation power, large storage and hosting a variety of applications necessary to support all the planetary and space science missions of ISRO. State-of-the-art architecture of ISSDC provides the facility to ingest the raw payload data of all the science payloads of the science satellites in automatic manner, processes raw data and generates payload specific processed outputs, generate higher level products and disseminates the data sets to principal investigators, guest observers, payload operations centres (POC) and to general public. The data archive makes use of the well-proven archive standards of the Planetary Data System (PDS). The long term Archive for five payloads of Chandrayaan-1 data viz., TMC, HySI, SARA, M3 and MiniSAR is released from ISSDC on19th April 2013 (http://www.issdc.gov.in) to the users. Additionally DEMs generated from possible passes of Chandrayaan-1 TMC stereo data and sample map sheets of Lunar Atlas are also archived and released from ISSDC along with the LTA. Mars Orbiter Mission (MOM) is the recent planetary mission launched on October 22, 2013; currently enroute to MARS, carrying five instruments (http://www.isro.org) viz., Mars Color Camera (MCC) to map various morphological features on Mars with varying resolution and scales using the unique elliptical orbit, Methane Sensor for Mars (MSM) to measure total column of methane in the Martian atmosphere, Thermal Infrared Imaging Spectrometer (TIS) to map surface

Update History of This Database - RMG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us RMG Update History of This Database Date Update contents 2016/08/22 The contact address is c...dna.affrc.go.jp/ ) is opened. About This Database Database Description Download License Update Hi...story of This Database Site Policy | Contact Us Update History of This Database - RMG | LSDB Archive ... ... URL of the portal site is changed. 2013/08/07 RMG archive site is opened. 2002/09/25 RMG ( http://rmg.rice.

Update History of This Database - DGBY | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us DGBY Update History of This Database Date Update contents 2014/10/20 The URL of the portal s...aro.affrc.go.jp/yakudachi/yeast/index.html ) is opened. About This Database Database Description Download License Update Hi...story of This Database Site Policy | Contact Us Update History of This Database - DGBY | LSDB Archive ... ... Expression of attribution in License is updated. 2012/03/08 DGBY English archive site is opened. 2006/10/02

The FARC fuel archive of VVER

International Nuclear Information System (INIS)

Zizin, M.N.; Parfenova, N.A.; Proselkov, V.N.; Shishkov, L.K.

1998-01-01

The principles of organisation are explained and the structure of the FARC fuel archive for VVER reactors is described. The objective of the archive is accumulation of fuel data, data storage and obtaining the fuel using characteristics. The working version of fuel archive on 01.07.98 is realised, in which the data tables for fuel assemblies for 169 VVER-440 cycles and 35 VVER-1000 cycles are stored. There are two different versions of fuel archive - for VVER-440 (FARC) and for VVER-1000 (FARC1000). A structure of some tables and the texts of programs for them differ. The algorithms and codes for checking integrity, reasonableness and reliability of fuel archive data are developed. (author)

Miniaturizing 3D assay for high-throughput drug and genetic screens for small patient-derived tumor samples (Conference Presentation)

Science.gov (United States)

Rotem, Asaf; Garraway, Levi; Su, Mei-Ju; Basu, Anindita; Regev, Aviv; Struhl, Kevin

2017-02-01

Three-dimensional growth conditions reflect the natural environment of cancer cells and are crucial to be performed at drug screens. We developed a 3D assay for cellular transformation that involves growth in low attachment (GILA) conditions and is strongly correlated with the 50-year old benchmark assay-soft agar. Using GILA, we performed high-throughput screens for drugs and genes that selectively inhibit or increase transformation, but not proliferation. This phenotypic approach is complementary to our genetic approach that utilizes single-cell RNA-sequencing of a patient sample to identify putative oncogenes that confer sensitivity to drugs designed to specifically inhibit the identified oncoprotein. Currently, we are dealing with a big challenge in our field- the limited number of cells that might be extracted from a biopsy. Small patient-derived samples are hard to test in the traditional multiwell plate and it will be helpful to minimize the culture area and the experimental system. We managed to design a suitable microfluidic device for limited number of cells and perform the assay using image analysis. We aim to test drugs on tumor cells, outside of the patient body- and recommend on the ideal treatment that is tailored to the individual. This device will help to minimize biopsy-sampling volumes and minimize interventions in the patient's tumor.

Pathway enrichment and co-expression cluster analysis - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...lusters File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/phase1.3/extra/Co-expression_clusters...ite Policy | Contact Us Pathway enrichment and co-expression cluster analysis - FANTOM5 | LSDB Archive ...

Archival Information Management System.

Science.gov (United States)

1995-02-01

management system named Archival Information Management System (AIMS), designed to meet the audit trail requirement for studies completed under the...are to be archived to the extent that future reproducibility and interrogation of results will exist. This report presents a prototype information

Update History of This Database - TogoTV | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us TogoTV Update History of This Database Date Update contents 2017/05/12 TogoTV English archiv...ription Download License Update History of This Database Site Policy | Contact Us Update History of This Database - TogoTV | LSDB Archive ... ...e site is opened. 2007/07/20 TogoTV ( http://togotv.dbcls.jp/ ) is opened. About This Database Database Desc

Update History of This Database - ConfC | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us ConfC Update History of This Database Date Update contents 2016/09/20 ConfC English archive ...tion Download License Update History of This Database Site Policy | Contact Us Update History of This Database - ConfC | LSDB Archive ... ...site is opened. 2005/05/01 ConfC (http://mbs.cbrc.jp/ConfC/) is opened. About This Database Database Descrip

Update History of This Database - tRNADB-CE | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us tRNAD...11/08/25 License is updated. 2010/03/29 tRNADB-CE English archive site is opened. 2008/7/1 tRNADB-CE( http:/...Download License Update History of This Database Site Policy | Contact Us Update History of This Database - tRNADB-CE | LSDB Archive ...

Costs of Archival Storage

DEFF Research Database (Denmark)

Nielsen, Anders Bo; Thirifays, Alex; Kejser, Ulla Bøgvad

2012-01-01

to determine the costs of establishing and maintaining a preservation solution destined for long-term preservation of digital materials and to develop a tool capable of doing this operation. In order to fulfill the purposes, the project employed a combination of own and external experience as well as the OAIS......This paper presents an analysis of the cost of archival storage. The study is part of a project conducted by The Danish National Archives, The Royal Library, and The State and University Library to develop a generic cost model for digital preservation (CMDP). The purposes of the study were...... Reference Model as a framework to fully understand and identify the cost critical activities of bit-preservation as described in Archival Storage. We found that the costs of Archival Storage are obviously closely linked to the data volume, but also to the required preservation quality, especially...

Protein (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available ase Description Download License Update History of This Database Site Policy | Contact Us Protein (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Protein (Viridiplantae) Data detail Data name Protein (Viridiplantae) DO...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

License - Plabrain DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us Plabrain... Alike 2.1 Japan . If you use data from this database, please be sure attribute this database as follows: Plabrain...of this database (http://dbarchive.lifesciencedb.jp/english/en/plabrain-db/desc.html) in the article or pape...se Description Download License Update History of This Database Site Policy | Contact Us License - Plabrain DB | LSDB Archive ...

Archiving Electronic Publications - a Librarian's Point of View

Science.gov (United States)

Grothkopf, U.

Archiving electronic journals is complex. There are many questions: Who is responsible for archiving? What is archived? How many copies should be archived. How can one ensure the integrity of electronic documents? How can access be maintained? Technology will provide some answers. Electronic archives will require periodic refreshing and migration to new technology. Many factors remain unknown at present.

A Background to Motion Picture Archives.

Science.gov (United States)

Fletcher, James E.; Bolen, Donald L., Jr.

The emphasis of archives is on the maintenance and preservation of materials for scholarly research and professional reference. Archives may be established as separate entities or as part of a library or museum. Film archives may include camera originals (positive and negative), sound recordings, outtakes, scripts, contracts, advertising…

Protein (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available ut This Database Database Description Download License Update History of This Database Site Policy | Contact Us Protein (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Protein (Cyanobacteria) Data detail Data name Protein (Cyanobacteria) DO...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

Reframing transitions and contesting memories: The archive and the archival object in Peruvian cinema

OpenAIRE

Barrow, Sarah

2015-01-01

This essay considers the stories behind the production and screening of two very different Peruvian films that both reveal much about the way the archive, the archival object and archival fragment have worked to disrupt and force a reconsideration of key moments in Peruvian political history of the twentieth century. One, a feature film by Francisco Lombardi, Ojos que no ven/Eyes that don’t see (2003), provides a provocative perspective on the impact of the televisual revelations of the corru...

Interoperable Access to NCAR Research Data Archive Collections

Science.gov (United States)

Schuster, D.; Ji, Z.; Worley, S. J.; Manross, K.

2014-12-01

The National Center for Atmospheric Research (NCAR) Research Data Archive (RDA) provides free access to 600+ observational and gridded dataset collections. The RDA is designed to support atmospheric and related sciences research, updated frequently where datasets have ongoing production, and serves data to 10,000 unique users annually. The traditional data access options include web-based direct archive file downloads, user selected data subsets and format conversions produced by server-side computations, and client and cURL-based APIs for routine scripted data retrieval. To enhance user experience and utility, the RDA now also offers THREDDS Data Server (TDS) access for many highly valued dataset collections. TDS offered datasets are presented as aggregations, enabling users to access an entire dataset collection, that can be comprised of 1000's of files, through a single virtual file. The OPeNDAP protocol, supported by the TDS, allows compatible tools to open and access these virtual files remotely, and make the native data file format transparent to the end user. The combined functionality (TDS/OPeNDAP) gives users the ability to browse, select, visualize, and download data from a complete dataset collection without having to transfer archive files to a local host. This presentation will review the TDS basics and describe the specific TDS implementation on the RDA's diverse archive of GRIB-1, GRIB-2, and gridded NetCDF formatted dataset collections. Potential future TDS implementation on in-situ observational dataset collections will be discussed. Illustrative sample cases will be used to highlight the end users benefits from this interoperable data access to the RDA.

Rapid surface sampling and archival record system

Energy Technology Data Exchange (ETDEWEB)

Barren, E.; Penney, C.M.; Sheldon, R.B. [GE Corporate Research and Development Center, Schenectady, NY (United States)] [and others

1995-10-01

A number of contamination sites exist in this country where the area and volume of material to be remediated is very large, approaching or exceeding 10{sup 6} m{sup 2} and 10{sup 6} m{sup 3}. Typically, only a small fraction of this material is actually contaminated. In such cases there is a strong economic motivation to test the material with a sufficient density of measurements to identify which portions are uncontaminated, so extensively they be left in place or be disposed of as uncontaminated waste. Unfortunately, since contamination often varies rapidly from position to position, this procedure can involve upwards of one million measurements per site. The situation is complicated further in many cases by the difficulties of sampling porous surfaces, such as concrete. This report describes a method for sampling concretes in which an immediate distinction can be made between contaminated and uncontaminated surfaces. Sample acquisition and analysis will be automated.

Circulating tumor DNA functions as an alternative for tissue to overcome tumor heterogeneity in advanced gastric cancer.

Science.gov (United States)

Gao, Jing; Wang, Haixing; Zang, Wanchun; Li, Beifang; Rao, Guanhua; Li, Lei; Yu, Yang; Li, Zhongwu; Dong, Bin; Lu, Zhihao; Jiang, Zhi; Shen, Lin

2017-09-01

Overcoming tumor heterogeneity is a major challenge for personalized treatment of gastric cancer, especially for human epidermal growth factor receptor-2 targeted therapy. Analysis of circulating tumor DNA allows a more comprehensive analysis of tumor heterogeneity than traditional biopsies in lung cancer and breast cancer, but little is known in gastric cancer. We assessed mutation profiles of ctDNA and primary tumors from 30 patients with advanced gastric cancer, then performed a comprehensive analysis of tumor mutations by multiple biopsies from five patients, and finally analyzed the concordance of HER2 amplification in ctDNA and paired tumor tissues in 70 patients. By comparing with a single tumor sample, ctDNA displayed a low concordance of mutation profile, only approximately 50% (138/275) somatic mutations were found in paired tissue samples, however, when compared with multiple biopsies, most DNA mutations in ctDNA were also shown in paired tumor tissues. ctDNA had a high concordance (91.4%, Kappa index = 0.784, P < 0.001) of HER2 amplification with tumor tissues, suggesting it might be an alternative for tissue. It implied that ctDNA-based assessment could partially overcome the tumor heterogeneity, and might serve as a potential surrogate for HER2 analysis in gastric cancer. © 2017 The Authors. Cancer Science published by John Wiley & Sons Australia, Ltd on behalf of Japanese Cancer Association.

Archives: South African Journal of Botany

African Journals Online (AJOL)

Archives: South African Journal of Botany. Journal Home > Archives: South African Journal of Botany. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. This journal has not ...

License - tRNADB-CE | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us tRNAD...-Share Alike 2.1 Japan. If you use data from this database, please be sure attribute this database as follows: tRNAD...: About This Database Database Description Download License Update History of This Database Site Policy | Contact Us License - tRNADB-CE | LSDB Archive ...

Download - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM... and CAGE TSS aggregation fantom5_new_experimental_details.zip (273 KB) basic (1.3 TB) Simple search and dow...nload 3 (reprocessed)HeliscopeCAGE sequencing, Delve mapping and CAGE TSS aggregation fantom5_rp_exp_details...access [here]. About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - FANTOM5 | LSDB Archive ...

Web Archives for the Analog Archivist: Using Webpages Archived by the Internet Archive to Improve Processing and Description

OpenAIRE

Gelfand, Aleksandr

2018-01-01

Twenty years ago the Internet Archive was founded with the wide-ranging mission of providing universal access to all knowledge. In the two decades since, that organization has captured and made accessible over 150 billion websites. By incorporating the use of Internet Archive's Wayback Machine into their workflows, archivists working primarily with analog records may enhance their ability in such tasks as the construction of a processing plan, the creation of more accurate historical descript...

Archives: Ethiopian Journal of Health Sciences

African Journals Online (AJOL)

Items 1 - 50 of 65 ... Archives: Ethiopian Journal of Health Sciences. Journal Home > Archives: Ethiopian Journal of Health Sciences. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives ...

Trace metal depositional patterns from an open pit mining activity as revealed by archived avian gizzard contents

Energy Technology Data Exchange (ETDEWEB)

Bendell, L.I., E-mail: bendell@sfu.ca

2011-02-15

Archived samples of blue grouse (Dendragapus obscurus) gizzard contents, inclusive of grit, collected yearly between 1959 and 1970 were analyzed for cadmium, lead, zinc, and copper content. Approximately halfway through the 12-year sampling period, an open-pit copper mine began activities, then ceased operations 2 years later. Thus the archived samples provided a unique opportunity to determine if avian gizzard contents, inclusive of grit, could reveal patterns in the anthropogenic deposition of trace metals associated with mining activities. Gizzard concentrations of cadmium and copper strongly coincided with the onset of opening and the closing of the pit mining activity. Gizzard zinc and lead demonstrated significant among year variation; however, maximum concentrations did not correlate to mining activity. The archived gizzard contents did provide a useful tool for documenting trends in metal depositional patterns related to an anthropogenic activity. Further, blue grouse ingesting grit particles during the time of active mining activity would have been exposed to toxicologically significant levels of cadmium. Gizzard lead concentrations were also of toxicological significance but not related to mining activity. This type of 'pulse' toxic metal exposure as a consequence of open-pit mining activity would not necessarily have been revealed through a 'snap-shot' of soil, plant or avian tissue trace metal analysis post-mining activity. - Research Highlights: {yields} Archived gizzard samples reveals mining history. {yields} Grit ingestion exposes grouse to cadmium and lead. {yields} Grit selection includes particles enriched in cadmium. {yields} Cadmium enriched particles are of toxicological significance.

Issues and prospects of digitizing liberation movements' archives ...

African Journals Online (AJOL)

User

collective memory. Keywords: digitization,. NAHECS, liberation archives, digitally born, audio- visual. Introduction and background to liberation archives. Archives are generally records of .... long term preservation and access to selected archival materials ..... by International Library of African Music. (ILAM) in. Rhodes.

Life Sciences Data Archive (LSDA)

Data.gov (United States)

National Aeronautics and Space Administration — NASA's Life Sciences Data Archive (LSDA) is an active archive that provides information and data from 1961 (Mercury Project) through current flight and flight analog...

Archives: South African Journal of Education

African Journals Online (AJOL)

Items 1 - 50 of 66 ... Archives: South African Journal of Education. Journal Home > Archives: South African Journal of Education. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 50 ...

Archives: West African Journal of Medicine

African Journals Online (AJOL)

Items 1 - 40 of 40 ... Archives: West African Journal of Medicine. Journal Home > Archives: West African Journal of Medicine. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 40 of ...

Archives: Journal of Psychology in Africa

African Journals Online (AJOL)

Archives: Journal of Psychology in Africa. Journal Home > Archives: Journal of Psychology in Africa. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 4 of 4 Items. 2005. Vol 15 ...

Providing comprehensive and consistent access to astronomical observatory archive data: the NASA archive model

Science.gov (United States)

McGlynn, Thomas; Fabbiano, Giuseppina; Accomazzi, Alberto; Smale, Alan; White, Richard L.; Donaldson, Thomas; Aloisi, Alessandra; Dower, Theresa; Mazzerella, Joseph M.; Ebert, Rick; Pevunova, Olga; Imel, David; Berriman, Graham B.; Teplitz, Harry I.; Groom, Steve L.; Desai, Vandana R.; Landry, Walter

2016-07-01

Since the turn of the millennium a constant concern of astronomical archives have begun providing data to the public through standardized protocols unifying data from disparate physical sources and wavebands across the electromagnetic spectrum into an astronomical virtual observatory (VO). In October 2014, NASA began support for the NASA Astronomical Virtual Observatories (NAVO) program to coordinate the efforts of NASA astronomy archives in providing data to users through implementation of protocols agreed within the International Virtual Observatory Alliance (IVOA). A major goal of the NAVO collaboration has been to step back from a piecemeal implementation of IVOA standards and define what the appropriate presence for the US and NASA astronomy archives in the VO should be. This includes evaluating what optional capabilities in the standards need to be supported, the specific versions of standards that should be used, and returning feedback to the IVOA, to support modifications as needed. We discuss a standard archive model developed by the NAVO for data archive presence in the virtual observatory built upon a consistent framework of standards defined by the IVOA. Our standard model provides for discovery of resources through the VO registries, access to observation and object data, downloads of image and spectral data and general access to archival datasets. It defines specific protocol versions, minimum capabilities, and all dependencies. The model will evolve as the capabilities of the virtual observatory and needs of the community change.

The new European Hubble archive

Science.gov (United States)

De Marchi, Guido; Arevalo, Maria; Merin, Bruno

2016-01-01

The European Hubble Archive (hereafter eHST), hosted at ESA's European Space Astronomy Centre, has been released for public use in October 2015. The eHST is now fully integrated with the other ESA science archives to ensure long-term preservation of the Hubble data, consisting of more than 1 million observations from 10 different scientific instruments. The public HST data, the Hubble Legacy Archive, and the high-level science data products are now all available to scientists through a single, carefully designed and user friendly web interface. In this talk, I will show how the the eHST can help boost archival research, including how to search on sources in the field of view thanks to precise footprints projected onto the sky, how to obtain enhanced previews of imaging data and interactive spectral plots, and how to directly link observations with already published papers. To maximise the scientific exploitation of Hubble's data, the eHST offers connectivity to virtual observatory tools, easily integrates with the recently released Hubble Source Catalog, and is fully accessible through ESA's archives multi-mission interface.

The Rosetta Science Archive: Status and Plans for Completing and Enhancing the Archive Content

Science.gov (United States)

Heather, D.; Barthelemy, M.; Fraga, D.; Grotheer, E.; O'Rourke, L.; Taylor, M.

2017-09-01

On 30 September 2016, Rosetta's signal flat-lined, confirming that the spacecraft had completed its incredible mission by landing on the surface of Comet 67P/Churyumov-Gerasimenko. Although this marked an end to the spacecraft's active operations, intensive work is still on-going with instrument teams preparing their final science data increments for delivery and ingestion into ESA's Planetary Science Archive (PSA). In addition to this, ESA is establishing contracts with a number of instrument teams to enhance and improve their data and documentation in an effort to provide the best long- term archive possible for the Rosetta mission. This presentation will outline the current status of the Rosetta archive, as well as highlighting some of the 'enhanced archiving' activities planned and underway with the various instrument teams on Rosetta to ensure the scientific legacy of the mission.

Statistical aspects of tumor registries, Hiroshima and Nagasaki

Energy Technology Data Exchange (ETDEWEB)

Ishida, M

1961-02-24

Statistical considerations are presented on the tumor registries established for purpose of studying radiation induced carcinoma in Hiroshima and Nagasaki by observing tumors developing in the survivors of these cities. In addition to describing the background and purpose of the tumor registries the report consists of two parts: (1) accuracy of reported tumor cases and (2) statistical aspects of the incidence of tumors based both on a current population and on a fixed sample. Under the heading background, discussion includes the difficulties in attaining complete registration; the various problems associated with the tumor registries; and the special characteristics of tumor registries in Hiroshima and Nagasaki. Beye's a posteriori probability formula was applied to the Type I and Type II errors in the autopsy data of Hiroshima ABCC. (Type I, diagnosis of what is not cancer as cancer; Type II, diagnosis of what is cancer as noncancer.) Finally, the report discussed the difficulties in estimating a current population of survivors; the advantages and disadvantages of analyses based on a fixed sample and on an estimated current population; the comparison of incidence rates based on these populations using the 20 months' data of the tumor registry in Hiroshima; and the sample size required for studying radiation induced carcinoma. 10 references, 1 figure, 8 tables.

Prediction information - GRIPDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GRI...a.nbdc01665-004 Description of data contents Predicted GPCR interaction regions Data file File name: gripdb_...predicted_info.zip File URL: ftp://ftp.biosciencedbc.jp/archive/gripdb/LATEST/gripdb_predicted_info.zip File... size: 219 KB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/gripdb...entries Data item Description ID Prediction information ID GRIP ID GRIP ID related wigh the prediction Predi

Envirion - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available [ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...y approved drugs. Data file File name: kegg_medicus_environ_en.zip File URL: ftp:...//ftp.biosciencedbc.jp/archive/kegg-medicus/LATEST/kegg_medicus_environ_en.zip File size: 79 KB Simple searc...h URL http://togodb.biosciencedbc.jp/togodb/view/kegg_medicus_environ_en Data acquisition method - Data anal

Disease - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available [ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...bling computational processing and analysis of disease data. Data file File name: kegg_medi...cus_disease_en.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kegg-medicus/LATEST/kegg_medicus_d...isease_en.zip File size: 733 KB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/kegg_medicus_di

Drug - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available [ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...metabolizing enzyme, and other molecular interaction network information. Data file File name: kegg_medi...cus_drug_en.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kegg-medicus/LATEST/kegg_medi...cus_drug_en.zip File size: 5.2 MB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/kegg_medi

License - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available [ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...ion-NonCommercial-NoDerivs 2.1 Japan. If you use data from this database, please be sure attribute this data...whole of this database, and acquire data; and freely redistribute part or whole of the data from this databa...This Database Site Policy | Contact Us License - KEGG MEDICUS | LSDB Archive ...

Update History of This Database - KAIKOcDNA | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us KAIKOcDNA Update History of This Database Date Update contents 2014/10/20 The URL of the dat... database ( http://sgp.dna.affrc.go.jp/EST/ ) is opened. About This Database Database Description Download License Update Hi...story of This Database Site Policy | Contact Us Update History of This Database - KAIKOcDNA | LSDB Archive ... ...abase maintenance site is changed. 2014/10/08 KAIKOcDNA English archive site is opened. 2004/04/12 KAIKOcDNA

Update History of This Database - TP Atlas | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us TP Atlas Update History of This Database Date Update contents 2013/12/16 The email address i...s ( http://www.tanpaku.org/tpatlas/ ) is opened. About This Database Database Description Download License Update History of Thi...s Database Site Policy | Contact Us Update History of This Database - TP Atlas | LSDB Archive ... ...n the contact information is corrected. 2013/11/19 TP Atlas English archive site is opened. 2008/4/1 TP Atla

Update History of This Database - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available glish archive site is opened. 2010/10/01 KEGG MEDICUS ( http://www.kegg.jp/kegg/medicus/ ) is opened. About ...[ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...CUS Update History of This Database Date Update contents 2014/05/09 KEGG MEDICUS En...This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - KEGG MEDICUS | LSDB Archive ...

Colorectal cancer patient-derived xenografted tumors maintain characteristic features of the original tumors.

Science.gov (United States)

Cho, Yong Beom; Hong, Hye Kyung; Choi, Yoon-La; Oh, Ensel; Joo, Kyeung Min; Jin, Juyoun; Nam, Do-Hyun; Ko, Young-Hyeh; Lee, Woo Yong

2014-04-01

Despite significant improvements in colon cancer outcomes over the past few decades, preclinical development of more effective therapeutic strategies is still limited by the availability of clinically relevant animal models. To meet those clinical unmet needs, we generated a well-characterized in vivo preclinical platform for colorectal cancer using fresh surgical samples. Primary and metastatic colorectal tumor tissues (1-2 mm(3)) that originate from surgery were implanted into the subcutaneous space of nude mice and serially passaged in vivo. Mutation status, hematoxylin and eosin staining, short tandem repeat profiling, and array comparative genomic hybridization were used to validate the similarity of molecular characteristics between the patient tumors and tumors obtained from xenografts. From surgical specimens of 143 patients, 97 xenograft models were obtained in immunodeficient mice (establish rate = 67%). Thirty-nine xenograft models were serially expanded further in mice with a mean time to reach a size of 1000-1500 mm(3) of 90 ± 20 d. Histologic and immunohistochemical analyses revealed a high degree of pathologic similarity including histologic architecture and expression of CEA, CK7, and CD20 between the patient and xenograft tumors. Molecular analysis showed that genetic mutations, genomic alterations, and gene expression patterns of each patient tumor were also well conserved in the corresponding xenograft tumor. Xenograft animal models derived from fresh surgical sample maintained the key characteristic features of the original tumors, suggesting that this in vivo platform can be useful for preclinical development of novel therapeutic approaches to colorectal cancers. Copyright © 2014 Elsevier Inc. All rights reserved.

Archives: Journal of Mining and Geology

African Journals Online (AJOL)

Items 1 - 13 of 13 ... Archives: Journal of Mining and Geology. Journal Home > Archives: Journal of Mining and Geology. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 13 of 13 ...

Archives: African Journal of Oral Health

African Journals Online (AJOL)

Items 1 - 6 of 6 ... Archives: African Journal of Oral Health. Journal Home > Archives: African Journal of Oral Health. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 6 of 6 Items ...

Major vault protein/lung resistance-related protein (MVP/LRP) expression in nervous system tumors.

Science.gov (United States)

Sasaki, Tsutomu; Hankins, Gerald R; Helm, Gregory A

2002-01-01

Lung resistance-related protein (LRP) was identified as the major vault protein (MVP), the main component of multimeric vault particles. It functions as a transport-associated protein that can be associated with multidrug resistance. In previous studies, expression of MVP/LRP has been documented in tumors of various types. In general, good correlations have been reported for expression of MVP/LRP and decreased sensitivity to chemotherapy and poor prognosis. MVP/LRP expression has been documented in glioblastomas, but its expression in nervous system tumors in general has not been well characterized. Immunohistochemistry using anti-human MVP/LRP antibody (LRP-56) was performed on formalin-fixed, paraffin-embedded archival tissue from 69 primary central nervous system tumors. Expression of MVP/LRP was observed in 81.2% (56/69) of primary nervous system tumors, including astrocytomas (11/13), oligodendrogliomas (1/2), oligoastrocytomas (5/5), ependymoma (1/1), meningiomas (35/45), schwannomas (2/2), and neurofibroma (1/1). Various degrees and distributions of immunoreactivity to MVP/ LRP were observed. Neither the presence nor the degree of immunoreactivity to MVP/LRP showed any correlation with either tumor grade or the presence of brain invasion.

Study on archive management for nuclear facility decommissioning projects

International Nuclear Information System (INIS)

Huang Ling; Gong Jing; Luo Ning; Liao Bing; Zhou Hao

2011-01-01

This paper introduces the main features and status of the archive management for nuclear facility decommissioning projects, and explores and discusses the countermeasures in its archive management. Taking the practice of the archive management system of a reactor decommissioning project as an example, the paper illustrates the establishment of archive management system for the nuclear facility decommissioning projects. The results show that the development of a systematic archive management principle and system for nuclear decommissioning projects and the construction of project archives for the whole process from the design to the decommissioning by digitalized archive management system are one effective route to improve the complete, accurate and systematic archiving of project documents, to promote the standardization and effectiveness of the archive management and to ensure the traceability of the nuclear facility decommissioning projects. (authors)

The FARC fuel archive of WWER

International Nuclear Information System (INIS)

Zizin, M.N.; Parfenova, N.A.; Proselkov, V.N.; Shishkov, L.K.

1998-01-01

The principles of organisation are explained and the structure of the FARC fuel archive for WWER reactors is circumscribed. The objective of archive is accumulation of fuel data, data storage and obtaining of fuel using characteristics. The working version of fuel archive on 01 July 1998 is realised, in which the data tables for fuel assemblies for 169 WWER-440 cycles and 35 WWER-1000 cycles are stored. There are two different versions of fuel archive - for WWER-440 (FARC) and for WWER-1000 (FARC1000). A structure of some tables and the texts of programs for them differ. (Authors)

Data archiving and analysis for CWDD

International Nuclear Information System (INIS)

Coleman, T.A.; Novick, A.H.; Meystrik, C.C.; Marselle, J.R.

1992-01-01

A computer system has been developed to handle archiving and analysis of data acquired during operations of the Continuous Wave Deuterium Demonstrator (CWDD). Data files generated by the CWDD Instrumentation and Control system are transferred across a local area network to the CWDD Archive system where they are enlisted into the archive and stored on removeable media optical disk drives. A relational database management system maintains an on-line database catalog of all archived files. This database contains information about file contents and formats, and holds signal parameter configuration tables needed to extract and interpret data from the files. Software has been developed to assist the selection and retrieval of data on demand based upon references in the catalog. Data retrieved from the archive is transferred to commercial data visualization applications for viewing, plotting and analysis

Retrieval of Brain Tumors by Adaptive Spatial Pooling and Fisher Vector Representation.

Science.gov (United States)

Cheng, Jun; Yang, Wei; Huang, Meiyan; Huang, Wei; Jiang, Jun; Zhou, Yujia; Yang, Ru; Zhao, Jie; Feng, Yanqiu; Feng, Qianjin; Chen, Wufan

2016-01-01

Content-based image retrieval (CBIR) techniques have currently gained increasing popularity in the medical field because they can use numerous and valuable archived images to support clinical decisions. In this paper, we concentrate on developing a CBIR system for retrieving brain tumors in T1-weighted contrast-enhanced MRI images. Specifically, when the user roughly outlines the tumor region of a query image, brain tumor images in the database of the same pathological type are expected to be returned. We propose a novel feature extraction framework to improve the retrieval performance. The proposed framework consists of three steps. First, we augment the tumor region and use the augmented tumor region as the region of interest to incorporate informative contextual information. Second, the augmented tumor region is split into subregions by an adaptive spatial division method based on intensity orders; within each subregion, we extract raw image patches as local features. Third, we apply the Fisher kernel framework to aggregate the local features of each subregion into a respective single vector representation and concatenate these per-subregion vector representations to obtain an image-level signature. After feature extraction, a closed-form metric learning algorithm is applied to measure the similarity between the query image and database images. Extensive experiments are conducted on a large dataset of 3604 images with three types of brain tumors, namely, meningiomas, gliomas, and pituitary tumors. The mean average precision can reach 94.68%. Experimental results demonstrate the power of the proposed algorithm against some related state-of-the-art methods on the same dataset.

COMMUNITY AWARENESS FOR ARCHIVES IN TANZANIA: A ...

African Journals Online (AJOL)

Walter

challenges facing Zanzibar National Archives (ZNA). The study ... legally preserved under the Records and Archives Management Act,. 2002. Lastly, in .... in the findings, the Archives face a lot of challenges on his operation such as lack of ...

A dialogue between archive, knowledge and technology

Directory of Open Access Journals (Sweden)

Henrique Machado dos Santos

2015-11-01

Full Text Available Objective. Perform a brief reflection on knowledge management in archives, emphasizing the connections necessary for a dialogue between archive, knowledge and technology. Method. It consists in review of material previously published in the areas of Management Science, Archival Science and Information Science. The sources consulted consist of books, theses, texts on websites and scientific journal articles indexed in Google Scholar. Thus, the collected data is analyzed qualitatively. Results. There is a close relationship between the archive, knowledge and technology. In this sense, the document has the role of interlocutor in this dialogue. The interdisciplinary scenario envisioned, enhance existing rapprochement between the archival practices and knowledge management, in order to make possible a feedback cycle that will support the practices related to the management, either, of knowledge, of information or of documents. Conclusions. There is need for further studies to address the potential of the archives in order to fill possible gaps theory thus reach multiple looks more points interdisciplinary convergence. Finally, there is the informational potential of archives, then mediated by technology information, can enrich the knowledge management practices, and for this it is essential to strengthen the interdisciplinary relationships between Management Science, Archival Science and Information Science.

Evaluation of Picture Archiving and Communication System (Pacs As A Process Improvement Sample (Sivas Numune Hospital Application

Directory of Open Access Journals (Sweden)

Ali Rıza İnce

2013-09-01

Full Text Available It is a realitythatthefirmsproducinggoods or services frequentlybenefited process improvementand similartechniques toachieve their objectives In today'scompetitive environment.Beingprocess-orientedmeans to give weight to the creation of quality but not to the control of quality. In this sense, process improvement is seen as an approach of Total Quality Management targeted. Hospital informationsystems are computer systems that collect andarchive all orthe majority of the hospitaldatafor use inthe assessment.It isa major problem that storage of visualdatawithout lossanddamage and also the being availableof these data as soon as possiblein this system.System that calledPACShas been developedto overcome this problem.PACS is an archiving system that archive the visual dataobtained fromimaging systems in different unitsin a spaceand, allows the transfer of these data to usersat different points when needed.In this study,efficiency of PACS asa process improvementtechniquewas examined by the application ofahospital.It is concluded that the system providea positive contributionto customers and hospitalas an example ofan importantprocess improvement at the evaluationof the results and implementation of the system.

Report on emerging technologies for translational bioinformatics: a symposium on gene expression profiling for archival tissues

Directory of Open Access Journals (Sweden)

Waldron Levi

2012-03-01

Full Text Available Abstract Background With over 20 million formalin-fixed, paraffin-embedded (FFPE tissue samples archived each year in the United States alone, archival tissues remain a vast and under-utilized resource in the genomic study of cancer. Technologies have recently been introduced for whole-transcriptome amplification and microarray analysis of degraded mRNA fragments from FFPE samples, and studies of these platforms have only recently begun to enter the published literature. Results The Emerging Technologies for Translational Bioinformatics symposium on gene expression profiling for archival tissues featured presentations of two large-scale FFPE expression profiling studies (each involving over 1,000 samples, overviews of several smaller studies, and representatives from three leading companies in the field (Illumina, Affymetrix, and NuGEN. The meeting highlighted challenges in the analysis of expression data from archival tissues and strategies being developed to overcome them. In particular, speakers reported higher rates of clinical sample failure (from 10% to 70% than are typical for fresh-frozen tissues, as well as more frequent probe failure for individual samples. The symposium program is available at http://www.hsph.harvard.edu/ffpe. Conclusions Multiple solutions now exist for whole-genome expression profiling of FFPE tissues, including both microarray- and sequencing-based platforms. Several studies have reported their successful application, but substantial challenges and risks still exist. Symposium speakers presented novel methodology for analysis of FFPE expression data and suggestions for improving data recovery and quality assessment in pre-analytical stages. Research presentations emphasized the need for careful study design, including the use of pilot studies, replication, and randomization of samples among batches, as well as careful attention to data quality control. Regardless of any limitations in quantitave transcriptomics for

Re-using the archive in video posters: a win-win for users and archives

NARCIS (Netherlands)

Sanders, W.; Salgado, Mariana

2017-01-01

Re-use of digital archival content means interpretation; and the ability to create new and original interpretations of cultural heritage materials constitutes necessary contemporary digital and media literacy skills for any (aspiring) scholar and, by extension, informed citizen. For archives, re-use

Protein - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us Trypanoso...nhibitor of the protein. Data file File name: trypanosome.zip File URL: ftp://ftp....biosciencedbc.jp/archive/trypanosome/LATEST/trypanosome.zip File size: 1.4 KB Simple search URL http://togo...db.biosciencedbc.jp/togodb/view/trypanosome#en Data acquisition method - Data analysis method - Number of da...ndelian inheritance in Man ) map Location of the gene on a chromosome or its chromosome number pdb PDB ID (P

Download - KEGG MEDICUS | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available [ Credits ] English ]; } else if ( url.search(//en//) != -1 ) { url = url.replace(/...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us KEGG MEDI...search and download 1 README README_e.html - 2 Drug kegg_medicus_drug_en.zip (5.2... MB) Simple search and download 3 Environ kegg_medicus_environ_en.zip (79 KB) Simple search and download 4 Disease kegg_medi...nload License Update History of This Database Site Policy | Contact Us Download - KEGG MEDICUS | LSDB Archive ...

Detection of tumor-specific cytotoxic drug activity in vitro using the fluorometric microculture cytotoxicity assay and primary cultures of tumor cells from patients.

Science.gov (United States)

Nygren, P; Fridborg, H; Csoka, K; Sundström, C; de la Torre, M; Kristensen, J; Bergh, J; Hagberg, H; Glimelius, B; Rastad, J

1994-03-01

The semi-automated fluorometric microculture cytotoxicity assay (FMCA), based on the measurement of fluorescence generated from cellular hydrolysis of fluorescein diacetate (FDA) by viable cells, was employed for cytotoxic drug sensitivity testing of tumor cells from patients with hematological or solid tumors. In total, 390 samples from 20 diagnoses were tested with up to 12 standard cytotoxic drugs. The technical success rate for different tumor types ranged from 67 to 95%. Fluorescence was linearly related to cell number but variably steep depending on tumor type. Samples from most solid tumors thus showed higher signal-to-noise ratios than hematological samples. A wide spectrum of in vitro drug activity was obtained, with acute leukemias and non-Hodgkin's lymphomas being sensitive to almost all tested drugs, whereas renal and adrenocortical carcinomas were essentially totally resistant. Between these extremes were samples of breast and ovarian carcinomas and sarcomas. When in vitro response was compared with known clinical response patterns, a good correspondence was observed. The results indicate that the FMCA is a rapid and efficient method for in vitro measurement of tumor-specific drug activity both in hematological and in solid tumors. The assay may be suitable for new drug development and direction of phase-2 trials to suitable patients.

Engaging With Colonial Archives: Reflections Of An End-User

Directory of Open Access Journals (Sweden)

Ayodeji Olukoju

2016-06-01

Full Text Available Official and/or public archives were a byproduct of colonial rule in Africa. (Archives are a byproduct of administrative governance everywhere. Given the density and diversity of colonial archival records, historians have tended to rely on them for the study of the colonial period. Publications on the use of archives have not captured the perspective of end-users, who often face peculiar challenges in the use of colonial and metropolitan archives. This paper provides an end-user perspective on colonial archives in Nigeria and the United Kingdom. It highlights the challenges of data collection and prospects of optimal use of archival source material. The discussion is of general application to users of colonial archives especially in the former British colonies in Africa.

Update History of This Database - Q-TARO | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us Q-TARO Update History of This Database Date Update contents 2014/10/20 The URL of the portal...ption Download License Update History of This Database Site Policy | Contact Us Update History of This Database - Q-TARO | LSDB Archive ... ... site is changed. 2013/12/17 The URL of the portal site is changed. 2013/12/13 Q-TARO English archive site i...s opened. 2009/11/15 Q-TARO ( http://qtaro.abr.affrc.go.jp/ ) is opened. About This Database Database Descri

ACRF Archive User Meeting Summary

Energy Technology Data Exchange (ETDEWEB)

SA Edgerton; RA McCord; DP Kaiser

2007-10-30

On October 30, 2007, the U.S. Department of Energy’s (DOE) Atmospheric Radiation Measurement (ARM) Climate Research Facility (ACRF) sponsored an all-day workshop to assess the status of the ACRF Archive. Focus areas included usability of current functions, plans for revised functions, proposals for new functions, and an overarching discussion of new ideas. Although 13 scientists familiar with ACRF and the ARM Program were invited to the workshop, only 10 scientists were available to attend the workshop. ACRF consists of the infrastructure that was developed to support the ARM Program and includes the ACRF Archive (previously called the ARM Archive). The scientists who participated in the meeting ranged from those who used the Archive frequently to those who seldom or never had accessed the Archive. The group was spread across disciplines, i.e. modelers, conservationists, and others from universities and government laboratories. A few of the participants were funded by the ARM Program, but most were not funded currently by ARM. During the past year, several improvements were made to the ACRF Archive to link it with the ARM/ACRF web pages, add a shopping cart feature, and expand on search parameters. Additional modifications have been proposed and prototypes of these proposals were made available for the participants. The participants were given several exercises to do before the meeting, and their feedback was requested to help identify potential problems and shortcomings with the existing structure and to recommend improvements.

Science in the archives pasts, presents, futures

CERN Document Server

2017-01-01

"Science in the Archives" reveals affinities and continuities among the sciences of the archives, across many disciplines and centuries, in order to present a better picture of essential archival practices and, thereby, the meaning of science. For in both the natural and human sciences, archives of the most diverse forms make cumulative, collective knowledge possible. Yet in contrast to laboratories, observatories, or the field, archives have yet to be studied across the board as central sites of science. The volume covers episodes in the history of astronomy, geology, genetics, classical philology, climatology, history, medicine, and ancient natural philosophy, as well as fundamental practices such as collecting, retrieval strategies, and data mining. The time frame spans doxology in Greco-Roman antiquity to NSA surveillance techniques and the quantified-self movement. Each chapter explores the practices, politics, economics, and open-ended potential of the sciences of the archives, making this the first boo...

Microbiological contamination with moulds in work environment in libraries and archive storage facilities.

Science.gov (United States)

Zielinska-Jankiewicz, Katarzyna; Kozajda, Anna; Piotrowska, Malgorzata; Szadkowska-Stanczyk, Irena

2008-01-01

Microbiological contamination with fungi, including moulds, can pose a significant health hazard to those working in archives or museums. The species involved include Aspergillus, Penicillium, Geotrichum, Alternaria, Cladosporium, Mucor, Rhizopus, Trichoderma, Fusarium which are associated mostly with allergic response of different types. The aim of the study was to analyse, both in quantitative and qualitative terms, workplace air samples collected in a library and archive storage facilities. Occupational exposure and the related health hazard from microbiological contamination with moulds were assessed in three archive storage buildings and one library. Air samples (total 60) were collected via impact method before work and at hourly intervals during work performance. Surface samples from the artifacts were collected by pressing a counting (RODAC) plate filled with malt extract agar against the surface of the artifacts. The air sample and surface sample analyses yielded 36 different mould species, classified into 19 genera, of which Cladosporium and Penicillium were the most prevalent. Twelve species were regarded as potentially pathogenic for humans: 8 had allergic and 11 toxic properties, the latter including Aspergillus fumigatus. Quantitative analysis revealed air microbiological contamination with moulds at the level ranging from 1.8 x 10(2)-2.3 x 10(3) cfu/m(3). In surface samples from library and archive artifacts, 11 fungal species were distinguished; the number of species per artifact varying from 1-6 and colony count ranging from 4 x 10(1) to 8-10(1) cfu/100 cm(2). Higher contamination levels were found only for Cladosporium cladosporioides (1.48 x 10(3) cfu/100 cm(2)) and Paecillomyces varioti (1.2 x 10(2) cfu/100 cm(2)). At the workposts examined, although no clearly visible signs of mould contamination could be found, the study revealed abundant micromycetes, with the predominant species of Cladosporium and Penicillium. The detected species included

[Methylation of selected tumor-supressor genes in benign and malignant ovarian tumors].

Science.gov (United States)

Cul'bová, M; Lasabová, Z; Stanclová, A; Tilandyová, P; Zúbor, P; Fiolka, R; Danko, J; Visnovský, J

2011-09-01

To evaluate the usefullness of examination of methylation status of selected tumor-supressor genes in early diagnosis of ovarian cancer. Prospective clinical study. Department of Gynecology and Obstetrics, Department of Molecular Biology, Jessenius Medical Faculty, Commenius University, Martin, Slovak Republic. In this study we analyzed hypermethylation of 5 genes RASSF1A, GSTP, E-cadherin, p16 and APC in ovarian tumor samples from 34 patients - 13 patients with epithelial ovarian cancer, 2 patients with border-line ovarian tumors, 12 patients with benign lesions of ovaries and 7 patients with healthy ovarian tissue. The methylation status of promoter region of tumor-supressor genes was determined by Methylation Specific Polymerase Chain Reaction (MSP) using a nested two-step approach with bisulfite modified DNA template and specific primers. Gene methylation analysis revealed hypermethylation of gene RASSF1A (46%) and GSTP (8%) only in malignant ovarian tissue samples. Ecad, p16 and APC genes were methylated both in maignant and benign tissue samples. Methylation positivity in observed genes was present independently to all clinical stages of ovarian cancer and to tumor grades. However, there was observed a trend of increased number and selective involvement of methylated genes with increasing disease stages. Furthermore, there was no association between positive methylation status and histological subtypes of ovarian carcinomas. RASSF1A and GSTP promoter methylation positivity is associated with ovarian cancer. The revealed gene-selective methylation positivity and the increased number of methylated genes with advancing disease stages could be considered as a useful molecular marker for early detection of ovarian cancer. However, there is need to find diagnostic approach of specifically and frequently methylated genes to determining a methylation phenotype for early detection of ovarian malignancies.

Care of architectural archival material

Directory of Open Access Journals (Sweden)

Perović-Ivović Svetlana

2015-01-01

Full Text Available The paper focuses on the complex issue of the preservation and maintenance of architectural records as a distinctive type of archival material, addressing the problems of care and storage of diverse oversize documents done on different supports: architectural drawings on drafting cloth, waxed cloth, paper, plastic film; reproductions such as blueprints, diazo prints, and other types of non-textual documents. Attention is paid to all types of damage caused both by internal factors, i.e. resulting from the nature of the support material, and by external factors involved in the degradation of architectural archival material. The paper also presents comparative conservation methods applied to architectural documents kept in the Archives of Yugoslavia. In conclusion, it points to the importance of preventive care as regards storage conditions, handling and display of this type of archival material.

Web services interface of SSRF archive data analysis system

International Nuclear Information System (INIS)

Li Lin; Shen Liren; Zhu Qing; Wan Tianmin

2007-01-01

Accelerator database stores various static parameters and real-time data of accelerator. SSRF (Shanghai Synchrotron Radiation Facility) adopts relational database to save the data. We developed a data retrieval system based on XML Web Services for accessing the archive data. It includes a bottom layer interface and an interface applicable for accelerator physics. Client samples exemplifying how to consume the interface are given. The users can browse, retrieve and plot data by the client samples. Also, we give a method to test its stability. The test result and performance are described. (authors)

Building an Archival Collections Portal

Directory of Open Access Journals (Sweden)

Stuart Marquis

2008-06-01

Full Text Available Columbia University Libraries has developed the Archival Collections Portal, a unified search system helping users discover archival resources in a streamlined way. We combined the power of Lucene and Solr to search XML, parse JSON objects, create EAD-compliant documents, and deliver results in an easy-to-use interface. By reusing MARC records and employing new search engine features and techniques, we are able to bring important and hard-to-find collections to researchers and archivists. The canonical home page of the Portal is http://www.columbia.edu/library/archival/.

CHARACTERISTICS OF CLINICAL COURSE OF METASTATIC AND PRIMARY OVARIAN TUMORS IN COLON CANCER

Directory of Open Access Journals (Sweden)

I. A. Dzhanyan

2015-01-01

Full Text Available The aim of this study was to investigate clinical pecuiliarities of ovarian tumors in colon cancer patients and determination of complex diagnostic methods.Subject and methods. Russian N.N.  Blokhin Cancer Research Center archives were used for retrospective study, patients, who underwent treatment during 1989–2013  were included. Colon cancer patients with ovarian metastases and with synchronous or metachronous tumors were included.Results. 141 patients were included: 91 patients had colon cancer with ovarian metastases (group 1 and 50 patients had synchronous or metachronous ovarian tumours (group 2. Ovarian tumors were diagnosed during the 1 year in 74 (81.3 % patients in group 1 and in 23 (46 % in group 2. Patients in group 2 less frequently had children (9 (18.0 % vs 5 (5.5 + 2.3 %, р < 0.05, family history of cancer (3 (6 % vs 16 (17.6 %, р < 0.05 and concomitant diseases. Median CA 125 level in group 1 was 64.96 ng/ml and 180 ng/ml in group 2. Ovarian tumors had solid and cystic structure during US examination in 66 (73 % patients in group 1 and 31 (62 % patients in group 2 had solid ovarian tumors on US examination.Conclusions. The differential diagnostics of primary and metastatic ovarian tumors must include CEA, CA 19–9 and CA 125 serum levels and pelvic US.

Experiment information - GRIPDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GRI...a.nbdc01665-002 Description of data contents Experimentally identified GPCR interaction regions Data file File name: gri...pdb_exp_info.zip File URL: ftp://ftp.biosciencedbc.jp/archive/gripdb/LATEST/gripdb_exp_info.zip ...File size: 6.2 KB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/gri...es Data item Description ID Experiment information ID GRIP ID1 GRIP ID related wigh the experiment GRIP ID2 No. in GRI

Designing a crisis management model in Iran’s archival centers: Pre-crisis stage

Directory of Open Access Journals (Sweden)

Maryam Nakhoda

2018-03-01

Full Text Available The purpose of this research is to design a crisis management model in the archival centers of Iran during the pre-crisis phase. The present study was conducted with a qualitative approach using the Grounded theory method. The necessary data was collected using semi-structured interviews. Data saturation was a major factor in determining the sample size. The research population included 20 crisis management specialists and managers of archives in Iran and the data analysis was performed in three stages: open, axial, and selective coding. The paradigmatic model derived from the findings of the research includes the sections of the causal conditions, strategies, intervening conditions and the underlying conditions and their outcomes. The causal conditions are located in two categories of internal crises such as biological crises and lack of proper management, and external crises such as natural disasters, fires and human-made crises. Intervener conditions and backgrounds include cat-egories such as lack of specialist staff training, lack of appropriate environmental conditions and management mechanisms, archival building and human resources issues. To prevent and mitigate the effects of the crisis in archives, some strategies are required such as modern education for resil-ience, teaching how to use documents, standardizing buildings and equipment (non-use of steel skeletons in building archives, use of concrete skeletons Armed or metal, as well as the use of walls and doors and floors of anti-fire covers in the building of archives and the establishment of multi-layer protective systems for the protection of documents.

Digital audiovisual archives

CERN Document Server

Stockinger, Peter

2013-01-01

Today, huge quantities of digital audiovisual resources are already available - everywhere and at any time - through Web portals, online archives and libraries, and video blogs. One central question with respect to this huge amount of audiovisual data is how they can be used in specific (social, pedagogical, etc.) contexts and what are their potential interest for target groups (communities, professionals, students, researchers, etc.).This book examines the question of the (creative) exploitation of digital audiovisual archives from a theoretical, methodological, technical and practical

Introducing the PRIDE Archive RESTful web services.

Science.gov (United States)

Reisinger, Florian; del-Toro, Noemi; Ternent, Tobias; Hermjakob, Henning; Vizcaíno, Juan Antonio

2015-07-01

The PRIDE (PRoteomics IDEntifications) database is one of the world-leading public repositories of mass spectrometry (MS)-based proteomics data and it is a founding member of the ProteomeXchange Consortium of proteomics resources. In the original PRIDE database system, users could access data programmatically by accessing the web services provided by the PRIDE BioMart interface. New REST (REpresentational State Transfer) web services have been developed to serve the most popular functionality provided by BioMart (now discontinued due to data scalability issues) and address the data access requirements of the newly developed PRIDE Archive. Using the API (Application Programming Interface) it is now possible to programmatically query for and retrieve peptide and protein identifications, project and assay metadata and the originally submitted files. Searching and filtering is also possible by metadata information, such as sample details (e.g. species and tissues), instrumentation (mass spectrometer), keywords and other provided annotations. The PRIDE Archive web services were first made available in April 2014. The API has already been adopted by a few applications and standalone tools such as PeptideShaker, PRIDE Inspector, the Unipept web application and the Python-based BioServices package. This application is free and open to all users with no login requirement and can be accessed at http://www.ebi.ac.uk/pride/ws/archive/. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Novel strategies of Raman imaging for brain tumor research.

Science.gov (United States)

Anna, Imiela; Bartosz, Polis; Lech, Polis; Halina, Abramczyk

2017-10-17

Raman diagnostics and imaging have been shown to be an effective tool for the analysis and discrimination of human brain tumors from normal structures. Raman spectroscopic methods have potential to be applied in clinical practice as they allow for identification of tumor margins during surgery. In this study, we investigate medulloblastoma (grade IV WHO) (n= 5), low-grade astrocytoma (grades I-II WHO) (n =4), ependymoma (n=3) and metastatic brain tumors (n= 1) and the tissue from the negative margins used as normal controls. We compare a high grade medulloblastoma, low grade astrocytoma and non-tumor samples from human central nervous system (CNS) tissue. Based on the properties of the Raman vibrational features and Raman images we provide a real-time feedback method that is label-free to monitor tumor metabolism that reveals reprogramming of biosynthesis of lipids, proteins, DNA and RNA. Our results indicate marked metabolic differences between low and high grade brain tumors. We discuss molecular mechanisms causing these metabolic changes, particularly lipid alterations in malignant medulloblastoma and low grade gliomas that may shed light on the mechanisms driving tumor recurrence thereby revealing new approaches for the treatment of malignant glioma. We have found that the high-grade tumors of central nervous system (medulloblastoma) exhibit enhanced level of β-sheet conformation and down-regulated level of α-helix conformation when comparing against normal tissue. We have found that almost all tumors studied in the paper have increased Raman signals of nucleic acids. This increase can be interpreted as increased DNA/RNA turnover in brain tumors. We have shown that the ratio of Raman intensities I 2930 /I 2845 at 2930 and 2845 cm -1 is a good source of information on the ratio of lipid and protein contents. We have found that the ratio reflects the different lipid and protein contents of cancerous brain tissue compared to the non-tumor tissue. We found that

Cathepsin D and Its Prognostic Value in Neuroepithelial Brain Tumors

OpenAIRE

Pigac, Biserka; Dmitrović, Branko; Marić, Svjetlana; Mašić, Silvija

2012-01-01

Expression of Cathepsin D (Cath D) in some primary neuroepithelial brain tumors and its prognostic value were studied. The research included 65 samples of human primary neuroepithelial brain tumors. There were 50 glial tumors (10 diffuse astrocytomas (DA), 15 anaplastic astrocytomas (AA), 25 glioblastomas (GB), 15 embryonic tumors (15 medulloblastomas (MB) as well as 5 samples of normal brain tissue. Immunohistochemical method was applied to monitor diffuse positive reaction in the cytoplasm ...

The Manifesto or the ten commandments of creating a private archive

Directory of Open Access Journals (Sweden)

Waldemar Chorążyczewski

2013-03-01

Full Text Available If, pursuant to the spirit of our time, and the interest of all the users of the archives, the versatility of the domain of archive studies, has the greatest value, then our goal is not to accumulate the archives of private provenance by the public or social data archives, but rather, to strive for the private archives in Poland to come about again. The public archives have natural right to exclusivity as far as amassing public archival materials is concerned. However, apart from that, parity of the right to cumulate materials ought to be upheld. Private archives ought to have the right to gather materials of other private archivists, as well as social data archives. The owners of such private archives, should also have the right to appoint an inheriting subject from among the public or private archives. Parity of archives will contribute towards an upswing in the position of the public archives as an institution of public trust. The public archives will keep a registry of private and social data archives. The latter will not be conveyed to anyone without the knowledge of the public archives. Public archives will also be required to take possession of the private and social data archive materials, in the event of their being closed down.

Results of de-novo and Motif activity analyses - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM... JASPAR) Data file File name: Motifs File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/phase1.3...tabase Database Description Download License Update History of This Database Site Policy | Contact Us Results of de-novo and Motif activity analyses - FANTOM5 | LSDB Archive ...

Korean Variant Archive (KOVA): a reference database of genetic variations in the Korean population.

Science.gov (United States)

Lee, Sangmoon; Seo, Jihae; Park, Jinman; Nam, Jae-Yong; Choi, Ahyoung; Ignatius, Jason S; Bjornson, Robert D; Chae, Jong-Hee; Jang, In-Jin; Lee, Sanghyuk; Park, Woong-Yang; Baek, Daehyun; Choi, Murim

2017-06-27

Despite efforts to interrogate human genome variation through large-scale databases, systematic preference toward populations of Caucasian descendants has resulted in unintended reduction of power in studying non-Caucasians. Here we report a compilation of coding variants from 1,055 healthy Korean individuals (KOVA; Korean Variant Archive). The samples were sequenced to a mean depth of 75x, yielding 101 singleton variants per individual. Population genetics analysis demonstrates that the Korean population is a distinct ethnic group comparable to other discrete ethnic groups in Africa and Europe, providing a rationale for such independent genomic datasets. Indeed, KOVA conferred 22.8% increased variant filtering power in addition to Exome Aggregation Consortium (ExAC) when used on Korean exomes. Functional assessment of nonsynonymous variant supported the presence of purifying selection in Koreans. Analysis of copy number variants detected 5.2 deletions and 10.3 amplifications per individual with an increased fraction of novel variants among smaller and rarer copy number variable segments. We also report a list of germline variants that are associated with increased tumor susceptibility. This catalog can function as a critical addition to the pre-existing variant databases in pursuing genetic studies of Korean individuals.

Assessment of the potential respiratory hazard of volcanic ash from future Icelandic eruptions: a study of archived basaltic to rhyolitic ash samples.

Science.gov (United States)

Damby, David E; Horwell, Claire J; Larsen, Gudrun; Thordarson, Thorvaldur; Tomatis, Maura; Fubini, Bice; Donaldson, Ken

2017-09-11

The eruptions of Eyjafjallajökull (2010) and Grímsvötn (2011), Iceland, triggered immediate, international consideration of the respiratory health hazard of inhaling volcanic ash, and prompted the need to estimate the potential hazard posed by future eruptions of Iceland's volcanoes to Icelandic and Northern European populations. A physicochemical characterization and toxicological assessment was conducted on a suite of archived ash samples spanning the spectrum of past eruptions (basaltic to rhyolitic magmatic composition) of Icelandic volcanoes following a protocol specifically designed by the International Volcanic Health Hazard Network. Icelandic ash can be of a respirable size (up to 11.3 vol.% fiber-like particles were observed, but those present comprised glass or sodium oxides, and are not related to pathogenic natural fibers, like asbestos or fibrous zeolites, thereby limiting concern of associated respiratory diseases. None of the samples contained cristobalite or tridymite, and only one sample contained quartz, minerals of interest due to the potential to cause silicosis. Sample surface areas are low, ranging from 0.4 to 1.6 m 2  g -1 , which aligns with analyses on ash from other eruptions worldwide. All samples generated a low level of hydroxyl radicals (HO • ), a measure of surface reactivity, through the iron-catalyzed Fenton reaction compared to concurrently analyzed comparative samples. However, radical generation increased after 'refreshing' sample surfaces, indicating that newly erupted samples may display higher reactivity. A composition-dependent range of available surface iron was measured after a 7-day incubation, from 22.5 to 315.7 μmol m -2 , with mafic samples releasing more iron than silicic samples. All samples were non-reactive in a test of red blood cell-membrane damage. The primary particle-specific concern is the potential for future eruptions of Iceland's volcanoes to generate fine, respirable material and, thus, to

36 CFR 1253.1 - National Archives Building.

Science.gov (United States)

2010-07-01

... 36 Parks, Forests, and Public Property 3 2010-07-01 2010-07-01 false National Archives Building... PUBLIC AVAILABILITY AND USE LOCATION OF RECORDS AND HOURS OF USE § 1253.1 National Archives Building. (a) The National Archives Building is located at 700 Pennsylvania Avenue, NW., Washington, DC 20408...

Comprehensive Analysis of Genome Rearrangements in Eight Human Malignant Tumor Tissues.

Directory of Open Access Journals (Sweden)

Stefanie Marczok

Full Text Available Carcinogenesis is a complex multifactorial, multistage process, but the precise mechanisms are not well understood. In this study, we performed a genome-wide analysis of the copy number variation (CNV, breakpoint region (BPR and fragile sites in 2,737 tumor samples from eight tumor entities and in 432 normal samples. CNV detection and BPR identification revealed that BPRs tended to accumulate in specific genomic regions in tumor samples whereas being dispersed genome-wide in the normal samples. Hotspots were observed, at which segments with similar alteration in copy number were overlapped along with BPRs adjacently clustered. Evaluation of BPR occurrence frequency showed that at least one was detected in about and more than 15% of samples for each tumor entity while BPRs were maximal in 12% of the normal samples. 127 of 2,716 tumor-relevant BPRs (termed 'common BPRs' exhibited also a noticeable occurrence frequency in the normal samples. Colocalization assessment identified 20,077 CNV-affecting genes and 169 of these being known tumor-related genes. The most noteworthy genes are KIAA0513 important for immunologic, synaptic and apoptotic signal pathways, intergenic non-coding RNA RP11-115C21.2 possibly acting as oncogene or tumor suppressor by changing the structure of chromatin, and ADAM32 likely importance in cancer cell proliferation and progression by ectodomain-shedding of diverse growth factors, and the well-known tumor suppressor gene p53. The BPR distributions indicate that CNV mutations are likely non-random in tumor genomes. The marked recurrence of BPRs at specific regions supports common progression mechanisms in tumors. The presence of hotspots together with common BPRs, despite its small group size, imply a relation between fragile sites and cancer-gene alteration. Our data further suggest that both protein-coding and non-coding genes possessing a range of biological functions might play a causative or functional role in tumor

ER, HER2, and TOP2A expression in primary tumor, synchronous axillary nodes, and asynchronous metastases in breast cancer

DEFF Research Database (Denmark)

Jensen, Jeanette Dupont; Knoop, Ann; Ewertz, Marianne

2011-01-01

with the primary tumors with respect to ER, HER2, and TOP2A. In the prospective tissue-collection study, 81 patients had biopsy from a suspected relapse. Additional archived paired material was included, leaving a total of 119 patients with paired primary tumor, synchronous axillary nodes (available in 52 patients......At recurrence of breast cancer, the therapeutic target is the metastases. However, it is current practice to base the choice of systemic treatment on the biomarker profile of the primary tumor. In the present study, confirmatory biopsies were obtained from suspected metastatic lesions and compared......) and asyncronous metastases available for analysis. ER, HER2, and TOP2A expression of primary tumors, axillary nodes and metastases were re-analysed and determined centrally by immunohistochemistry, chromogenic in situ hybridization, and fluorescence in situ hybridization. Of the 81 patients with a biopsy from...

Building a successful archival programme a practical approach

CERN Document Server

Ramos, Marisol

2006-01-01

This valuable resource provides information on best practices and solutions to successfully establish an archival programme; it uses a practical approach, without the use of technical or theoretical jargon. Additionally it serves as a companion text in a theoretical archival course. The book provides easy-to-follow advice on how to assess the information needs of any institution and the greater community for which the archives were created to serve. Guidelines for achievable goals are provided for starting an archives programme in an environment where a small budget or even a 'no budget' can threaten the future of the archives. First book that attempts to de-mystify archives Practical approaches without the use of technical jargon Easy to follow Plans of Action.

Email-Set Visualization: Facilitating Re-Finding in Email Archives

OpenAIRE

Gorton, Douglas; Murthy, Uma; Vemuri, Naga Srinivas; Pérez-Quiñones, Manuel A.

2007-01-01

In this paper we describe ESVT – EmailSet Visualization Tool, an email archive tool that provides users a visualization to re-find and discover information in their email archive. ESVT is an end-to-end email archive tool that can be used from archiving a user’s email messages to visualizing queries on the email archive. We address email archiving by allowing import of email messages from an email server or from a standard existing email client. The central idea in ESVT’s visualization, an “em...

Locating Archives within the Landscape: Records, Memory and Place

Directory of Open Access Journals (Sweden)

Jeannette Bastian

2014-12-01

Full Text Available Linking archives, memory and landscape, this article considers a series of questions, and attempts to address some of them: How do archivists and scholars who concern themselves with archives think about place and its relationship to records? Why and how is place archival? How are those archival relationships expressed and what do they signify for the people inhabiting that space? What are the memory implications of the relationship between place, archives and community and how are traditional archives both the products of place as well as influencers themselves upon the landscape?

A cell transportation solution that preserves live circulating tumor cells in patient blood samples

International Nuclear Information System (INIS)

Stefansson, Steingrimur; Adams, Daniel L.; Ershler, William B.; Le, Huyen; Ho, David H.

2016-01-01

Circulating tumor cells (CTCs) are typically collected into CellSave fixative tubes, which kills the cells, but preserves their morphology. Currently, the clinical utility of CTCs is mostly limited to their enumeration. More detailed investigation of CTC biology can be performed on live cells, but obtaining live CTCs is technically challenging, requiring blood collection into biocompatible solutions and rapid isolation which limits transportation options. To overcome the instability of CTCs, we formulated a sugar based cell transportation solution (SBTS) that stabilizes cell viability at ambient temperature. In this study we examined the long term viability of human cancer cell lines, primary cells and CTCs in human blood samples in the SBTS for transportation purposes. Four cell lines, 5 primary human cells and purified human PBMCs were tested to determine the viability of cells stored in the transportation solution at ambient temperature for up to 7 days. We then demonstrated viability of MCF-7 cells spiked into normal blood with SBTS and stored for up to 7 days. A pilot study was then run on blood samples from 3 patients with metastatic malignancies stored with or without SBTS for 6 days. CTCs were then purified by Ficoll separation/microfilter isolation and identified using CTC markers. Cell viability was assessed using trypan blue or CellTracker™ live cell stain. Our results suggest that primary/immortalized cell lines stored in SBTS remain ~90 % viable for > 72 h. Further, MCF-7 cells spiked into whole blood remain viable when stored with SBTS for up to 7 days. Finally, live CTCs were isolated from cancer patient blood samples kept in SBTS at ambient temperature for 6 days. No CTCs were isolated from blood samples stored without SBTS. In this proof of principle pilot study we show that viability of cell lines is preserved for days using SBTS. Further, this solution can be used to store patient derived blood samples for eventual isolation of viable CTCs

A cell transportation solution that preserves live circulating tumor cells in patient blood samples.

Science.gov (United States)

Stefansson, Steingrimur; Adams, Daniel L; Ershler, William B; Le, Huyen; Ho, David H

2016-05-06

Circulating tumor cells (CTCs) are typically collected into CellSave fixative tubes, which kills the cells, but preserves their morphology. Currently, the clinical utility of CTCs is mostly limited to their enumeration. More detailed investigation of CTC biology can be performed on live cells, but obtaining live CTCs is technically challenging, requiring blood collection into biocompatible solutions and rapid isolation which limits transportation options. To overcome the instability of CTCs, we formulated a sugar based cell transportation solution (SBTS) that stabilizes cell viability at ambient temperature. In this study we examined the long term viability of human cancer cell lines, primary cells and CTCs in human blood samples in the SBTS for transportation purposes. Four cell lines, 5 primary human cells and purified human PBMCs were tested to determine the viability of cells stored in the transportation solution at ambient temperature for up to 7 days. We then demonstrated viability of MCF-7 cells spiked into normal blood with SBTS and stored for up to 7 days. A pilot study was then run on blood samples from 3 patients with metastatic malignancies stored with or without SBTS for 6 days. CTCs were then purified by Ficoll separation/microfilter isolation and identified using CTC markers. Cell viability was assessed using trypan blue or CellTracker™ live cell stain. Our results suggest that primary/immortalized cell lines stored in SBTS remain ~90% viable for > 72 h. Further, MCF-7 cells spiked into whole blood remain viable when stored with SBTS for up to 7 days. Finally, live CTCs were isolated from cancer patient blood samples kept in SBTS at ambient temperature for 6 days. No CTCs were isolated from blood samples stored without SBTS. In this proof of principle pilot study we show that viability of cell lines is preserved for days using SBTS. Further, this solution can be used to store patient derived blood samples for eventual isolation of viable CTCs after

Picture archiving and communication in radiology.

Science.gov (United States)

Napoli, Marzia; Nanni, Marinella; Cimarra, Stefania; Crisafulli, Letizia; Campioni, Paolo; Marano, Pasquale

2003-01-01

After over 80 years of exclusive archiving of radiologic films, at present, in Radiology, digital archiving is increasingly gaining ground. Digital archiving allows a considerable reduction in costs and space saving, but most importantly, immediate or remote consultation of all examinations and reports in the hospital clinical wards, is feasible. The RIS system, in this case, is the starting point of the process of electronic archiving which however is the task of PACS. The latter can be used as radiologic archive in accordance with the law provided that it is in conformance with some specifications as the use of optical long-term storage media or with electronic track of change. PACS archives, in a hierarchical system, all digital images produced by each diagnostic imaging modality. Images and patient data can be retrieved and used for consultation or remote consultation by the reporting radiologist who requires images and reports of previous radiologic examinations or by the referring physician of the ward. Modern PACS owing to the WEB server allow remote access to extremely simplified images and data however ensuring the due regulations and access protections. Since the PACS enables a simpler data communication within the hospital, security and patient privacy should be protected. A secure and reliable PACS should be able to minimize the risk of accidental data destruction, and should prevent non authorized access to the archive with adequate security measures in relation to the acquired knowledge and based on the technological advances. Archiving of data produced by modern digital imaging is a problem now present also in small Radiology services. The technology is able to readily solve problems which were extremely complex up to some years ago as the connection between equipment and archiving system owing also to the universalization of the DICOM 3.0 standard. The evolution of communication networks and the use of standard protocols as TCP/IP can minimize

Scanning negatives and slides digitizing your photographic archive

CERN Document Server

Steinhoff, Sascha

2009-01-01

Many photographers have either moved into digital photography exclusively or use both analog and digital media in their work. In either case, there is sure to be an archive of slides and negatives that cannot be directly integrated into the new digital workflow, nor can it be archived in a digital format. Increasingly, photographers are trying to bridge this gap with the use of high-performance film scanners. In this 2nd edition, you will learn how to achieve the best possible digital image from a negative or a slide, and how to build a workflow to make this process efficient, repeatable, and reliable. The author uses Nikon's film scanners, but all steps can easily be accomplished while using a different scanner. The most common software tools for scanning (SilverFast, VueScan, NikonScan) are not only covered extensively in the book, but trial versions are also provided on a DVD, which also contains other useful tools for image editing, as well as numerous sample scans.

Archival storage solutions for PACS

Science.gov (United States)

Chunn, Timothy

1997-05-01

While they are many, one of the inhibitors to the wide spread diffusion of PACS systems has been robust, cost effective digital archive storage solutions. Moreover, an automated Nearline solution is key to a central, sharable data repository, enabling many applications such as PACS, telemedicine and teleradiology, and information warehousing and data mining for research such as patient outcome analysis. Selecting the right solution depends on a number of factors: capacity requirements, write and retrieval performance requirements, scaleability in capacity and performance, configuration architecture and flexibility, subsystem availability and reliability, security requirements, system cost, achievable benefits and cost savings, investment protection, strategic fit and more.This paper addresses many of these issues. It compares and positions optical disk and magnetic tape technologies, which are the predominant archive mediums today. Price and performance comparisons will be made at different archive capacities, plus the effect of file size on storage system throughput will be analyzed. The concept of automated migration of images from high performance, high cost storage devices to high capacity, low cost storage devices will be introduced as a viable way to minimize overall storage costs for an archive. The concept of access density will also be introduced and applied to the selection of the most cost effective archive solution.

Impact of sampling interval in training data acquisition on intrafractional predictive accuracy of indirect dynamic tumor-tracking radiotherapy.

Science.gov (United States)

Mukumoto, Nobutaka; Nakamura, Mitsuhiro; Akimoto, Mami; Miyabe, Yuki; Yokota, Kenji; Matsuo, Yukinori; Mizowaki, Takashi; Hiraoka, Masahiro

2017-08-01

To explore the effect of sampling interval of training data acquisition on the intrafractional prediction error of surrogate signal-based dynamic tumor-tracking using a gimbal-mounted linac. Twenty pairs of respiratory motions were acquired from 20 patients (ten lung, five liver, and five pancreatic cancer patients) who underwent dynamic tumor-tracking with the Vero4DRT. First, respiratory motions were acquired as training data for an initial construction of the prediction model before the irradiation. Next, additional respiratory motions were acquired for an update of the prediction model due to the change of the respiratory pattern during the irradiation. The time elapsed prior to the second acquisition of the respiratory motion was 12.6 ± 3.1 min. A four-axis moving phantom reproduced patients' three dimensional (3D) target motions and one dimensional surrogate motions. To predict the future internal target motion from the external surrogate motion, prediction models were constructed by minimizing residual prediction errors for training data acquired at 80 and 320 ms sampling intervals for 20 s, and at 500, 1,000, and 2,000 ms sampling intervals for 60 s using orthogonal kV x-ray imaging systems. The accuracies of prediction models trained with various sampling intervals were estimated based on training data with each sampling interval during the training process. The intrafractional prediction errors for various prediction models were then calculated on intrafractional monitoring images taken for 30 s at the constant sampling interval of a 500 ms fairly to evaluate the prediction accuracy for the same motion pattern. In addition, the first respiratory motion was used for the training and the second respiratory motion was used for the evaluation of the intrafractional prediction errors for the changed respiratory motion to evaluate the robustness of the prediction models. The training error of the prediction model was 1.7 ± 0.7 mm in 3D for all sampling

American archives and climate change: Risks and adaptation

Directory of Open Access Journals (Sweden)

T. Mazurczyk

Full Text Available Climate change directly affects the future security of cultural resources. Cultural heritage and in particular, archives, are increasingly at risk of degradation due to climate change threats and triggers. This study evaluated present and future consequences of water-related climate change impacts using a mapping methodology to assess exposure of American archives to incompatible weather extremes. Susceptibility to climate change threats like sea level rise, storm surge, surface water flooding, and humidity, all influenced by a combination of temperature rise and increased precipitation, at a worst-case scenario were assessed for 1232 archival repositories. Results indicate that approximately 98.8% of archives are likely to be affected by at least one climate risk factor, though on average, most archives are at low risk of exposure (90% when risk factors are combined. Future storm surge plus sea level rise was likely to impact 17.7% of archival repositories with 22.1% affected by only storm surge and 4.3% affected by only sea level rise (1.8-m scenario. Fewer archives were likely to be susceptible to surface water flooding (2.4%. More than 90% of archives were estimated to have a temperature change greater than ±1 °C, with 7.5% of sites likely to change by ±10 °C, and 69.5% of archives were likely to receive at least 152 mm more rainfall by 2100 over current annual averages. In terms of sustainability, developing appropriate socio-economic planning schemes that integrate cumulative exposure of archives to future climate patterns is critically important for safeguarding society and its heritage. The outcomes from the risk assessment in this study aid in the decision-making process by promoting strategic adaptation protocols and providing administrators a way to prioritize archival management goals based on the expected severity of future climate change impacts. Keywords: Archives, Climate change, Sea level rise, Storm surge, Cultural

Nuclear-like Seq in mt Genome - RMG | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available ar-like Seq in mt Genome Data detail Data name Nuclear-like Seq in mt Genome DOI 10...e Site Policy | Contact Us Nuclear-like Seq in mt Genome - RMG | LSDB Archive ... ...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us RMG Nucle

Cluster (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available 0”. This cluster ID is uniquely-assigned by the PGDBj Ortholog Database. Cluster size Number of proteins aff...r About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Cluster (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Cluster (Viridiplantae) Data detail Data name Cluster (Viridiplantae) DO...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

Cluster (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available 3090”. This cluster ID is uniquely-assigned by the PGDBj Ortholog Database. Cluster size Number of proteins ...ster About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Cluster (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive ... ...List Contact us PGDBj - Ortholog DB Cluster (Cyanobacteria) Data detail Data name Cluster (Cyanobacteria) DO...switchLanguage; BLAST Search Image Search Home About Archive Update History Data

EZH2 and CD79B mutational status over time in B-cell non-Hodgkin lymphomas detected by high-throughput sequencing using minimal samples

Science.gov (United States)

Saieg, Mauro Ajaj; Geddie, William R; Boerner, Scott L; Bailey, Denis; Crump, Michael; da Cunha Santos, Gilda

2013-01-01

BACKGROUND: Numerous genomic abnormalities in B-cell non-Hodgkin lymphomas (NHLs) have been revealed by novel high-throughput technologies, including recurrent mutations in EZH2 (enhancer of zeste homolog 2) and CD79B (B cell antigen receptor complex-associated protein beta chain) genes. This study sought to determine the evolution of the mutational status of EZH2 and CD79B over time in different samples from the same patient in a cohort of B-cell NHLs, through use of a customized multiplex mutation assay. METHODS: DNA that was extracted from cytological material stored on FTA cards as well as from additional specimens, including archived frozen and formalin-fixed histological specimens, archived stained smears, and cytospin preparations, were submitted to a multiplex mutation assay specifically designed for the detection of point mutations involving EZH2 and CD79B, using MassARRAY spectrometry followed by Sanger sequencing. RESULTS: All 121 samples from 80 B-cell NHL cases were successfully analyzed. Mutations in EZH2 (Y646) and CD79B (Y196) were detected in 13.2% and 8% of the samples, respectively, almost exclusively in follicular lymphomas and diffuse large B-cell lymphomas. In one-third of the positive cases, a wild type was detected in a different sample from the same patient during follow-up. CONCLUSIONS: Testing multiple minimal tissue samples using a high-throughput multiplex platform exponentially increases tissue availability for molecular analysis and might facilitate future studies of tumor progression and the related molecular events. Mutational status of EZH2 and CD79B may vary in B-cell NHL samples over time and support the concept that individualized therapy should be based on molecular findings at the time of treatment, rather than on results obtained from previous specimens. Cancer (Cancer Cytopathol) 2013;121:377–386. © 2013 American Cancer Society. PMID:23361872

Database Dump - fRNAdb | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available List Contact us fRNAdb Database Dump Data detail Data name Database Dump DOI 10.18908/lsdba.nbdc00452-002 De... data (tab separeted text) Data file File name: Database_Dump File URL: ftp://ftp....biosciencedbc.jp/archive/frnadb/LATEST/Database_Dump File size: 673 MB Simple search URL - Data acquisition...s. Data analysis method - Number of data entries 4 files - About This Database Database Description Download... License Update History of This Database Site Policy | Contact Us Database Dump - fRNAdb | LSDB Archive ...

Archives: Tropical Journal of Pharmaceutical Research

African Journals Online (AJOL)

Items 1 - 50 of 97 ... Archives: Tropical Journal of Pharmaceutical Research. Journal Home > Archives: Tropical Journal of Pharmaceutical Research. Log in or Register to get access to full text downloads.

Archives: Nigerian Journal of Physiological Sciences

African Journals Online (AJOL)

Items 1 - 19 of 19 ... Archives: Nigerian Journal of Physiological Sciences. Journal Home > Archives: Nigerian Journal of Physiological Sciences. Log in or Register to get access to full text downloads.

Archives: Nigerian Journal of Pharmaceutical Research

African Journals Online (AJOL)

Items 1 - 9 of 9 ... Archives: Nigerian Journal of Pharmaceutical Research. Journal Home > Archives: Nigerian Journal of Pharmaceutical Research. Log in or Register to get access to full text downloads.

Archival Bone Marrow Samples: Suitable for Multiple Biomarker Analysis?

DEFF Research Database (Denmark)

Lund, Bendik; Najmi, A. Laeya; Wesolowska, Agata

2015-01-01

biopsies from 18 Danish and Norwegian childhood acute lymphoblastic leukemia patients were included and compared with corresponding blood samples. Samples were grouped according to the age of sample and whether WGA was performed or not. We found that measurements of DNA concentration after DNA extraction...

Archiving Spectral Libraries in the Planetary Data System

Science.gov (United States)

Slavney, S.; Guinness, E. A.; Scholes, D.; Zastrow, A.

2017-12-01

Spectral libraries are becoming popular candidates for archiving in PDS. With the increase in the number of individual investigators funded by programs such as NASA's PDART, the PDS Geosciences Node is receiving many requests for support from proposers wishing to archive various forms of laboratory spectra. To accommodate the need for a standardized approach to archiving spectra, the Geosciences Node has designed the PDS Spectral Library Data Dictionary, which contains PDS4 classes and attributes specifically for labeling spectral data, including a classification scheme for samples. The Reflectance Experiment Laboratory (RELAB) at Brown University, which has long been a provider of spectroscopy equipment and services to the science community, has provided expert input into the design of the dictionary. Together the Geosciences Node and RELAB are preparing the whole of the RELAB Spectral Library, consisting of many thousands of spectra collected over the years, to be archived in PDS. An online interface for searching, displaying, and downloading selected spectra is planned, using the Spectral Library metadata recorded in the PDS labels. The data dictionary and online interface will be extended to include spectral libraries submitted by other data providers. The Spectral Library Data Dictionary is now available from PDS at https://pds.nasa.gov/pds4/schema/released/. It can be used in PDS4 labels for reflectance spectra as well as for Raman, XRF, XRD, LIBS, and other types of spectra. Ancillary data such as images, chemistry, and abundance data are also supported. To help generate PDS4-compliant labels for spectra, the Geosciences Node provides a label generation program called MakeLabels (http://pds-geosciences.wustl.edu/tools/makelabels.html) which creates labels from a template, and which can be used for any kind of PDS4 label. For information, contact the Geosciences Node at geosci@wunder.wustl.edu.

(reprocessed)HeliscopeCAGE sequencing, Delve mapping and CAGE TSS aggregation - FANTOM5 | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us FANTOM...ntified by CAGE tag analysis (BED format) *.rdna.fa.gz: rDNA sequences (FASTA format) Data file File name: fantom...5_rp_exp_details.zip File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/20161221/fantom5_rp_exp_detai...tp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/reprocessed/hg38_latest/basic/ File size: 1.4 TB File na...me: (reprocessed)basic (Mus musculus) File URL: ftp://ftp.biosciencedbc.jp/archive/fantom5/datafiles/reproce

EPICS data archiver at SSRF beamlines

International Nuclear Information System (INIS)

Hu Zheng; Mi Qingru; Zheng Lifang; Li Zhong

2014-01-01

The control system of SSRF (Shanghai Synchrotron Radiation Facility) is based on EPICS (Experimental Physics and Industrial Control System). Operation data storage for synchrotron radiation facility is important for its status monitoring and analysis. At SSRF, operation data used to be index files recorded by traditional EPICS Channel Archiver. Nevertheless, index files are not suitable for long-term maintenance and difficult for data analysis. Now, RDB Channel Archiver and MySQL are used for SSRF beamline operation data archiving, so as to promote the data storage reliability and usability. By applying a new uploading mechanism to RDB Channel Archiver, its writing performance is improved. A web-based GUI (Graphics User Interface) is also developed to make it easier to access database. (authors)

Old and New Archives

Directory of Open Access Journals (Sweden)

Ioana Vasiloiu

2015-01-01

Full Text Available Library and museum archives are real testimony of collective memory. Old or new, their "universe" is fascinating. They are the path to an almost forgotten world with all its cultural and intellectual problems or allow us to reconsider the social, historical, political and cultural present. The inestimable value of their manuscripts, books and periodicals made medieval Romanian library archives to be famous in that age. Its content figured out the Romanian humanist's vast intellectual activity and their connection to European values. Their remains, which can be found today especially at Romanian Academy Library, depict some aspects of Romanian medieval cultural life. Particularly, with its huge number of manuscripts, books and periodicals, the National Romanian Literature Museum archives contribute to Romanian history reconstruction from the commencement to present.

Archival claims in Southern Africa | Mnjama | Innovation

African Journals Online (AJOL)

The author examines the problem of archival claims in the region. He begins by defining the broad categories of archives that fall under the rubric of `migrated archives' and shows that virtually all states in the region are affected by problems related to this phenomenon. He argues that failure to distinguish the different ...

Un cinéma palestinien « en mal d’archive » The “Archive Fever” of Palestinian Cinema

Directory of Open Access Journals (Sweden)

Laure Fourest

2012-05-01

Full Text Available À partir de l’analyse de trois films palestiniens réalisés dans les années 2000, cet article propose d’interroger l’insertion d’images d’archives par les cinéastes dans leur montage : quelles stratégies mettent-ils en œuvre et à quelles fins ? Qu’apportent des images d’archives en plus des témoignages filmés ? Comment le recours à ces images permet-il de participer au débat historiographique qui sous-tend et détermine en partie le conflit israélo-palestinien ? Dans le contexte palestinien où il n’existe pas d’institution archivistique officielle, les archives sont porteuses d’enjeux particulièrement saillants, donnant lieu à un véritable « mal d’archive ». Celui-ci fait naître une multiplicité de stratégies cinématographiques visant à questionner cette zone d’inconfort, où le maniement des qualités émotionnelles et sensorielles de l’archive peut être un moyen de faire preuve.Through the analysis of three Palestinian films created in the 2000-2010 period, this article considers filmmakers’ insertion of archival images in their montages: what strategies do they employ and for what purpose? What do archival images add to filmed testimony? How does the use of these images enable participation in the historiographical debate underlying and partly determining the Israel-Palestine conflict? In the Palestinian context, where no official archive institution exists, archives entail particularly salient issues, making their lack truly sore. This generates a multiplicity of cinematographic strategies aiming to challenge this discomfort zone, where the manipulation of the emotional and sensorial qualities of archives can be a means of proving something.

Evaluation of continued storage of samples at the 325 Laboratory

International Nuclear Information System (INIS)

McVey, C.B.

1996-01-01

This report provides identification of potential Program users for samples that are archived at Pacific Northwest National Laboratory (PNNL) facilities, establishes cost releated to packaging and transportation of these samples to 222-S, for continued storage at 325 facilities, disposal and transfer costs. The report provides a recommendation to dispose of 20 samples, transfer 99 samples to PNNL and to continue storage of the remaining samples at PNNL's 325 facility

Update History of This Database - PSCDB | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available List Contact us PSCDB Update History of This Database Date Update contents 2016/11/30 PSCDB English archive ...site is opened. 2011/11/13 PSCDB ( http://idp1.force.cs.is.nagoya-u.ac.jp/pscdb/ ) is opened. About This Database Database... Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - PSCDB | LSDB Archive ...

Data archiving system implementation in ITER's CODAC Core System

International Nuclear Information System (INIS)

Castro, R.; Abadie, L.; Makushok, Y.; Ruiz, M.; Sanz, D.; Vega, J.; Faig, J.; Román-Pérez, G.; Simrock, S.; Makijarvi, P.

2015-01-01

Highlights: • Implementation of ITER's data archiving solution. • Integration of the solution into CODAC Core System. • Data archiving structure. • High efficient data transmission into fast plant system controllers. • Fast control and data acquisition in Linux. - Abstract: The aim of this work is to present the implementation of data archiving in ITER's CODAC Core System software. This first approach provides a client side API and server side software allowing the creation of a simplified version of ITERDB data archiving software, and implements all required elements to complete data archiving flow from data acquisition until its persistent storage technology. The client side includes all necessary components that run on devices that acquire or produce data, distributing and streaming to configure remote archiving servers. The server side comprises an archiving service that stores into HDF5 files all received data. The archiving solution aims at storing data coming for the data acquisition system, the conventional control and also processed/simulated data.

Art from Archives: The Archival Trend in Contemporary Art and Culture

Directory of Open Access Journals (Sweden)

Martyn Jolly

2014-12-01

Full Text Available If the archival mode has been important over the last thirty years, it will only continue to become more important in the next thirty years. In the fifteen years since Lev Manovich wrote The Language of New Media, in which he identified the database with its operations of searching navigating and viewing as the new-media correlate to the novel and cinema with their operations of narrative storytelling, databases have only increased in scale, complexity and ubiquity — at an exponential rate, as is the case with all technologies. Archives are being uncovered or created at an unprecedented rate, digitized at an unprecedented rate and made searchable at an unprecedented rate. New ways of interrogating the archive, new ways of searching metadata and new ways of presenting iterations from the archive, such as more complex data visualizations, are being developed. At the same time photographs are manifesting themselves in a wider range of material substances — etched in stone or glass, printed on cloth or metal, projected on walls and buildings, and sliding along LED arrays or screens. But the story isn’t all about the seductions of new media. The more artists and historians work in this area, the more they realize that there are still troves and troves of objects and images, laid down in all their recalcitrant materiality by those who came before, just waiting to be rediscovered and reinvented.

FISHtrees 3.0: Tumor Phylogenetics Using a Ploidy Probe.

Science.gov (United States)

Gertz, E Michael; Chowdhury, Salim Akhter; Lee, Woei-Jyh; Wangsa, Darawalee; Heselmeyer-Haddad, Kerstin; Ried, Thomas; Schwartz, Russell; Schäffer, Alejandro A

2016-01-01

Advances in fluorescence in situ hybridization (FISH) make it feasible to detect multiple copy-number changes in hundreds of cells of solid tumors. Studies using FISH, sequencing, and other technologies have revealed substantial intra-tumor heterogeneity. The evolution of subclones in tumors may be modeled by phylogenies. Tumors often harbor aneuploid or polyploid cell populations. Using a FISH probe to estimate changes in ploidy can guide the creation of trees that model changes in ploidy and individual gene copy-number variations. We present FISHtrees 3.0, which implements a ploidy-based tree building method based on mixed integer linear programming (MILP). The ploidy-based modeling in FISHtrees includes a new formulation of the problem of merging trees for changes of a single gene into trees modeling changes in multiple genes and the ploidy. When multiple samples are collected from each patient, varying over time or tumor regions, it is useful to evaluate similarities in tumor progression among the samples. Therefore, we further implemented in FISHtrees 3.0 a new method to build consensus graphs for multiple samples. We validate FISHtrees 3.0 on a simulated data and on FISH data from paired cases of cervical primary and metastatic tumors and on paired breast ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC). Tests on simulated data show improved accuracy of the ploidy-based approach relative to prior ploidyless methods. Tests on real data further demonstrate novel insights these methods offer into tumor progression processes. Trees for DCIS samples are significantly less complex than trees for paired IDC samples. Consensus graphs show substantial divergence among most paired samples from both sets. Low consensus between DCIS and IDC trees may help explain the difficulty in finding biomarkers that predict which DCIS cases are at most risk to progress to IDC. The FISHtrees software is available at ftp://ftp.ncbi.nih.gov/pub/FISHtrees.

Intra-tumoral Heterogeneity of KRAS and BRAF Mutation Status in Patients with Advanced Colorectal Cancer (aCRC and Cost-Effectiveness of Multiple Sample Testing

Directory of Open Access Journals (Sweden)

Susan D. Richman

2011-01-01

Full Text Available KRAS mutation status is established as a predictive biomarker of benefit from anti-EGFr therapies. Mutations are normally assessed using DNA extracted from one formalin-fixed, paraffin-embedded (FFPE tumor block. We assessed heterogeneity of KRAS and BRAF mutation status intra-tumorally (multiple blocks from the same primary tumor. We also investigated the utility and efficiency of genotyping a ‘DNA cocktail’ prepared from multiple blocks. We studied 68 consenting patients in two randomized clinical trials. DNA was extracted, from ≥2 primary tumor FFPE blocks per patient. DNA was genotyped by pyrosequencing for KRAS codons 12, 13 and 61 and BRAF codon 600. In patients with heterogeneous mutation status, DNA cocktails were prepared and genotyped. Among 69 primary tumors in 68 patients, 7 (10.1% showed intratumoral heterogeneity; 5 (7.2% at KRAS codons 12, 13 and 2 (2.9% at BRAF codon 600. In patients displaying heterogeneity, the relevant KRAS or BRAF mutation was also identified in ‘DNA cocktail’ samples when including DNA from mutant and wild-type blocks. Heterogeneity is uncommon but not insignificant. Testing DNA from a single block will wrongly assign wild-type status to 10% patients. Testing more than one block, or preferably preparation of a ‘DNA cocktail’ from two or more tumor blocks, improves mutation detection at minimal extra cost.

Profiles of international archives: Les archives Jean Piaget, University of Geneva, Switzerland.

Science.gov (United States)

Burman, Jeremy Trevelyan

2013-05-01

This research report provides a look behind closed doors at the Jean Piaget Archives in Geneva, Switzerland. It situates the potential visitor, contextualizes the Archives in its own history, and then describes what scholars can expect to find. New details about Piaget's views on Equal Rights and Equal Pay are also provided, including a look at how they affected the women who worked his factory (esp. Bärbel Inhelder). (PsycINFO Database Record (c) 2013 APA, all rights reserved).

THE LA PALMA DATA ARCHIVE

NARCIS (Netherlands)

ZUIDERWIJK, EJ; MARTIN, R; RAIMOND, E; VANDIEPEN, GNJ

The operation of the La Palma Data Archive is described in detail. The archive contains data taken since early 1986 with the Isaac Newton Group; 74% of the 260,000 entries are of astronomical sources. Several hundreds of queries are made on the catalog each year, resulting in approximately one

36 CFR 1280.66 - May I use the National Archives Library?

Science.gov (United States)

2010-07-01

... Archives Library? 1280.66 Section 1280.66 Parks, Forests, and Public Property NATIONAL ARCHIVES AND RECORDS... the Washington, DC, Area? § 1280.66 May I use the National Archives Library? The National Archives Library facilities in the National Archives Building and in the National Archives at College Park are...

TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays

Directory of Open Access Journals (Sweden)

Neuvial Pierre

2010-05-01

Full Text Available Abstract Background High-throughput genotyping microarrays assess both total DNA copy number and allelic composition, which makes them a tool of choice for copy number studies in cancer, including total copy number and loss of heterozygosity (LOH analyses. Even after state of the art preprocessing methods, allelic signal estimates from genotyping arrays still suffer from systematic effects that make them difficult to use effectively for such downstream analyses. Results We propose a method, TumorBoost, for normalizing allelic estimates of one tumor sample based on estimates from a single matched normal. The method applies to any paired tumor-normal estimates from any microarray-based technology, combined with any preprocessing method. We demonstrate that it increases the signal-to-noise ratio of allelic signals, making it significantly easier to detect allelic imbalances. Conclusions TumorBoost increases the power to detect somatic copy-number events (including copy-neutral LOH in the tumor from allelic signals of Affymetrix or Illumina origin. We also conclude that high-precision allelic estimates can be obtained from a single pair of tumor-normal hybridizations, if TumorBoost is combined with single-array preprocessing methods such as (allele-specific CRMA v2 for Affymetrix or BeadStudio's (proprietary XY-normalization method for Illumina. A bounded-memory implementation is available in the open-source and cross-platform R package aroma.cn, which is part of the Aroma Project (http://www.aroma-project.org/.

Prevalence profile of odontogenic cysts and tumors on Brazilian sample after the reclassification of odontogenic keratocyst.

Science.gov (United States)

Jaeger, Filipe; de Noronha, Mariana Saturnino; Silva, Maiza Luiza Vieira; Amaral, Márcio Bruno Figueiredo; Grossmann, Soraya de Mattos Carmago; Horta, Martinho Campolina Rebello; de Souza, Paulo Eduardo Alencar; de Aguiar, Maria Cássia Ferreira; Mesquita, Ricardo Alves

2017-02-01

The aim of this study was to evaluate the impact of the reclassification of odontogenic keratocyst (OKC) as a tumor on the prevalence profile of odontogenic cysts (OCs) and odontogenic tumors (OTs). Two referral Oral and Maxillofacial Pathology services in Brazil were evaluated. All cases diagnosed as OCs or OTs were selected and classified according to the 1992 WHO-classification (cases before 2005 WHO classification of tumors excluding OKC) and the 2005 WHO classification of tumors, going forward including cases of odontogenic keratocyst tumor (KCOT). The frequency and prevalence of OCs and OTs were compared before and after the reclassification. Among 27,854 oral biopsies, 4920 (17.66%) were OCs and 992 (3.56%) were OTs. The prevalence of OTs before 2005 WHO classification of tumors was 2.04%, while the prevalence after 2005 WHO classification was 11.51% (p < 0.0001). Before 2006, the most frequent tumor diagnosed was odontoma with 194 cases (39.67%), and after 2005 WHO classification of tumors the KCOT was the most frequent with 207 cases (41.07%). The increase in the prevalence of OTs after 2005 WHO is related to the improvement of pathology services and to the inclusion of KCOT in the OTs group. Copyright © 2016 European Association for Cranio-Maxillo-Facial Surgery. Published by Elsevier Ltd. All rights reserved.

A Rational Approach for Discovering and Validating Cancer Markers in Very Small Samples Using Mass Spectrometry and ELISA Microarrays

Directory of Open Access Journals (Sweden)

Richard C. Zangar

2004-01-01

Full Text Available Identifying useful markers of cancer can be problematic due to limited amounts of sample. Some samples such as nipple aspirate fluid (NAF or early-stage tumors are inherently small. Other samples such as serum are collected in larger volumes but archives of these samples are very valuable and only small amounts of each sample may be available for a single study. Also, given the diverse nature of cancer and the inherent variability in individual protein levels, it seems likely that the best approach to screen for cancer will be to determine the profile of a battery of proteins. As a result, a major challenge in identifying protein markers of disease is the ability to screen many proteins using very small amounts of sample. In this review, we outline some technological advances in proteomics that greatly advance this capability. Specifically, we propose a strategy for identifying markers of breast cancer in NAF that utilizes mass spectrometry (MS to simultaneously screen hundreds or thousands of proteins in each sample. The best potential markers identified by the MS analysis can then be extensively characterized using an ELISA microarray assay. Because the microarray analysis is quantitative and large numbers of samples can be efficiently analyzed, this approach offers the ability to rapidly assess a battery of selected proteins in a manner that is directly relevant to traditional clinical assays.

Tango archiving service status

International Nuclear Information System (INIS)

Abeille, G.; Pierre-Joseph, S.; Guyot, J.; Ounsy, M.; Rubio, S.; Strangolino, G.; Passuello, R.

2012-01-01

In modern scientific instruments like ALBA, ELLETRA or Synchrotron Soleil, the monitoring and tuning of thousands of parameters is essential to drive high-performing accelerators and beamlines. To keep track of these parameters and to easily manage large volumes of technical data, an archiving service is a key component of a modern control system like Tango. To achieve this, a high-available archiving service is provided as a feature of the Tango control system. This archiving service stores data coming from the Tango control system into MySQL or Oracle databases. Tree sub-services are provided: 1) An historical service with an archiving period up to 10 seconds; 2) A short term service providing a few weeks retention with a period up to 100 milliseconds; and 3) A snapshot service which takes 'snapshots' of Tango parameters and can reapply them to the control system on user demand. This paper presents how to obtain a high-performance and scalable service based on our feedback after several years of operation. The deployment architecture in the different Tango institutes will then be detailed. The paper concludes with a description of the next steps and incoming features which will be available in the next future. (authors)

NASA Data Archive Evaluation

Science.gov (United States)

Holley, Daniel C.; Haight, Kyle G.; Lindstrom, Ted

1997-01-01

The purpose of this study was to expose a range of naive individuals to the NASA Data Archive and to obtain feedback from them, with the goal of learning how useful people with varied backgrounds would find the Archive for research and other purposes. We processed 36 subjects in four experimental categories, designated in this report as C+R+, C+R-, C-R+ and C-R-, for computer experienced researchers, computer experienced non-researchers, non-computer experienced researchers, and non-computer experienced non-researchers, respectively. This report includes an assessment of general patterns of subject responses to the various aspects of the NASA Data Archive. Some of the aspects examined were interface-oriented, addressing such issues as whether the subject was able to locate information, figure out how to perform desired information retrieval tasks, etc. Other aspects were content-related. In doing these assessments, answers given to different questions were sometimes combined. This practice reflects the tendency of the subjects to provide answers expressing their experiences across question boundaries. Patterns of response are cross-examined by subject category in order to bring out deeper understandings of why subjects reacted the way they did to the archive. After the general assessment, there will be a more extensive summary of the replies received from the test subjects.

Donors and archives a guidebook for successful programs

CERN Document Server

Purcell, Aaron D

2015-01-01

Donors and Archives: A Guidebook for Successful Programs highlights the importance of development and fundraising for archives, while focusing on the donor and potential donor. Their interest, their support, their enthusiasm, and their stuff are vital to the success of archival programs.

Discussion the exploitation of nuclear power archival resources

International Nuclear Information System (INIS)

Fan Fei

2012-01-01

In recent years with the development of government policy on nuclear power by the 'proper development' to 'positive rapid development', the nuclear power stations have mushroomed. As an important part of nuclear power plant the archives plays an important role in ensuring the safe and stable operation. With the increasing nuclear power archival resources, its how the rational and efficient development and utilization of nuclear power as an important corporate archivists subject. Nuclear power archives is no longer a static file 'archive' but a steady steam of out knowledge and wisdom of the 'think tank', 'treasure', our archives staff also no longer simply a medium used to provide lending, but to provide reference 'experts' and 'think tank'. Based on the analysis of nuclear features of archival resources, the use of a new perspective on nuclear power development and utilization of enterprise file made bold attempts and innovation. (author)

Research Groups & Research Subjects - RED | LSDB Archive [Life Science Database Archive metadata

Lifescience Database Archive (English)

Full Text Available rch Groups & Research Subjects Data detail Data name Research Groups & Research Sub... Number of data entries 174 entries Data item Description Research ID Research ID (Subject number) Institute...tion Download License Update History of This Database Site Policy | Contact Us Research Groups & Research Subjects - RED | LSDB Archive ... ...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us RED Resea... Organization Section Section (Department) User name User name Experimental title Experimental title (Rese

Impact of delay to cryopreservation on RNA integrity and genome-wide expression profiles in resected tumor samples.

Directory of Open Access Journals (Sweden)

Elodie Caboux

Full Text Available The quality of tissue samples and extracted mRNA is a major source of variability in tumor transcriptome analysis using genome-wide expression microarrays. During and immediately after surgical tumor resection, tissues are exposed to metabolic, biochemical and physical stresses characterized as "warm ischemia". Current practice advocates cryopreservation of biosamples within 30 minutes of resection, but this recommendation has not been systematically validated by measurements of mRNA decay over time. Using Illumina HumanHT-12 v3 Expression BeadChips, providing a genome-wide coverage of over 24,000 genes, we have analyzed gene expression variation in samples of 3 hepatocellular carcinomas (HCC and 3 lung carcinomas (LC cryopreserved at times up to 2 hours after resection. RNA Integrity Numbers (RIN revealed no significant deterioration of mRNA up to 2 hours after resection. Genome-wide transcriptome analysis detected non-significant gene expression variations of -3.5%/hr (95% CI: -7.0%/hr to 0.1%/hr; p = 0.054. In LC, no consistent gene expression pattern was detected in relation with warm ischemia. In HCC, a signature of 6 up-regulated genes (CYP2E1, IGLL1, CABYR, CLDN2, NQO1, SCL13A5 and 6 down-regulated genes (MT1G, MT1H, MT1E, MT1F, HABP2, SPINK1 was identified (FDR <0.05. Overall, our observations support current recommendation of time to cryopreservation of up to 30 minutes and emphasize the need for identifying tissue-specific genes deregulated following resection to avoid misinterpreting expression changes induced by warm ischemia as pathologically significant changes.

NASA's Long-Term Astrophysics Data Archives

OpenAIRE

Rebull, L. M.; Desai, V.; Teplitz, H.; Groom, S.; Akeson, R.; Berriman, G. B.; Helou, G.; Imel, D.; Mazzarella, J. M.; Accomazzi, A.; McGlynn, T.; Smale, A.; White, R.

2017-01-01

NASA regards data handling and archiving as an integral part of space missions, and has a strong track record of serving astrophysics data to the public, beginning with the the IRAS satellite in 1983. Archives enable a major science return on the significant investment required to develop a space mission. In fact, the presence and accessibility of an archive can more than double the number of papers resulting from the data. In order for the community to be able to use the data, they have to b...

Archival Discipline in Dewey Decimal Classification

Directory of Open Access Journals (Sweden)

Laura Manzoni

2017-05-01

Full Text Available This paper regards the ways archival discipline is treated in DDC. After a short introduction about the discipline in Italy, the essay focuses on the analysis of division 020 of DDC 23, with specific attention to section 025 and with punctual reference to section 651, concerning archival material. The aim of the paper is to point out archival discipline’s peculiarities and its differences from library science, as well as underlining the critical issues on how this discipline is handled in DDC.

Assessment of the potential respiratory hazard of volcanic ash from future Icelandic eruptions: A study of archived basaltic to rhyolitic ash samples

Science.gov (United States)

Damby, David; Horwell, Claire J.; Larsen, Gudrun; Thordarson, Thorvaldur; Tomatis, Maura; Fubini, Bice; Donaldson, Ken

2017-01-01

BackgroundThe eruptions of Eyjafjallajökull (2010) and Grímsvötn (2011), Iceland, triggered immediate, international consideration of the respiratory health hazard of inhaling volcanic ash, and prompted the need to estimate the potential hazard posed by future eruptions of Iceland’s volcanoes to Icelandic and Northern European populations. MethodsA physicochemical characterization and toxicological assessment was conducted on a suite of archived ash samples spanning the spectrum of past eruptions (basaltic to rhyolitic magmatic composition) of Icelandic volcanoes following a protocol specifically designed by the International Volcanic Health Hazard Network. ResultsIcelandic ash can be of a respirable size (up to 11.3 vol.% < 4 μm), but the samples did not display physicochemical characteristics of pathogenic particulate in terms of composition or morphology. Ash particles were generally angular, being composed of fragmented glass and crystals. Few fiber-like particles were observed, but those present comprised glass or sodium oxides, and are not related to pathogenic natural fibers, like asbestos or fibrous zeolites, thereby limiting concern of associated respiratory diseases. None of the samples contained cristobalite or tridymite, and only one sample contained quartz, minerals of interest due to the potential to cause silicosis. Sample surface areas are low, ranging from 0.4 to 1.6 m2 g−1, which aligns with analyses on ash from other eruptions worldwide. All samples generated a low level of hydroxyl radicals (HO•), a measure of surface reactivity, through the iron-catalyzed Fenton reaction compared to concurrently analyzed comparative samples. However, radical generation increased after ‘refreshing’ sample surfaces, indicating that newly erupted samples may display higher reactivity. A composition-dependent range of available surface iron was measured after a 7-day incubation, from 22.5 to 315.7 μmol m−2, with mafic samples releasing more iron

Life Sciences Data Archive (LSDA)

Science.gov (United States)

Fitts, M.; Johnson-Throop, Kathy; Thomas, D.; Shackelford, K.

2008-01-01

In the early days of spaceflight, space life sciences data were been collected and stored in numerous databases, formats, media-types and geographical locations. While serving the needs of individual research teams, these data were largely unknown/unavailable to the scientific community at large. As a result, the Space Act of 1958 and the Science Data Management Policy mandated that research data collected by the National Aeronautics and Space Administration be made available to the science community at large. The Biomedical Informatics and Health Care Systems Branch of the Space Life Sciences Directorate at JSC and the Data Archive Project at ARC, with funding from the Human Research Program through the Exploration Medical Capability Element, are fulfilling these requirements through the systematic population of the Life Sciences Data Archive. This program constitutes a formal system for the acquisition, archival and distribution of data for Life Sciences-sponsored experiments and investigations. The general goal of the archive is to acquire, preserve, and distribute these data using a variety of media which are accessible and responsive to inquiries from the science communities.

An Optimized Set of Fluorescence In Situ Hybridization Probes for Detection of Pancreatobiliary Tract Cancer in Cytology Brush Samples.

Science.gov (United States)

Barr Fritcher, Emily G; Voss, Jesse S; Brankley, Shannon M; Campion, Michael B; Jenkins, Sarah M; Keeney, Matthew E; Henry, Michael R; Kerr, Sarah M; Chaiteerakij, Roongruedee; Pestova, Ekaterina V; Clayton, Amy C; Zhang, Jun; Roberts, Lewis R; Gores, Gregory J; Halling, Kevin C; Kipp, Benjamin R

2015-12-01

Pancreatobiliary cancer is detected by fluorescence in situ hybridization (FISH) of pancreatobiliary brush samples with UroVysion probes, originally designed to detect bladder cancer. We designed a set of new probes to detect pancreatobiliary cancer and compared its performance with that of UroVysion and routine cytology analysis. We tested a set of FISH probes on tumor tissues (cholangiocarcinoma or pancreatic carcinoma) and non-tumor tissues from 29 patients. We identified 4 probes that had high specificity for tumor vs non-tumor tissues; we called this set of probes pancreatobiliary FISH. We performed a retrospective analysis of brush samples from 272 patients who underwent endoscopic retrograde cholangiopancreatography for evaluation of malignancy at the Mayo Clinic; results were available from routine cytology and FISH with UroVysion probes. Archived residual specimens were retrieved and used to evaluate the pancreatobiliary FISH probes. Cutoff values for FISH with the pancreatobiliary probes were determined using 89 samples and validated in the remaining 183 samples. Clinical and pathologic evidence of malignancy in the pancreatobiliary tract within 2 years of brush sample collection was used as the standard; samples from patients without malignancies were used as negative controls. The validation cohort included 85 patients with malignancies (46.4%) and 114 patients with primary sclerosing cholangitis (62.3%). Samples containing cells above the cutoff for polysomy (copy number gain of ≥2 probes) were classified as positive in FISH with the UroVysion and pancreatobiliary probes. Multivariable logistic regression was used to estimate associations between clinical and pathology findings and results from FISH. The combination of FISH probes 1q21, 7p12, 8q24, and 9p21 identified cancer cells with 93% sensitivity and 100% specificity in pancreatobiliary tissue samples and were therefore included in the pancreatobiliary probe set. In the validation cohort of