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Sample records for genome blast distance

  1. Genome BLAST distance phylogenies inferred from whole plastid and whole mitochondrion genome sequences

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    Holland Barbara R

    2006-07-01

    Full Text Available Abstract Background Phylogenetic methods which do not rely on multiple sequence alignments are important tools in inferring trees directly from completely sequenced genomes. Here, we extend the recently described Genome BLAST Distance Phylogeny (GBDP strategy to compute phylogenetic trees from all completely sequenced plastid genomes currently available and from a selection of mitochondrial genomes representing the major eukaryotic lineages. BLASTN, TBLASTX, or combinations of both are used to locate high-scoring segment pairs (HSPs between two sequences from which pairwise similarities and distances are computed in different ways resulting in a total of 96 GBDP variants. The suitability of these distance formulae for phylogeny reconstruction is directly estimated by computing a recently described measure of "treelikeness", the so-called δ value, from the respective distance matrices. Additionally, we compare the trees inferred from these matrices using UPGMA, NJ, BIONJ, FastME, or STC, respectively, with the NCBI taxonomy tree of the taxa under study. Results Our results indicate that, at this taxonomic level, plastid genomes are much more valuable for inferring phylogenies than are mitochondrial genomes, and that distances based on breakpoints are of little use. Distances based on the proportion of "matched" HSP length to average genome length were best for tree estimation. Additionally we found that using TBLASTX instead of BLASTN and, particularly, combining TBLASTX and BLASTN leads to a small but significant increase in accuracy. Other factors do not significantly affect the phylogenetic outcome. The BIONJ algorithm results in phylogenies most in accordance with the current NCBI taxonomy, with NJ and FastME performing insignificantly worse, and STC performing as well if applied to high quality distance matrices. δ values are found to be a reliable predictor of phylogenetic accuracy. Conclusion Using the most treelike distance matrices, as

  2. BLAST Ring Image Generator (BRIG: simple prokaryote genome comparisons

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    Beatson Scott A

    2011-08-01

    Full Text Available Abstract Background Visualisation of genome comparisons is invaluable for helping to determine genotypic differences between closely related prokaryotes. New visualisation and abstraction methods are required in order to improve the validation, interpretation and communication of genome sequence information; especially with the increasing amount of data arising from next-generation sequencing projects. Visualising a prokaryote genome as a circular image has become a powerful means of displaying informative comparisons of one genome to a number of others. Several programs, imaging libraries and internet resources already exist for this purpose, however, most are either limited in the number of comparisons they can show, are unable to adequately utilise draft genome sequence data, or require a knowledge of command-line scripting for implementation. Currently, there is no freely available desktop application that enables users to rapidly visualise comparisons between hundreds of draft or complete genomes in a single image. Results BLAST Ring Image Generator (BRIG can generate images that show multiple prokaryote genome comparisons, without an arbitrary limit on the number of genomes compared. The output image shows similarity between a central reference sequence and other sequences as a set of concentric rings, where BLAST matches are coloured on a sliding scale indicating a defined percentage identity. Images can also include draft genome assembly information to show read coverage, assembly breakpoints and collapsed repeats. In addition, BRIG supports the mapping of unassembled sequencing reads against one or more central reference sequences. Many types of custom data and annotations can be shown using BRIG, making it a versatile approach for visualising a range of genomic comparison data. BRIG is readily accessible to any user, as it assumes no specialist computational knowledge and will perform all required file parsing and BLAST comparisons

  3. BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons.

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    Alikhan, Nabil-Fareed; Petty, Nicola K; Ben Zakour, Nouri L; Beatson, Scott A

    2011-08-08

    Visualisation of genome comparisons is invaluable for helping to determine genotypic differences between closely related prokaryotes. New visualisation and abstraction methods are required in order to improve the validation, interpretation and communication of genome sequence information; especially with the increasing amount of data arising from next-generation sequencing projects. Visualising a prokaryote genome as a circular image has become a powerful means of displaying informative comparisons of one genome to a number of others. Several programs, imaging libraries and internet resources already exist for this purpose, however, most are either limited in the number of comparisons they can show, are unable to adequately utilise draft genome sequence data, or require a knowledge of command-line scripting for implementation. Currently, there is no freely available desktop application that enables users to rapidly visualise comparisons between hundreds of draft or complete genomes in a single image. BLAST Ring Image Generator (BRIG) can generate images that show multiple prokaryote genome comparisons, without an arbitrary limit on the number of genomes compared. The output image shows similarity between a central reference sequence and other sequences as a set of concentric rings, where BLAST matches are coloured on a sliding scale indicating a defined percentage identity. Images can also include draft genome assembly information to show read coverage, assembly breakpoints and collapsed repeats. In addition, BRIG supports the mapping of unassembled sequencing reads against one or more central reference sequences. Many types of custom data and annotations can be shown using BRIG, making it a versatile approach for visualising a range of genomic comparison data. BRIG is readily accessible to any user, as it assumes no specialist computational knowledge and will perform all required file parsing and BLAST comparisons automatically. There is a clear need for a user

  4. Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.

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    Babu, B Kalyana; Dinesh, Pandey; Agrawal, Pawan K; Sood, S; Chandrashekara, C; Bhatt, Jagadish C; Kumar, Anil

    2014-01-01

    The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to the blast resistance genes using SSR markers. In the present study, a total of 58 genic SSRs were developed for use in genetic analysis of a global collection of 190 finger millet genotypes. The 58 SSRs yielded ninety five scorable alleles and the polymorphism information content varied from 0.186 to 0.677 at an average of 0.385. The gene diversity was in the range of 0.208 to 0.726 with an average of 0.487. Association mapping for blast resistance was done using 104 SSR markers which identified four QTLs for finger blast and one QTL for neck blast resistance. The genomic marker RM262 and genic marker FMBLEST32 were linked to finger blast disease at a P value of 0.007 and explained phenotypic variance (R²) of 10% and 8% respectively. The genomic marker UGEP81 was associated to finger blast at a P value of 0.009 and explained 7.5% of R². The QTLs for neck blast was associated with the genomic SSR marker UGEP18 at a P value of 0.01, which explained 11% of R². Three QTLs for blast resistance were found common by using both GLM and MLM approaches. The resistant alleles were found to be present mostly in the exotic genotypes. Among the genotypes of NW Himalayan region of India, VHC3997, VHC3996 and VHC3930 were found highly resistant, which may be effectively used as parents for developing blast resistant cultivars in the NW Himalayan region of India. The markers linked to the QTLs for blast resistance in the present study can be further used for cloning of the full length gene, fine mapping and their further use in the marker assisted breeding programmes for introgression of blast resistant alleles into locally adapted cultivars.

  5. Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.

    Directory of Open Access Journals (Sweden)

    B Kalyana Babu

    Full Text Available The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to the blast resistance genes using SSR markers. In the present study, a total of 58 genic SSRs were developed for use in genetic analysis of a global collection of 190 finger millet genotypes. The 58 SSRs yielded ninety five scorable alleles and the polymorphism information content varied from 0.186 to 0.677 at an average of 0.385. The gene diversity was in the range of 0.208 to 0.726 with an average of 0.487. Association mapping for blast resistance was done using 104 SSR markers which identified four QTLs for finger blast and one QTL for neck blast resistance. The genomic marker RM262 and genic marker FMBLEST32 were linked to finger blast disease at a P value of 0.007 and explained phenotypic variance (R² of 10% and 8% respectively. The genomic marker UGEP81 was associated to finger blast at a P value of 0.009 and explained 7.5% of R². The QTLs for neck blast was associated with the genomic SSR marker UGEP18 at a P value of 0.01, which explained 11% of R². Three QTLs for blast resistance were found common by using both GLM and MLM approaches. The resistant alleles were found to be present mostly in the exotic genotypes. Among the genotypes of NW Himalayan region of India, VHC3997, VHC3996 and VHC3930 were found highly resistant, which may be effectively used as parents for developing blast resistant cultivars in the NW Himalayan region of India. The markers linked to the QTLs for blast resistance in the present study can be further used for cloning of the full length gene, fine mapping and their further use in the marker assisted breeding programmes for introgression of blast resistant alleles into locally adapted cultivars.

  6. The Blast Fungus Decoded: Genomes in Flux

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    Thorsten Langner

    2018-04-01

    Full Text Available Plant disease outbreaks caused by fungi are a chronic threat to global food security. A prime case is blast disease, which is caused by the ascomycete fungus Magnaporthe oryzae (syn. Pyricularia oryzae, which is infamous as the most destructive disease of the staple crop rice. However, despite its Linnaean binomial name, M. oryzae is a multihost pathogen that infects more than 50 species of grasses. A timely study by P. Gladieux and colleagues (mBio 9:e01219-17, 2018, https://doi.org/10.1128/mBio.01219-17 reports the most extensive population genomic analysis of the blast fungus thus far. M. oryzae consists of an assemblage of differentiated lineages that tend to be associated with particular host genera. Nonetheless, there is clear evidence of gene flow between lineages consistent with maintaining M. oryzae as a single species. Here, we discuss these findings with an emphasis on the ecologic and genetic mechanisms underpinning gene flow. This work also bears practical implications for diagnostics, surveillance, and management of blast diseases.

  7. The Blast Fungus Decoded: Genomes in Flux.

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    Langner, Thorsten; Białas, Aleksandra; Kamoun, Sophien

    2018-04-17

    Plant disease outbreaks caused by fungi are a chronic threat to global food security. A prime case is blast disease, which is caused by the ascomycete fungus Magnaporthe oryzae (syn. Pyricularia oryzae ), which is infamous as the most destructive disease of the staple crop rice. However, despite its Linnaean binomial name, M. oryzae is a multihost pathogen that infects more than 50 species of grasses. A timely study by P. Gladieux and colleagues (mBio 9:e01219-17, 2018, https://doi.org/10.1128/mBio.01219-17) reports the most extensive population genomic analysis of the blast fungus thus far. M. oryzae consists of an assemblage of differentiated lineages that tend to be associated with particular host genera. Nonetheless, there is clear evidence of gene flow between lineages consistent with maintaining M. oryzae as a single species. Here, we discuss these findings with an emphasis on the ecologic and genetic mechanisms underpinning gene flow. This work also bears practical implications for diagnostics, surveillance, and management of blast diseases. Copyright © 2018 Langner et al.

  8. A Distance Measure for Genome Phylogenetic Analysis

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    Cao, Minh Duc; Allison, Lloyd; Dix, Trevor

    Phylogenetic analyses of species based on single genes or parts of the genomes are often inconsistent because of factors such as variable rates of evolution and horizontal gene transfer. The availability of more and more sequenced genomes allows phylogeny construction from complete genomes that is less sensitive to such inconsistency. For such long sequences, construction methods like maximum parsimony and maximum likelihood are often not possible due to their intensive computational requirement. Another class of tree construction methods, namely distance-based methods, require a measure of distances between any two genomes. Some measures such as evolutionary edit distance of gene order and gene content are computational expensive or do not perform well when the gene content of the organisms are similar. This study presents an information theoretic measure of genetic distances between genomes based on the biological compression algorithm expert model. We demonstrate that our distance measure can be applied to reconstruct the consensus phylogenetic tree of a number of Plasmodium parasites from their genomes, the statistical bias of which would mislead conventional analysis methods. Our approach is also used to successfully construct a plausible evolutionary tree for the γ-Proteobacteria group whose genomes are known to contain many horizontally transferred genes.

  9. Comparison of Some Blast Vibration Predictors for Blasting in Underground Drifts and Some Observations

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    Bhagwat, Vaibhab Pramod; Dey, Kaushik

    2016-04-01

    Drilling and blasting are the most economical excavation techniques in underground drifts driven through hard rock formation. Burn cut is the most popular drill pattern, used in this case, to achieve longer advance per blast round. The ground vibration generated due to the propagation of blast waves on the detonation of explosive during blasting is the principal cause for structural and rock damage. Thus, ground vibration is a point of concern for the blasting engineers. The ground vibration from a blast is measured using a seismograph placed at the blast monitoring station. The measured vibrations, in terms of peak particle velocity, are related to the maximum charge detonated at one instant and the distance of seismograph from the blast point. The ground vibrations from a number of blast rounds of varying charge/delay and distances are monitored. A number of scaling factors of these dependencies (viz. Distance and maximum charge/delay) have been proposed by different researchers, namely, square root, cube root, CMRI, Langefors and Kihlstrom, Ghosh-Daemon, Indian standard etc. Scaling factors of desired type are computed for all the measured blast rounds. Regression analysis is carried out between the scaling factors and peak particle velocities to establish the coefficients of the vibration predictor equation. Then, the developed predictor equation is used for designing the blast henceforth. Director General of Mine Safety, India, specified that ground vibrations from eight to ten blast rounds of varying charge/delay and distances should be monitored to develop a predictor equation; however, there is no guideline about the type of scaling factor to be used. Further to this, from the statistical point of view, a regression analysis on a small sample population cannot be accepted without the testing of hypothesis. To show the importance of the above, in this paper, seven scaling factors are considered for blast data set of a hard-rock underground drift using burn

  10. NCBI BLAST+ integrated into Galaxy.

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    Cock, Peter J A; Chilton, John M; Grüning, Björn; Johnson, James E; Soranzo, Nicola

    2015-01-01

    The NCBI BLAST suite has become ubiquitous in modern molecular biology and is used for small tasks such as checking capillary sequencing results of single PCR products, genome annotation or even larger scale pan-genome analyses. For early adopters of the Galaxy web-based biomedical data analysis platform, integrating BLAST into Galaxy was a natural step for sequence comparison workflows. The command line NCBI BLAST+ tool suite was wrapped for use within Galaxy. Appropriate datatypes were defined as needed. The integration of the BLAST+ tool suite into Galaxy has the goal of making common BLAST tasks easy and advanced tasks possible. This project is an informal international collaborative effort, and is deployed and used on Galaxy servers worldwide. Several examples of applications are described here.

  11. On Computing Breakpoint Distances for Genomes with Duplicate Genes.

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    Shao, Mingfu; Moret, Bernard M E

    2017-06-01

    A fundamental problem in comparative genomics is to compute the distance between two genomes in terms of its higher level organization (given by genes or syntenic blocks). For two genomes without duplicate genes, we can easily define (and almost always efficiently compute) a variety of distance measures, but the problem is NP-hard under most models when genomes contain duplicate genes. To tackle duplicate genes, three formulations (exemplar, maximum matching, and any matching) have been proposed, all of which aim to build a matching between homologous genes so as to minimize some distance measure. Of the many distance measures, the breakpoint distance (the number of nonconserved adjacencies) was the first one to be studied and remains of significant interest because of its simplicity and model-free property. The three breakpoint distance problems corresponding to the three formulations have been widely studied. Although we provided last year a solution for the exemplar problem that runs very fast on full genomes, computing optimal solutions for the other two problems has remained challenging. In this article, we describe very fast, exact algorithms for these two problems. Our algorithms rely on a compact integer-linear program that we further simplify by developing an algorithm to remove variables, based on new results on the structure of adjacencies and matchings. Through extensive experiments using both simulations and biological data sets, we show that our algorithms run very fast (in seconds) on mammalian genomes and scale well beyond. We also apply these algorithms (as well as the classic orthology tool MSOAR) to create orthology assignment, then compare their quality in terms of both accuracy and coverage. We find that our algorithm for the "any matching" formulation significantly outperforms other methods in terms of accuracy while achieving nearly maximum coverage.

  12. BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences.

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    Kanehisa, Minoru; Sato, Yoko; Morishima, Kanae

    2016-02-22

    BlastKOALA and GhostKOALA are automatic annotation servers for genome and metagenome sequences, which perform KO (KEGG Orthology) assignments to characterize individual gene functions and reconstruct KEGG pathways, BRITE hierarchies and KEGG modules to infer high-level functions of the organism or the ecosystem. Both servers are made freely available at the KEGG Web site (http://www.kegg.jp/blastkoala/). In BlastKOALA, the KO assignment is performed by a modified version of the internally used KOALA algorithm after the BLAST search against a non-redundant dataset of pangenome sequences at the species, genus or family level, which is generated from the KEGG GENES database by retaining the KO content of each taxonomic category. In GhostKOALA, which utilizes more rapid GHOSTX for database search and is suitable for metagenome annotation, the pangenome dataset is supplemented with Cd-hit clusters including those for viral genes. The result files may be downloaded and manipulated for further KEGG Mapper analysis, such as comparative pathway analysis using multiple BlastKOALA results. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

  13. Alignment-free genome tree inference by learning group-specific distance metrics.

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    Patil, Kaustubh R; McHardy, Alice C

    2013-01-01

    Understanding the evolutionary relationships between organisms is vital for their in-depth study. Gene-based methods are often used to infer such relationships, which are not without drawbacks. One can now attempt to use genome-scale information, because of the ever increasing number of genomes available. This opportunity also presents a challenge in terms of computational efficiency. Two fundamentally different methods are often employed for sequence comparisons, namely alignment-based and alignment-free methods. Alignment-free methods rely on the genome signature concept and provide a computationally efficient way that is also applicable to nonhomologous sequences. The genome signature contains evolutionary signal as it is more similar for closely related organisms than for distantly related ones. We used genome-scale sequence information to infer taxonomic distances between organisms without additional information such as gene annotations. We propose a method to improve genome tree inference by learning specific distance metrics over the genome signature for groups of organisms with similar phylogenetic, genomic, or ecological properties. Specifically, our method learns a Mahalanobis metric for a set of genomes and a reference taxonomy to guide the learning process. By applying this method to more than a thousand prokaryotic genomes, we showed that, indeed, better distance metrics could be learned for most of the 18 groups of organisms tested here. Once a group-specific metric is available, it can be used to estimate the taxonomic distances for other sequenced organisms from the group. This study also presents a large scale comparison between 10 methods--9 alignment-free and 1 alignment-based.

  14. Experimental investigation of blast mitigation and particle-blast interaction during the explosive dispersal of particles and liquids

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    Pontalier, Q.; Loiseau, J.; Goroshin, S.; Frost, D. L.

    2018-05-01

    The attenuation of a blast wave from a high-explosive charge surrounded by a layer of inert material is investigated experimentally in a spherical geometry for a wide range of materials. The blast wave pressure is inferred from extracting the blast wave velocity with high-speed video as well as direct measurements with pressure transducers. The mitigant consists of either a packed bed of particles, a particle bed saturated with water, or a homogeneous liquid. The reduction in peak blast wave overpressure is primarily dependent on the mitigant to explosive mass ratio, M/ C, with the mitigant material properties playing a secondary role. Relative peak pressure mitigation reduces with distance and for low values of M/ C (compaction, deformation, and fracture of the powders plays an important role. The difference in scaled arrival time of the blast and material fronts increases with M/ C and scaled distance, with solid particles giving the largest separation between the blast wave and cloud of particles. Surrounding a high-explosive charge with a layer of particles reduces the positive-phase blast impulse, whereas a liquid layer has no influence on the impulse in the far field. Taking the total impulse due to the blast wave and material impact into account implies that the damage to a nearby structure may actually be augmented for a range of distances. These results should be taken into consideration in the design of explosive mitigant systems.

  15. Comparative analysis of the genomes of two field isolates of the rice blast fungus Magnaporthe oryzae.

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    Minfeng Xue

    Full Text Available Rice blast caused by Magnaporthe oryzae is one of the most destructive diseases of rice worldwide. The fungal pathogen is notorious for its ability to overcome host resistance. To better understand its genetic variation in nature, we sequenced the genomes of two field isolates, Y34 and P131. In comparison with the previously sequenced laboratory strain 70-15, both field isolates had a similar genome size but slightly more genes. Sequences from the field isolates were used to improve genome assembly and gene prediction of 70-15. Although the overall genome structure is similar, a number of gene families that are likely involved in plant-fungal interactions are expanded in the field isolates. Genome-wide analysis on asynonymous to synonymous nucleotide substitution rates revealed that many infection-related genes underwent diversifying selection. The field isolates also have hundreds of isolate-specific genes and a number of isolate-specific gene duplication events. Functional characterization of randomly selected isolate-specific genes revealed that they play diverse roles, some of which affect virulence. Furthermore, each genome contains thousands of loci of transposon-like elements, but less than 30% of them are conserved among different isolates, suggesting active transposition events in M. oryzae. A total of approximately 200 genes were disrupted in these three strains by transposable elements. Interestingly, transposon-like elements tend to be associated with isolate-specific or duplicated sequences. Overall, our results indicate that gain or loss of unique genes, DNA duplication, gene family expansion, and frequent translocation of transposon-like elements are important factors in genome variation of the rice blast fungus.

  16. Experimental investigation of blast mitigation and particle-blast interaction during the explosive dispersal of particles and liquids

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    Pontalier, Q.; Loiseau, J.; Goroshin, S.; Frost, D. L.

    2018-04-01

    The attenuation of a blast wave from a high-explosive charge surrounded by a layer of inert material is investigated experimentally in a spherical geometry for a wide range of materials. The blast wave pressure is inferred from extracting the blast wave velocity with high-speed video as well as direct measurements with pressure transducers. The mitigant consists of either a packed bed of particles, a particle bed saturated with water, or a homogeneous liquid. The reduction in peak blast wave overpressure is primarily dependent on the mitigant to explosive mass ratio, M/C, with the mitigant material properties playing a secondary role. Relative peak pressure mitigation reduces with distance and for low values of M/C (pressure levels in the mid-to-far field. Solid particles are more effective at mitigating the blast overpressure than liquids, particularly in the near field and at low values of M/C, suggesting that the energy dissipation during compaction, deformation, and fracture of the powders plays an important role. The difference in scaled arrival time of the blast and material fronts increases with M/C and scaled distance, with solid particles giving the largest separation between the blast wave and cloud of particles. Surrounding a high-explosive charge with a layer of particles reduces the positive-phase blast impulse, whereas a liquid layer has no influence on the impulse in the far field. Taking the total impulse due to the blast wave and material impact into account implies that the damage to a nearby structure may actually be augmented for a range of distances. These results should be taken into consideration in the design of explosive mitigant systems.

  17. Approximating the edit distance for genomes with duplicate genes under DCJ, insertion and deletion

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    Shao Mingfu

    2012-12-01

    Full Text Available Abstract Computing the edit distance between two genomes under certain operations is a basic problem in the study of genome evolution. The double-cut-and-join (DCJ model has formed the basis for most algorithmic research on rearrangements over the last few years. The edit distance under the DCJ model can be easily computed for genomes without duplicate genes. In this paper, we study the edit distance for genomes with duplicate genes under a model that includes DCJ operations, insertions and deletions. We prove that computing the edit distance is equivalent to finding the optimal cycle decomposition of the corresponding adjacency graph, and give an approximation algorithm with an approximation ratio of 1.5 + ∈.

  18. Lateral blasts at Mount St. Helens and hazard zonation

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    Crandell, D.R.; Hoblitt, R.P.

    1986-01-01

    Lateral blasts at andesitic and dacitic volcanoes can produce a variety of direct hazards, including ballistic projectiles which can be thrown to distances of at least 10 km and pyroclastic density flows which can travel at high speed to distances of more than 30 km. Indirect effect that may accompany such explosions include wind-borne ash, pyroclastic flows formed by the remobilization of rock debris thrown onto sloping ground, and lahars. Two lateral blasts occurred at a lava dome on the north flank of Mount St. Helens about 1200 years ago; the more energetic of these threw rock debris northeastward across a sector of about 30?? to a distance of at least 10 km. The ballistic debris fell onto an area estimated to be 50 km2, and wind-transported ash and lapilli derived from the lateral-blast cloud fell on an additional lobate area of at least 200 km2. In contrast, the vastly larger lateral blast of May 18, 1980, created a devastating pyroclastic density flow that covered a sector of as much as 180??, reached a maximum distance of 28 km, and within a few minutes directly affected an area of about 550 km2. The May 18 lateral blast resulted from the sudden, landslide-induced depressurization of a dacite cryptodome and the hydrothermal system that surrounded it within the volcano. We propose that lateral-blast hazard assessments for lava domes include an adjoining hazard zone with a radius of at least 10 km. Although a lateral blast can occur on any side of a dome, the sector directly affected by any one blast probably will be less than 180??. Nevertheless, a circular hazard zone centered on the dome is suggested because of the difficulty of predicting the direction of a lateral blast. For the purpose of long-term land-use planning, a hazard assessment for lateral blasts caused by explosions of magma bodies or pressurized hydrothermal systems within a symmetrical volcano could designate a circular potential hazard area with a radius of 35 km centered on the volcano

  19. PaperBLAST: Text Mining Papers for Information about Homologs.

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    Price, Morgan N; Arkin, Adam P

    2017-01-01

    Large-scale genome sequencing has identified millions of protein-coding genes whose function is unknown. Many of these proteins are similar to characterized proteins from other organisms, but much of this information is missing from annotation databases and is hidden in the scientific literature. To make this information accessible, PaperBLAST uses EuropePMC to search the full text of scientific articles for references to genes. PaperBLAST also takes advantage of curated resources (Swiss-Prot, GeneRIF, and EcoCyc) that link protein sequences to scientific articles. PaperBLAST's database includes over 700,000 scientific articles that mention over 400,000 different proteins. Given a protein of interest, PaperBLAST quickly finds similar proteins that are discussed in the literature and presents snippets of text from relevant articles or from the curators. PaperBLAST is available at http://papers.genomics.lbl.gov/. IMPORTANCE With the recent explosion of genome sequencing data, there are now millions of uncharacterized proteins. If a scientist becomes interested in one of these proteins, it can be very difficult to find information as to its likely function. Often a protein whose sequence is similar, and which is likely to have a similar function, has been studied already, but this information is not available in any database. To help find articles about similar proteins, PaperBLAST searches the full text of scientific articles for protein identifiers or gene identifiers, and it links these articles to protein sequences. Then, given a protein of interest, it can quickly find similar proteins in its database by using standard software (BLAST), and it can show snippets of text from relevant papers. We hope that PaperBLAST will make it easier for biologists to predict proteins' functions.

  20. Genomic signal processing methods for computation of alignment-free distances from DNA sequences.

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    Borrayo, Ernesto; Mendizabal-Ruiz, E Gerardo; Vélez-Pérez, Hugo; Romo-Vázquez, Rebeca; Mendizabal, Adriana P; Morales, J Alejandro

    2014-01-01

    Genomic signal processing (GSP) refers to the use of digital signal processing (DSP) tools for analyzing genomic data such as DNA sequences. A possible application of GSP that has not been fully explored is the computation of the distance between a pair of sequences. In this work we present GAFD, a novel GSP alignment-free distance computation method. We introduce a DNA sequence-to-signal mapping function based on the employment of doublet values, which increases the number of possible amplitude values for the generated signal. Additionally, we explore the use of three DSP distance metrics as descriptors for categorizing DNA signal fragments. Our results indicate the feasibility of employing GAFD for computing sequence distances and the use of descriptors for characterizing DNA fragments.

  1. DendroBLAST: approximate phylogenetic trees in the absence of multiple sequence alignments.

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    Kelly, Steven; Maini, Philip K

    2013-01-01

    The rapidly growing availability of genome information has created considerable demand for both fast and accurate phylogenetic inference algorithms. We present a novel method called DendroBLAST for reconstructing phylogenetic dendrograms/trees from protein sequences using BLAST. This method differs from other methods by incorporating a simple model of sequence evolution to test the effect of introducing sequence changes on the reliability of the bipartitions in the inferred tree. Using realistic simulated sequence data we demonstrate that this method produces phylogenetic trees that are more accurate than other commonly-used distance based methods though not as accurate as maximum likelihood methods from good quality multiple sequence alignments. In addition to tests on simulated data, we use DendroBLAST to generate input trees for a supertree reconstruction of the phylogeny of the Archaea. This independent analysis produces an approximate phylogeny of the Archaea that has both high precision and recall when compared to previously published analysis of the same dataset using conventional methods. Taken together these results demonstrate that approximate phylogenetic trees can be produced in the absence of multiple sequence alignments, and we propose that these trees will provide a platform for improving and informing downstream bioinformatic analysis. A web implementation of the DendroBLAST method is freely available for use at http://www.dendroblast.com/.

  2. DendroBLAST: approximate phylogenetic trees in the absence of multiple sequence alignments.

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    Steven Kelly

    Full Text Available The rapidly growing availability of genome information has created considerable demand for both fast and accurate phylogenetic inference algorithms. We present a novel method called DendroBLAST for reconstructing phylogenetic dendrograms/trees from protein sequences using BLAST. This method differs from other methods by incorporating a simple model of sequence evolution to test the effect of introducing sequence changes on the reliability of the bipartitions in the inferred tree. Using realistic simulated sequence data we demonstrate that this method produces phylogenetic trees that are more accurate than other commonly-used distance based methods though not as accurate as maximum likelihood methods from good quality multiple sequence alignments. In addition to tests on simulated data, we use DendroBLAST to generate input trees for a supertree reconstruction of the phylogeny of the Archaea. This independent analysis produces an approximate phylogeny of the Archaea that has both high precision and recall when compared to previously published analysis of the same dataset using conventional methods. Taken together these results demonstrate that approximate phylogenetic trees can be produced in the absence of multiple sequence alignments, and we propose that these trees will provide a platform for improving and informing downstream bioinformatic analysis. A web implementation of the DendroBLAST method is freely available for use at http://www.dendroblast.com/.

  3. Analysis of the Blasting Effect on the Environment around Blasting Areas at Pt. Semen Baturaja Persero, Tbk.

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    Jihan Farhan Lubis

    2017-11-01

    Full Text Available • Semen Baturaja Persero, Tbk is one of the companies engaged in the production of cement that takes raw materials through limestone mining process located in Baturaja City, OKU Regency, South Sumatera Province. Limestone mining activities use blasting activity that produces blasting effects and flyrock. Measurements of vibration and flyrock frequencies obtained a maximum value for vibration of 4.66 mm/s and predicted farthest distance of flyrock above 170 m when powder factor exceeds 0.1 kg/m3. The results of the data show that the level of emission has exceeded the standard limits for second class buildings (3 mm/s based on (SNI 7571: 2010. Blasting just 175-300 m from the nearest settlement and already exceed the save distance for equipment 300m and 500m for human activity based on USBM (United States Bureau of Mines. To reduce the vibration level, the maximum number of mass per delay is 43 kg/delay with PPV parameter 3 mm/s at 170m distance. Actual factor powder should not exceed 0.1 kg / m3 to minimize flyovers in safe zones not exceeding 150 m.

  4. blastjs: a BLAST+ wrapper for Node.js.

    Science.gov (United States)

    Page, Martin; MacLean, Dan; Schudoma, Christian

    2016-02-27

    To cope with the ever-increasing amount of sequence data generated in the field of genomics, the demand for efficient and fast database searches that drive functional and structural annotation in both large- and small-scale genome projects is on the rise. The tools of the BLAST+ suite are the most widely employed bioinformatic method for these database searches. Recent trends in bioinformatics application development show an increasing number of JavaScript apps that are based on modern frameworks such as Node.js. Until now, there is no way of using database searches with the BLAST+ suite from a Node.js codebase. We developed blastjs, a Node.js library that wraps the search tools of the BLAST+ suite and thus allows to easily add significant functionality to any Node.js-based application. blastjs is a library that allows the incorporation of BLAST+ functionality into bioinformatics applications based on JavaScript and Node.js. The library was designed to be as user-friendly as possible and therefore requires only a minimal amount of code in the client application. The library is freely available under the MIT license at https://github.com/teammaclean/blastjs.

  5. Quality of computerized blast load simulation for non-linear dynamic ...

    African Journals Online (AJOL)

    Quality of computerized blast load simulation for non-linear dynamic response ... commercial software system and a special-purpose, blast-specific software product to ... depend both on the analysis model of choice and the stand-off distances.

  6. Structural Response to Blast Loading: The Effects of Corrosion on Reinforced Concrete Structures

    Directory of Open Access Journals (Sweden)

    Hakan Yalciner

    2014-01-01

    Full Text Available Structural blast design has become a necessary part of the design with increasing terrorist attacks. Terrorist attacks are not the one to make the structures important against blast loading where other explosions such as high gas explosions also take an important place in structural safety. The main objective of this study was to verify the structural performance levels under the impact of different blast loading scenarios. The blast loads were represented by using triangular pulse for single degree of freedom system. The effect of blast load on both corroded and uncorroded reinforced concrete buildings was examined for different explosion distances. Modified plastic hinge properties were used to ensure the effects of corrosion. The results indicated that explosion distance and concrete strength were key parameters to define the performance of the structures against blast loading.

  7. Nineteen-Foot Diameter Explosively Driven Blast Simulator; TOPICAL

    International Nuclear Information System (INIS)

    VIGIL, MANUEL G.

    2001-01-01

    This report describes the 19-foot diameter blast tunnel at Sandia National Laboratories. The blast tunnel configuration consists of a 6 foot diameter by 200 foot long shock tube, a 6 foot diameter to 19 foot diameter conical expansion section that is 40 feet long, and a 19 foot diameter test section that is 65 feet long. Therefore, the total blast tunnel length is 305 feet. The development of this 19-foot diameter blast tunnel is presented. The small scale research test results using 4 inch by 8 inch diameter and 2 foot by 6 foot diameter shock tube facilities are included. Analytically predicted parameters are compared to experimentally measured blast tunnel parameters in this report. The blast tunnel parameters include distance, time, static, overpressure, stagnation pressure, dynamic pressure, reflected pressure, shock Mach number, flow Mach number, shock velocity, flow velocity, impulse, flow duration, etc. Shadowgraphs of the shock wave are included for the three different size blast tunnels

  8. Human Injury Criteria for Underwater Blasts.

    Directory of Open Access Journals (Sweden)

    Rachel M Lance

    Full Text Available Underwater blasts propagate further and injure more readily than equivalent air blasts. Development of effective personal protection and countermeasures, however, requires knowledge of the currently unknown human tolerance to underwater blast. Current guidelines for prevention of underwater blast injury are not based on any organized injury risk assessment, human data or experimental data. The goal of this study was to derive injury risk assessments for underwater blast using well-characterized human underwater blast exposures in the open literature. The human injury dataset was compiled using 34 case reports on underwater blast exposure to 475 personnel, dating as early as 1916. Using severity ratings, computational reconstructions of the blasts, and survival information from a final set of 262 human exposures, injury risk models were developed for both injury severity and risk of fatality as functions of blast impulse and blast peak overpressure. Based on these human data, we found that the 50% risk of fatality from underwater blast occurred at 302±16 kPa-ms impulse. Conservatively, there is a 20% risk of pulmonary injury at a kilometer from a 20 kg charge. From a clinical point of view, this new injury risk model emphasizes the large distances possible for potential pulmonary and gut injuries in water compared with air. This risk value is the first impulse-based fatality risk calculated from human data. The large-scale inconsistency between the blast exposures in the case reports and the guidelines available in the literature prior to this study further underscored the need for this new guideline derived from the unique dataset of actual injuries in this study.

  9. Model for small arms fire muzzle blast wave propagation in air

    Science.gov (United States)

    Aguilar, Juan R.; Desai, Sachi V.

    2011-11-01

    Accurate modeling of small firearms muzzle blast wave propagation in the far field is critical to predict sound pressure levels, impulse durations and rise times, as functions of propagation distance. Such a task being relevant to a number of military applications including the determination of human response to blast noise, gunfire detection and localization, and gun suppressor design. Herein, a time domain model to predict small arms fire muzzle blast wave propagation is introduced. The model implements a Friedlander wave with finite rise time which diverges spherically from the gun muzzle. Additionally, the effects in blast wave form of thermoviscous and molecular relaxational processes, which are associated with atmospheric absorption of sound were also incorporated in the model. Atmospheric absorption of blast waves is implemented using a time domain recursive formula obtained from numerical integration of corresponding differential equations using a Crank-Nicholson finite difference scheme. Theoretical predictions from our model were compared to previously recorded real world data of muzzle blast wave signatures obtained by shooting a set different sniper weapons of varying calibers. Recordings containing gunfire acoustical signatures were taken at distances between 100 and 600 meters from the gun muzzle. Results shows that predicted blast wave slope and exponential decay agrees well with measured data. Analysis also reveals the persistency of an oscillatory phenomenon after blast overpressure in the recorded wave forms.

  10. Study of the action of blast deck charge in rocky soils

    Directory of Open Access Journals (Sweden)

    Boiko V.V.

    2017-04-01

    Full Text Available Blasting (B in the industry, including the mining extraction of minerals, are carried out mostly with the use of blasthole charges that systematically distributed on the block that is undermined, by individual groups. The latter are blasted according to the scheme of short-delay firing (SDF through the intervals that are accepted not less than 20 Ms. Thus, the seismic effect of group charge explosion, consisting of individual blasthole charges and that actually is a group located charge determined by the formula of concentrated charge. Blast deck charges are effectively used in the driving of the trenches in the mining, formation of screens and cracks near the security objects. Only this method of performing blasting allows to define seismic effect in the transition from one diameter of a charge to another, as well as to determine the actual number of detonated charges in one group, which may differ from the calculated in drilling and blasting project. The work analyzes the physical essence of processes happened while blasting of blast deck charges. The effect of the orientation of the seismic action of blasting of blast deck charges towards the allocation line of charges is investigated. The results of generalized dependence of the speed of the displacement of the ground by the blast parameters and epicentral distance are obtained. We demonstrate with specific examples that blast deck charges that blasting simultaneously make a major chain of the career massive explosions at mining. Keywords: seismic fluctuations; the number of charges; the interaction of charges; the distance between the charges; the coefficients of the seismicity and the attenuation of the intensity of the waves; the unit charge; blast deck and blasthole charges; phase shifting; effective charge.

  11. Genomic diversity within the haloalkaliphilic genus Thioalkalivibrio.

    Science.gov (United States)

    Ahn, Anne-Catherine; Meier-Kolthoff, Jan P; Overmars, Lex; Richter, Michael; Woyke, Tanja; Sorokin, Dimitry Y; Muyzer, Gerard

    2017-01-01

    Thioalkalivibrio is a genus of obligate chemolithoautotrophic haloalkaliphilic sulfur-oxidizing bacteria. Their habitat are soda lakes which are dual extreme environments with a pH range from 9.5 to 11 and salt concentrations up to saturation. More than 100 strains of this genus have been isolated from various soda lakes all over the world, but only ten species have been effectively described yet. Therefore, the assignment of the remaining strains to either existing or novel species is important and will further elucidate their genomic diversity as well as give a better general understanding of this genus. Recently, the genomes of 76 Thioalkalivibrio strains were sequenced. On these, we applied different methods including (i) 16S rRNA gene sequence analysis, (ii) Multilocus Sequence Analysis (MLSA) based on eight housekeeping genes, (iii) Average Nucleotide Identity based on BLAST (ANIb) and MUMmer (ANIm), (iv) Tetranucleotide frequency correlation coefficients (TETRA), (v) digital DNA:DNA hybridization (dDDH) as well as (vi) nucleotide- and amino acid-based Genome BLAST Distance Phylogeny (GBDP) analyses. We detected a high genomic diversity by revealing 15 new "genomic" species and 16 new "genomic" subspecies in addition to the ten already described species. Phylogenetic and phylogenomic analyses showed that the genus is not monophyletic, because four strains were clearly separated from the other Thioalkalivibrio by type strains from other genera. Therefore, it is recommended to classify the latter group as a novel genus. The biogeographic distribution of Thioalkalivibrio suggested that the different "genomic" species can be classified as candidate disjunct or candidate endemic species. This study is a detailed genome-based classification and identification of members within the genus Thioalkalivibrio. However, future phenotypical and chemotaxonomical studies will be needed for a full species description of this genus.

  12. Blast effects physical properties of shock waves

    CERN Document Server

    2018-01-01

    This book compiles a variety of experimental data on blast waves. The book begins with an introductory chapter and proceeds to the topic of blast wave phenomenology, with a discussion Rankine-Hugoniot equations and the Friedlander equation, used to describe the pressure-time history of a blast wave. Additional topics include arrival time measurement, the initiation of detonation by exploding wires, a discussion of TNT equivalency, and small scale experiments. Gaseous and high explosive detonations are covered as well. The topics and experiments covered were chosen based on the comparison of used scale sizes, from small to large. Each characteristic parameter of blast waves is analyzed and expressed versus scaled distance in terms of energy and mass. Finally, the appendix compiles a number of polynomial laws that will prove indispensable for engineers and researchers.

  13. Visualisation of a mathematical model of blast furnace operation for distance learning purposes

    Directory of Open Access Journals (Sweden)

    Babich, A.

    2005-12-01

    Full Text Available Advanced educational technologies like Virtual Laboratories are being developed and launched in order to equip customers from higher education institutions, research and industry with efficient tools, supporting their work and operating new skills-training methods. Visual Model "Blast Furnace" based on a mathematical balance model of the blast furnace process has been developed for distance learning (DL purposes. It processes entered parameters and outputs both operating and learning results. The model simulates also sinter and pellets manufacture as well as operation of hot stove. The teacher and learners can interact with each other using software interface which allows to monitor the activity of the learners, answer their questions, and analyse the learning results. The model is an ingredient of the "Virtual Lab Ironmaking".

    Se desarrollan y presentan tecnologías avanzadas de educación, como los Laboratorios Virtuales, para suministrar a los clientes de las instituciones de educación superior, investigación e industria, en apoyo de su trabajo, nuevos y eficientes métodos de operación y técnicas especiales de adiestramiento. Se ha desarrollado el Modelo Visual de "Horno Alto" basado en un modelo matemático del balance del proceso del horno alto, para fines de educación a distancia. Procesa los parámetros de entrada y salida en operación y los resultados de la enseñanza. El modelo también simula la fabricación de sinter y pelets, además de la operación de las estufas. El profesor y alumnos pueden interactuar entre sí usando un software que permite seguir la marcha de la actividad de los alumnos, responder a sus preguntas y analizar los resultados del aprendizaje. El modelo es parte del "Laboratorio Virtual de Fabricación de Arrabio".

  14. Current Status of Conventional and Molecular Interventions for Blast Resistance in Rice

    Directory of Open Access Journals (Sweden)

    Deepti Srivastava

    2017-11-01

    Full Text Available Pyricularia oryzae anamorph of Magnaporthe oryzae is one of the most notorious fungal pathogens causing severe economic loss in rice production worldwide. Various methods, viz. cultural, biological and molecular approaches, are utilized to counteract this pathogen. Moreover, some tolerant or resistant rice varieties have been developed with the help of breeding programmes. Isolation and molecular characterization of different blast resistance genes now open the gate for new possibilities to elucidate the actual allelic variants of these genes via various molecular breeding and transgenic approaches. However, the behavioral pattern of this fungus breakups the resistance barriers in the resistant or tolerant rice varieties. This host-pathogen barrier will be possibly countered in future research by comparative genomics data from available genome sequence data of rice and M. oryzae for durable resistance. Present review emphasized fascinating recent updates, new molecular breeding approaches, transgenic and genomics approaches (i.e. miRNA and genome editing for the management of blast disease in rice. The updated information will be helpful for the durable, resistance breeding programme in rice against blast pathogen.

  15. Modelling human eye under blast loading.

    Science.gov (United States)

    Esposito, L; Clemente, C; Bonora, N; Rossi, T

    2015-01-01

    Primary blast injury (PBI) is the general term that refers to injuries resulting from the mere interaction of a blast wave with the body. Although few instances of primary ocular blast injury, without a concomitant secondary blast injury from debris, are documented, some experimental studies demonstrate its occurrence. In order to investigate PBI to the eye, a finite element model of the human eye using simple constitutive models was developed. The material parameters were calibrated by a multi-objective optimisation performed on available eye impact test data. The behaviour of the human eye and the dynamics of mechanisms occurring under PBI loading conditions were modelled. For the generation of the blast waves, different combinations of explosive (trinitrotoluene) mass charge and distance from the eye were analysed. An interpretation of the resulting pressure, based on the propagation and reflection of the waves inside the eye bulb and orbit, is proposed. The peculiar geometry of the bony orbit (similar to a frustum cone) can induce a resonance cavity effect and generate a pressure standing wave potentially hurtful for eye tissues.

  16. Blast characteristics of firework mixture, 'Raiyaku'. Raiyaku no bakufuatsu

    Energy Technology Data Exchange (ETDEWEB)

    Iida, M.; Nakayama, Y.; Matsunaga, T.; Tanaka, K.; Yoshida, M.; Kakudate, Y.; Usuba, S.; Fujiwara, S. (National Chemical Lab. for Industry, Tsukuba (Japan))

    1991-10-31

    Raiyaku, as a type of raw material for explosive, are very dangerous , has high explosive power but there are difficulties in dretermining blast characteristics in terms of TNT equivalence. This study was made using raiyaku, firework mixture of 70 wt % potassium perchlorate, 15 wt % aluminium powder and 15 wt % titanium Powder. Blast characteristics of the raiyaku were studied exploding 1 Kg of the mixture in the sky and 30 Kg and 50 Kg in the surface at range in scaled distance from 1 to 15 m/kg{sup (1/3)} using piezoelectric gauges and lead-Plate blastmeters. As blast characteristics, equivalence was determined on the basis of measured Peak overpressures. Scaled distances when ploted against TNT equivalence, it has been cleared that TNT equivalence was 52.2 % on average with standard error of 8.4 %. Further it was clear that with the increase of equivalent distance TNT equivalence has increased from about 40 % to 60 %. 10 refs., 4 figs., 3 tabs.

  17. Finite Element Simulation of Medium-Range Blast Loading Using LS-DYNA

    Directory of Open Access Journals (Sweden)

    Yuzhen Han

    2015-01-01

    Full Text Available This study investigated the Finite Element simulation of blast loading using LS-DYNA. The objective is to identify approaches to reduce the requirement of computation effort while maintaining reasonable accuracy, focusing on blast loading scheme, element size, and its relationship with scale of explosion. The study made use of the recently developed blast loading scheme in LS-DYNA, which removes the necessity to model the explosive in the numerical models but still maintains the advantages of nonlinear fluid-structure interaction. It was found that the blast loading technique could significantly reduce the computation effort. It was also found that the initial density of air in the numerical model could be purposely increased to partially compensate the error induced by the use of relatively large air elements. Using the numerical approach, free air blast above a scaled distance of 0.4 m/kg1/3 was properly simulated, and the fluid-structure interaction at the same location could be properly duplicated using proper Arbitrary Lagrangian Eulerian (ALE coupling scheme. The study also showed that centrifuge technique, which has been successfully employed in model tests to investigate the blast effects, may be used when simulating the effect of medium- to large-scale explosion at small scaled distance.

  18. A Comparative Study of Ground and Underground Vibrations Induced by Bench Blasting

    Directory of Open Access Journals (Sweden)

    Xiuzhi Shi

    2016-01-01

    Full Text Available Ground vibrations originating from bench blasting may cause damage to slopes, structures, and underground workings in close proximity to an operating open-pit mine. It is important to monitor and predict ground vibration levels induced by blasting and to take measures to reduce their hazardous effects. The aims of this paper are to determine the weaker protection objects by comparatively studying bench blasting induced vibrations obtained at surface and in an underground tunnel in an open-pit mine and thus to seek vibration control methods to protect engineering objects at the site. Vibrations arising from measurement devices at surface and in an underground tunnel at the Zijinshan Open-Pit Mine were obtained. Comparative analysis of the peak particle velocities shows that, in the greatest majority of cases, surface values are higher than underground values for the same vibration distance. The transmission laws of surface and underground vibrations were established depending on the type of rock mass, the explosive charge, and the distance. Compared with the Chinese Safety Regulations for Blasting (GB6722-2014, the bench blasting induced vibrations would not currently cause damage to the underground tunnel. According to the maximum allowable peak particle velocities for different objects, the permitted maximum charges per delay are obtained to reduce damage to these objects at different distances.

  19. Blast overpressure after tire explosion: a fatal case.

    Science.gov (United States)

    Pomara, Cristoforo; D'Errico, Stefano; Riezzo, Irene; Perilli, Gabriela; Volpe, Umberto; Fineschi, Vittorio

    2013-12-01

    Fatal blast injuries are generally reported in literature as a consequence of the detonation of explosives in war settings. The pattern of lesion depends on the position of the victim in relation to the explosion, on whether the blast tracks through air or water, and whether it happens in the open air or within an enclosed space and the distance from the explosion. Tire explosion-related injuries are rarely reported in literature. This study presents a fatal case of blast overpressure due to the accidental explosion of a truck tire occurring in a tire repair shop. A multidisciplinary approach to the fatality involving forensic pathologists and engineers revealed that the accidental explosion, which caused a series of primary and tertiary blast wave injuries, was due to tire deterioration.

  20. WImpiBLAST: web interface for mpiBLAST to help biologists perform large-scale annotation using high performance computing.

    Directory of Open Access Journals (Sweden)

    Parichit Sharma

    Full Text Available The function of a newly sequenced gene can be discovered by determining its sequence homology with known proteins. BLAST is the most extensively used sequence analysis program for sequence similarity search in large databases of sequences. With the advent of next generation sequencing technologies it has now become possible to study genes and their expression at a genome-wide scale through RNA-seq and metagenome sequencing experiments. Functional annotation of all the genes is done by sequence similarity search against multiple protein databases. This annotation task is computationally very intensive and can take days to obtain complete results. The program mpiBLAST, an open-source parallelization of BLAST that achieves superlinear speedup, can be used to accelerate large-scale annotation by using supercomputers and high performance computing (HPC clusters. Although many parallel bioinformatics applications using the Message Passing Interface (MPI are available in the public domain, researchers are reluctant to use them due to lack of expertise in the Linux command line and relevant programming experience. With these limitations, it becomes difficult for biologists to use mpiBLAST for accelerating annotation. No web interface is available in the open-source domain for mpiBLAST. We have developed WImpiBLAST, a user-friendly open-source web interface for parallel BLAST searches. It is implemented in Struts 1.3 using a Java backbone and runs atop the open-source Apache Tomcat Server. WImpiBLAST supports script creation and job submission features and also provides a robust job management interface for system administrators. It combines script creation and modification features with job monitoring and management through the Torque resource manager on a Linux-based HPC cluster. Use case information highlights the acceleration of annotation analysis achieved by using WImpiBLAST. Here, we describe the WImpiBLAST web interface features and architecture

  1. WImpiBLAST: web interface for mpiBLAST to help biologists perform large-scale annotation using high performance computing.

    Science.gov (United States)

    Sharma, Parichit; Mantri, Shrikant S

    2014-01-01

    The function of a newly sequenced gene can be discovered by determining its sequence homology with known proteins. BLAST is the most extensively used sequence analysis program for sequence similarity search in large databases of sequences. With the advent of next generation sequencing technologies it has now become possible to study genes and their expression at a genome-wide scale through RNA-seq and metagenome sequencing experiments. Functional annotation of all the genes is done by sequence similarity search against multiple protein databases. This annotation task is computationally very intensive and can take days to obtain complete results. The program mpiBLAST, an open-source parallelization of BLAST that achieves superlinear speedup, can be used to accelerate large-scale annotation by using supercomputers and high performance computing (HPC) clusters. Although many parallel bioinformatics applications using the Message Passing Interface (MPI) are available in the public domain, researchers are reluctant to use them due to lack of expertise in the Linux command line and relevant programming experience. With these limitations, it becomes difficult for biologists to use mpiBLAST for accelerating annotation. No web interface is available in the open-source domain for mpiBLAST. We have developed WImpiBLAST, a user-friendly open-source web interface for parallel BLAST searches. It is implemented in Struts 1.3 using a Java backbone and runs atop the open-source Apache Tomcat Server. WImpiBLAST supports script creation and job submission features and also provides a robust job management interface for system administrators. It combines script creation and modification features with job monitoring and management through the Torque resource manager on a Linux-based HPC cluster. Use case information highlights the acceleration of annotation analysis achieved by using WImpiBLAST. Here, we describe the WImpiBLAST web interface features and architecture, explain design

  2. Fragmentation, Cost and Environmental Effects of Plaster Stemming Method for Blasting at A Basalt Quarry

    Science.gov (United States)

    Cevizci, Halim

    2014-10-01

    In this study, the plaster stemming application for blasting at a basalt quarry is studied. Drill cuttings are generally used in open pits and quarries as the most common stemming material since these are most readily available at blast sites. However, dry drill cuttings eject very easily from blastholes without offering much resistance to blast energy. The plaster stemming method has been found to be better than the drill cuttings stemming method due to increased confinement inside the hole and better utilization of blast explosive energy in the rock. The main advantage of the new stemming method is the reduction in the cost of blasting. At a basalt quarry, blasting costs per unit volume of rock were reduced to 15% by increasing burden and spacing distances. In addition, better fragmentation was obtained by using the plaster stemming method. Blast trials showed that plaster stemming produced finer material. In the same blast tests, +30 cm size fragments were reduced to 47.3% of the total, compared to 32.6% in the conventional method of drill cuttings stemming. With this method of stemming, vibration and air shock values increased slightly due to more blast energy being available for rock breakage but generally these increased values were small and stayed under the permitted limit for blast damage criteria unless measuring distance is too close.

  3. PaperBLAST: Text Mining Papers for Information about Homologs

    International Nuclear Information System (INIS)

    Price, Morgan N.; Arkin, Adam P.

    2017-01-01

    Large-scale genome sequencing has identified millions of protein-coding genes whose function is unknown. Many of these proteins are similar to characterized proteins from other organisms, but much of this information is missing from annotation databases and is hidden in the scientific literature. To make this information accessible, PaperBLAST uses EuropePMC to search the full text of scientific articles for references to genes. PaperBLAST also takes advantage of curated resources (Swiss-Prot, GeneRIF, and EcoCyc) that link protein sequences to scientific articles. PaperBLAST’s database includes over 700,000 scientific articles that mention over 400,000 different proteins. Given a protein of interest, PaperBLAST quickly finds similar proteins that are discussed in the literature and presents snippets of text from relevant articles or from the curators. With the recent explosion of genome sequencing data, there are now millions of uncharacterized proteins. If a scientist becomes interested in one of these proteins, it can be very difficult to find information as to its likely function. Often a protein whose sequence is similar, and which is likely to have a similar function, has been studied already, but this information is not available in any database. To help find articles about similar proteins, PaperBLAST searches the full text of scientific articles for protein identifiers or gene identifiers, and it links these articles to protein sequences. Then, given a protein of interest, it can quickly find similar proteins in its database by using standard software (BLAST), and it can show snippets of text from relevant papers. We hope that PaperBLAST will make it easier for biologists to predict proteins’ functions.

  4. Impact of Drill and Blast Excavation on Repository Performance Confirmation

    International Nuclear Information System (INIS)

    Keller, R.; Francis, N.; Houseworth, J.; Kramer, N.

    2000-01-01

    parameters, encompassing all the rock types that will be encountered for the proposed repository site at Yucca Mountain. This paper suggests that, based on predicted and verified vibration levels from blasting a distance equal to four standard deviations is unlikely to affect properties that govern water flow in the host rock. The authors propose this predicted distance and verification of vibration levels may be applied to the excavation of repository subsurface openings that may be most efficiently excavated by drill and blast methods with a reasonable assurance of safety

  5. Study on Collapse Mechanism of Steel Frame Structure under High Temperature and Blast Loading

    Science.gov (United States)

    Baoxin, Qi; Yan, Shi; Bi, Jialiang

    2018-03-01

    Numerical simulation analysis for collapsing process and mechanism of steel frame structures under the combined effects of fire and explosion is performed in this paper. First of all, a new steel constitutive model considering fire (high temperature softening effect) and blast (strain rate effect) is established. On the basis of the traditional Johnson-Cook model and the Perzyna model, the relationship between strain and scaled distance as well as the EOUROCODE3 standard heating curve taking into account the temperature effect parameters is introduced, and a modified Johnson-Cook constitutive model is established. Then, the influence of considering the scaled distance is introduced in order to more effectively describe the destruction and collapse phenomena of steel frame structures. Some conclusions are obtained based on the numerical analysis that the destruction will be serious and even progressively collapse with decreasing of the temperature of the steel column for the same scaled distance under the combined effects of fire and blast; the damage will be serious with decreasing of the scaled distance of the steel column under the same temperature under the combined effects of fire and blast; in the case of the combined effects of fire and blast happening in the side-spans, the partial progressive collapse occurs as the scaled distance is less than or equal to 1.28; six kinds of damages which are no damage, minor damage, moderate damage, severe damage, critical collapse, and progressive collapse.

  6. Analysis and Comparison of Information Theory-based Distances for Genomic Strings

    Science.gov (United States)

    Balzano, Walter; Cicalese, Ferdinando; Del Sorbo, Maria Rosaria; Vaccaro, Ugo

    2008-07-01

    Genomic string comparison via alignment are widely applied for mining and retrieval of information in biological databases. In some situation, the effectiveness of such alignment based comparison is still unclear, e.g., for sequences with non-uniform length and with significant shuffling of identical substrings. An alternative approach is the one based on information theory distances. Biological data information content is stored in very long strings of only four characters. In last ten years, several entropic measures have been proposed for genomic string analysis. Notwithstanding their individual merit and experimental validation, to the nest of our knowledge, there is no direct comparison of these different metrics. We shall present four of the most representative alignment-free distance measures, based on mutual information. Each one has a different origin and expression. Our comparison involves a sort of arrangement, to reduce different concepts to a unique formalism, so as it has been possible to construct a phylogenetic tree for each of them. The trees produced via these metrics are compared to the ones widely accepted as biologically validated. In general the results provided more evidence of the reliability of the alignment-free distance models. Also, we observe that one of the metrics appeared to be more robust than the other three. We believe that this result can be object of further researches and observations. Many of the results of experimentation, the graphics and the table are available at the following URL: http://people.na.infn.it/˜wbalzano/BIO

  7. Blast resistance of space-induced variants derived from rice cultivar Hanghui 7

    International Nuclear Information System (INIS)

    Zhang Jingxin; Yang Qiyun; Zhu Xiaoyuan; Wang Hui; Zeng Liexian; Liu Yongzhu; Guo Tao; Chen Zhiqiang

    2010-01-01

    To screen the resistance lines to rice blast, the blast resistance of SP 3 and SP 4 progenies derived from rice variety Hanghui 7 were evaluated after satellite flight, and the genomic DNA polymorphism of the resistant variants selected from SP 3 was compared with the wild type by microsatellite markers. The results indicated that the SP 3 Variant line H24, which was selected from the 250 space-induced lines ( SP 3 ) with excellent agronomic and economical characters, showed resistance segregation (119R : 108S) against blast isolate GD3286. It was demonstrated that the resistance of H24 might be controlled by two dominant and complementary resistance genes. The resistance of H24 was still segregated in SP 4 , but the resistance spectrum of H24 was 84. 4% in SP 5 , much higher than the wild type, 40. 6%, and H24 especially showed resistant against some blast isolates of broad pathogenic spectrum or specialized pathogenicity; further more, the DNA polymorphism wasn't detected between H24 and its wild type by 229 SSR (simple sequence repeat) markers covering the rice genome equally. (authors)

  8. FEATURES OF DRILLING-AND-BLASTING AT CONSTRUCTION OF BESKIDSKIY TUNNEL

    Directory of Open Access Journals (Sweden)

    V. D. Petrenko

    2016-10-01

    Full Text Available Purpose. In this article it is necessary to analyze the possibility of developing technology and increasing its efficiency during the Beskidskiy tunnel construction in difficult engineering and geological conditions. Methodology. The authors have performed analysis of the technological level of mining and construction works, new technique, equipment and production. One of the important issues of blasting operation is to ensure the seismic safety, acting at a distance of 30 m in the axes of single-track tunnel, as the distance to it will be 20 m from the nearest charge in the laying tunnel. This problem was solved by applying the combined blasting of blast-hole charges with delay-action and long-delay ways. Herewith the total mass of charges in the stope was divided into three groups, in which the first group is exploded by short-delay firing with, and the second one is exploded by short-delay firing too with intervals of 200…400 ms, the third is exploded by long-delay blasting at intervals of 500…10000 ms. The combined blasting of short-delay charges and delay action ones let significantly reduce seismic action at a mass explosion of charges when driving of double-track railway tunnel of a large cross-section. Findings. The paper presents the developed technology model, describing dependence of the machines from engineering and geological conditions. The methodology of drilling and blasting works at the construction of the tunnel callote and stross as well as a technique of arrangement determination and intervals of shot-delay and delay blasting of blasthole explosive charges was developed. Maximum permissible concentration of gases and vapours at blasting was presented. The calculations showed that the maximum level of gas contamination of the working area in Beskidskiy tunnel is achieved at blast operations. In accordance with this ventilation of the tunnel when driving is carried out by independent systems with mechanical ventilation by

  9. Damage to underground coal mines caused by surface blasting

    International Nuclear Information System (INIS)

    Fourie, A.B.; Green, R.W.

    1993-01-01

    An investigation of the potential damage to underground coal workings as a result of surface blasting at an opencast coal mine is described. Seismometers were installed in a worked out area of an underground mine, in the eastern Transvaal region of South Africa, and the vibration caused by nearby surface blasting recorded. These measurements were used to derive peak particle velocities. These velocities were correlated with observed damage underground in order to establish the allowable combination of the two blasting parameters of charge mass per relay, and blast-to-gage point distance. An upper limit of 110mm/sec peak particle velocity was found to be sufficient to ensure that the damage to the particular workings under consideration was minimal. It was further found that a cube-root scaling law provided a better fit to the field data than the common square-root law. 11 refs., 6 figs., 5 tabs

  10. Application of full-face round by the sequential blasting machine in tunnel excavation

    Energy Technology Data Exchange (ETDEWEB)

    Cho, Y.D.; Park, B.K.; Lee, S.E.; Lim, H.U.

    1995-12-31

    Many methods and techniques have been developed to reduce ground vibrations. Some of them are an adoption of electric millisecond detonators with a sequential blasting machine and an improvement of initiating system with an adequate number of delay intervals. To reduce the level of ground vibration in tunnel excavation, the sequential blasting machine (S.B.M.) with decisecond detonators was adopted. A total of 134 blasts was recorded at various sites and the results were analyzed. The distances blast-to-structures were ranged from 20.3 to 42.0 meter, where charge weights were varied from 0.25 to 0.75kg per delay. It is proved that the sequential blasting in tunnel excavation is very effective to control ground vibration.

  11. Calculation of driling and blasting parameters in blasting performance

    OpenAIRE

    Dambov, Risto; Karanakova Stefanovska, Radmila; Dambov, Ilija

    2015-01-01

    In all mining technology drilling and blasting parameters and works are one of the main production processes at each mine. The parameters of drilling and blasting and explosives consumption per ton of blasting mass are define economic indicators of any blasting no matter for what purpose and where mining is performed. The calculation of rock blasting should always have in mind that the methodology of calculation of all drilling and blasting parameters in blasting performance are performed for...

  12. Using Genetic Distance to Infer the Accuracy of Genomic Prediction.

    Directory of Open Access Journals (Sweden)

    Marco Scutari

    2016-09-01

    Full Text Available The prediction of phenotypic traits using high-density genomic data has many applications such as the selection of plants and animals of commercial interest; and it is expected to play an increasing role in medical diagnostics. Statistical models used for this task are usually tested using cross-validation, which implicitly assumes that new individuals (whose phenotypes we would like to predict originate from the same population the genomic prediction model is trained on. In this paper we propose an approach based on clustering and resampling to investigate the effect of increasing genetic distance between training and target populations when predicting quantitative traits. This is important for plant and animal genetics, where genomic selection programs rely on the precision of predictions in future rounds of breeding. Therefore, estimating how quickly predictive accuracy decays is important in deciding which training population to use and how often the model has to be recalibrated. We find that the correlation between true and predicted values decays approximately linearly with respect to either FST or mean kinship between the training and the target populations. We illustrate this relationship using simulations and a collection of data sets from mice, wheat and human genetics.

  13. A Novel Approach for Blast-Induced Flyrock Prediction Based on Imperialist Competitive Algorithm and Artificial Neural Network

    Science.gov (United States)

    Marto, Aminaton; Jahed Armaghani, Danial; Tonnizam Mohamad, Edy; Makhtar, Ahmad Mahir

    2014-01-01

    Flyrock is one of the major disturbances induced by blasting which may cause severe damage to nearby structures. This phenomenon has to be precisely predicted and subsequently controlled through the changing in the blast design to minimize potential risk of blasting. The scope of this study is to predict flyrock induced by blasting through a novel approach based on the combination of imperialist competitive algorithm (ICA) and artificial neural network (ANN). For this purpose, the parameters of 113 blasting operations were accurately recorded and flyrock distances were measured for each operation. By applying the sensitivity analysis, maximum charge per delay and powder factor were determined as the most influential parameters on flyrock. In the light of this analysis, two new empirical predictors were developed to predict flyrock distance. For a comparison purpose, a predeveloped backpropagation (BP) ANN was developed and the results were compared with those of the proposed ICA-ANN model and empirical predictors. The results clearly showed the superiority of the proposed ICA-ANN model in comparison with the proposed BP-ANN model and empirical approaches. PMID:25147856

  14. A Novel Approach for Blast-Induced Flyrock Prediction Based on Imperialist Competitive Algorithm and Artificial Neural Network

    Directory of Open Access Journals (Sweden)

    Aminaton Marto

    2014-01-01

    Full Text Available Flyrock is one of the major disturbances induced by blasting which may cause severe damage to nearby structures. This phenomenon has to be precisely predicted and subsequently controlled through the changing in the blast design to minimize potential risk of blasting. The scope of this study is to predict flyrock induced by blasting through a novel approach based on the combination of imperialist competitive algorithm (ICA and artificial neural network (ANN. For this purpose, the parameters of 113 blasting operations were accurately recorded and flyrock distances were measured for each operation. By applying the sensitivity analysis, maximum charge per delay and powder factor were determined as the most influential parameters on flyrock. In the light of this analysis, two new empirical predictors were developed to predict flyrock distance. For a comparison purpose, a predeveloped backpropagation (BP ANN was developed and the results were compared with those of the proposed ICA-ANN model and empirical predictors. The results clearly showed the superiority of the proposed ICA-ANN model in comparison with the proposed BP-ANN model and empirical approaches.

  15. Waste plastics as supplemental fuel in the blast furnace process: improving combustion efficiencies.

    Science.gov (United States)

    Kim, Dongsu; Shin, Sunghye; Sohn, Seungman; Choi, Jinshik; Ban, Bongchan

    2002-10-14

    The possibility of using waste plastics as a source of secondary fuel in a blast furnace has been of recent interest. The success of this process, however, will be critically dependent upon the optimization of operating systems. For instance, the supply of waste plastics must be reliable as well as economically attractive compared with conventional secondary fuels such as heavy oil, natural gas and pulverized coal. In this work, we put special importance on the improvement of the combustibility of waste plastics as a way to enhance energy efficiency in a blast furnace. As experimental variables to approach this target, the effects of plastic particle size, blast temperature, and the level of oxygen enrichment were investigated using a custom-made blast model designed to simulate a real furnace. Lastly, the combustion efficiency of the mixture of waste plastics and pulverized coal was tested. The observations made from these experiments led us to the conclusion that with the increase of both blast temperature and the level of oxygen enrichment, and with a decrease in particle size, the combustibility of waste polyethylene could be improved at a given distance from the tuyere. Also it was found that the efficiency of coal combustion decreased with the addition of plastics; however, the combustion efficiency of mixture could be comparable at a longer distance from the tuyere.

  16. Experimental and Theoretical Study on Influence of Different Charging Structures on Blasting Vibration Energy

    Directory of Open Access Journals (Sweden)

    Wenbin Gu

    2015-01-01

    Full Text Available As an important parameter in blasting design, charging structure directly influences blasting effect. Due to complex conditions of this blasting and excavating engineering in Jiangsu, China, the authors carried out comparative researches with coupling structure, air-decoupling structure, and water-decoupling structure. After collecting, comparing, and analyzing produced signals on blasting vibration, the authors summarized that when proportional distances are the same, water-decoupling structure can reduce instantaneous energy of blasting vibration more effectively with more average rock fragmentation and less harm of dust. From the perspective of impedance matching, the present paper analyzed influence of charging structure on blasting vibration energy, demonstrating that impedance matching relationship between explosive and rock changes because of different charging structures. Through deducing relationship equation that meets the impedance matching of explosive and rock under different charging structures, the research concludes that when blasting rocks with high impedance, explosive with high impedance can better transmits blasting energy. Besides, when employing decoupling charging, there exists a reasonable decoupling coefficient helping realize impedance matching of explosive and rock.

  17. Numerical Simulation of Blast Vibration and Crack Forming Effect of Rock-Anchored Beam Excavation in Deep Underground Caverns

    Directory of Open Access Journals (Sweden)

    XinPing Li

    2017-01-01

    Full Text Available Aiming at surrounding rock damage induced by dynamic disturbance from blasting excavation of rock-anchored beam in rock mass at moderate or far distance in underground cavern, numerical model of different linear charging density and crustal stress in underground cavern is established by adopting dynamic finite element software based on borehole layout, charging, and rock parameter of the actual situation of a certain hydropower station. Through comparison in vibration velocity, contour surface of rock mass excavation, and the crushing extent of excavated rock mass between calculation result and field monitoring, optimum linear charging density of blast hole is determined. Studies are also conducted on rock mass vibration in moderate or far distance to blasting source, the damage of surrounding rock in near-field to blasting source, and crushing degree of excavated rock mass under various in situ stress conditions. Results indicate that, within certain range of in situ stress, the blasting vibration is independent of in situ stress, while when in situ stress is increasing above certain value, the blasting vibration velocity will be increasing and the damage of surrounding rock and the crushing degree of excavated rock mass will be decreasing.

  18. The large-scale blast score ratio (LS-BSR pipeline: a method to rapidly compare genetic content between bacterial genomes

    Directory of Open Access Journals (Sweden)

    Jason W. Sahl

    2014-04-01

    Full Text Available Background. As whole genome sequence data from bacterial isolates becomes cheaper to generate, computational methods are needed to correlate sequence data with biological observations. Here we present the large-scale BLAST score ratio (LS-BSR pipeline, which rapidly compares the genetic content of hundreds to thousands of bacterial genomes, and returns a matrix that describes the relatedness of all coding sequences (CDSs in all genomes surveyed. This matrix can be easily parsed in order to identify genetic relationships between bacterial genomes. Although pipelines have been published that group peptides by sequence similarity, no other software performs the rapid, large-scale, full-genome comparative analyses carried out by LS-BSR.Results. To demonstrate the utility of the method, the LS-BSR pipeline was tested on 96 Escherichia coli and Shigella genomes; the pipeline ran in 163 min using 16 processors, which is a greater than 7-fold speedup compared to using a single processor. The BSR values for each CDS, which indicate a relative level of relatedness, were then mapped to each genome on an independent core genome single nucleotide polymorphism (SNP based phylogeny. Comparisons were then used to identify clade specific CDS markers and validate the LS-BSR pipeline based on molecular markers that delineate between classical E. coli pathogenic variant (pathovar designations. Scalability tests demonstrated that the LS-BSR pipeline can process 1,000 E. coli genomes in 27–57 h, depending upon the alignment method, using 16 processors.Conclusions. LS-BSR is an open-source, parallel implementation of the BSR algorithm, enabling rapid comparison of the genetic content of large numbers of genomes. The results of the pipeline can be used to identify specific markers between user-defined phylogenetic groups, and to identify the loss and/or acquisition of genetic information between bacterial isolates. Taxa-specific genetic markers can then be translated

  19. Spalling of concrete walls under blast load

    International Nuclear Information System (INIS)

    Kot, C.A.

    1977-01-01

    A common effect of the detonation of explosives in close proximity of concrete shield walls is the spalling (scabbing) of the back face of the wall. Spalling is caused by the free surface reflection of the shock wave induced in the wall by high pressure air blast and occurs whenever the dynamic tensile rupture strength is exceeded. While a complex process, reasonable analytical spall estimates can be obtained for brittle materials with low tensile strengths, such as concrete, by assuming elastic material behavior and instantaneous spall formation. Specifically, the spall thicknesses and velocities for both normal and oblique incidence of the shock wave on the back face of the wall are calculated. The complex exponential decay wave forms of the air blast are locally approximated by simple power law expressions. Variations of blast wave strength with distance to the wall, charge weight and angle of incidence are taken into consideration. The shock wave decay in the wall is also accounted for by assuming elastic wave propagation. For explosions close-in to the wall, where the reflected blast wave pressures are sufficiently high, multiple spall layers are formed. Successive spall layers are of increasing thickness, at the same time the spall velocities decrease. The spall predictions based on elastic theory are in overall agreement with experimntal results and provide a rapid means of estimating spalling trends of concrete walls subjected to air blast. (Auth.)

  20. Numerical investigation of particle-blast interaction during explosive dispersal of liquids and granular materials

    Science.gov (United States)

    Pontalier, Q.; Lhoumeau, M.; Milne, A. M.; Longbottom, A. W.; Frost, D. L.

    2018-04-01

    Experiments show that when a high-explosive charge with embedded particles or a charge surrounded by a layer of liquid or granular material is detonated, the flow generated is perturbed by the motion of the particles and the blast wave profile differs from that of an ideal Friedlander form. Initially, the blast wave overpressure is reduced due to the energy dissipation resulting from compaction, fragmentation, and heating of the particle bed, and acceleration of the material. However, as the blast wave propagates, particle-flow interactions collectively serve to reduce the rate of decay of the peak blast wave overpressure. Computations carried out with a multiphase hydrocode reproduce the general trends observed experimentally and highlight the transition between the particle acceleration/deceleration phases, which is not accessible experimentally, since the particles are obscured by the detonation products. The dependence of the particle-blast interaction and the blast mitigation effectiveness on the mitigant to explosive mass ratio, the particle size, and the initial solid volume fraction is investigated systematically. The reduction in peak blast overpressure is, as in experiments, primarily dependent on the mass ratio of material to explosive, with the particle size, density, and initial porosity of the particle bed playing secondary roles. In the near field, the blast overpressure decreases sharply with distance as the particles are accelerated by the flow. When the particles decelerate due to drag, energy is returned to the flow and the peak blast overpressure recovers and reaches values similar to that of a bare explosive charge for low mass ratios. Time-distance trajectory plots of the particle and blast wave motion with the pressure field superimposed, illustrate the weak pressure waves generated by the motion of the particle layer which travel upstream and perturb the blast wave motion. Computation of the particle and gas momentum flux in the multiphase

  1. Numerical investigation of particle-blast interaction during explosive dispersal of liquids and granular materials

    Science.gov (United States)

    Pontalier, Q.; Lhoumeau, M.; Milne, A. M.; Longbottom, A. W.; Frost, D. L.

    2018-05-01

    Experiments show that when a high-explosive charge with embedded particles or a charge surrounded by a layer of liquid or granular material is detonated, the flow generated is perturbed by the motion of the particles and the blast wave profile differs from that of an ideal Friedlander form. Initially, the blast wave overpressure is reduced due to the energy dissipation resulting from compaction, fragmentation, and heating of the particle bed, and acceleration of the material. However, as the blast wave propagates, particle-flow interactions collectively serve to reduce the rate of decay of the peak blast wave overpressure. Computations carried out with a multiphase hydrocode reproduce the general trends observed experimentally and highlight the transition between the particle acceleration/deceleration phases, which is not accessible experimentally, since the particles are obscured by the detonation products. The dependence of the particle-blast interaction and the blast mitigation effectiveness on the mitigant to explosive mass ratio, the particle size, and the initial solid volume fraction is investigated systematically. The reduction in peak blast overpressure is, as in experiments, primarily dependent on the mass ratio of material to explosive, with the particle size, density, and initial porosity of the particle bed playing secondary roles. In the near field, the blast overpressure decreases sharply with distance as the particles are accelerated by the flow. When the particles decelerate due to drag, energy is returned to the flow and the peak blast overpressure recovers and reaches values similar to that of a bare explosive charge for low mass ratios. Time-distance trajectory plots of the particle and blast wave motion with the pressure field superimposed, illustrate the weak pressure waves generated by the motion of the particle layer which travel upstream and perturb the blast wave motion. Computation of the particle and gas momentum flux in the multiphase

  2. Analysis of MINIE2013 Explosion Air-Blast Data

    Energy Technology Data Exchange (ETDEWEB)

    Schnurr, Julie M. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Univ. of Hawaii, Manoa, HI (United States); Rodgers, Arthur J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Kim, Keehoon [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Ford, Sean R. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Ramirez, Abelardo L. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2016-10-14

    We report analysis of air-blast overpressure measurements from the MINIE2013 explosive experiments. The MINIE2013 experiment involved a series of nearly 70 near-surface (height-ofburst, HOB, ranging from -1 to +4 m) low-yield (W=2-20 kg TNT equivalent) chemical highexplosives tests that were recorded at local distances (230 m – 28.5 km). Many of the W and HOB combinations were repeated, allowing for quantification of the variability in air-blast features and corresponding yield estimates. We measured canonical signal features (peak overpressure, impulse per unit area, and positive pulse duration) from the air-blast data and compared these to existing air-blast models. Peak overpressure measurements showed good agreement with the models at close ranges but tended to attenuate more rapidly at longer range (~ 1 km), which is likely caused by upward refraction of acoustic waves due to a negative vertical gradient of sound speed. We estimated yields of the MINIE2013 explosions using the Integrated Yield Determination Tool (IYDT). Errors of the estimated yields were on average within 30% of the reported yields, and there were no significant differences in the accuracy of the IYDT predictions grouped by yield. IYDT estimates tend to be lower than ground truth yields, possibly because of reduced overpressure amplitudes by upward refraction. Finally, we report preliminary results on a development of a new parameterized air-blast waveform.

  3. Tracembler – software for in-silico chromosome walking in unassembled genomes

    Directory of Open Access Journals (Sweden)

    Wilkerson Matthew D

    2007-05-01

    Full Text Available Abstract Background Whole genome shotgun sequencing produces increasingly higher coverage of a genome with random sequence reads. Progressive whole genome assembly and eventual finishing sequencing is a process that typically takes several years for large eukaryotic genomes. In the interim, all sequence reads of public sequencing projects are made available in repositories such as the NCBI Trace Archive. For a particular locus, sequencing coverage may be high enough early on to produce a reliable local genome assembly. We have developed software, Tracembler, that facilitates in silico chromosome walking by recursively assembling reads of a selected species from the NCBI Trace Archive starting with reads that significantly match sequence seeds supplied by the user. Results Tracembler takes one or multiple DNA or protein sequence(s as input to the NCBI Trace Archive BLAST engine to identify matching sequence reads from a species of interest. The BLAST searches are carried out recursively such that BLAST matching sequences identified in previous rounds of searches are used as new queries in subsequent rounds of BLAST searches. The recursive BLAST search stops when either no more new matching sequences are found, a given maximal number of queries is exhausted, or a specified maximum number of rounds of recursion is reached. All the BLAST matching sequences are then assembled into contigs based on significant sequence overlaps using the CAP3 program. We demonstrate the validity of the concept and software implementation with an example of successfully recovering a full-length Chrm2 gene as well as its upstream and downstream genomic regions from Rattus norvegicus reads. In a second example, a query with two adjacent Medicago truncatula genes as seeds resulted in a contig that likely identifies the microsyntenic homologous soybean locus. Conclusion Tracembler streamlines the process of recursive database searches, sequence assembly, and gene

  4. Evaluating the efficacy of a structure-derived amino acid substitution matrix in detecting protein homologs by BLAST and PSI-BLAST.

    Science.gov (United States)

    Goonesekere, Nalin Cw

    2009-01-01

    The large numbers of protein sequences generated by whole genome sequencing projects require rapid and accurate methods of annotation. The detection of homology through computational sequence analysis is a powerful tool in determining the complex evolutionary and functional relationships that exist between proteins. Homology search algorithms employ amino acid substitution matrices to detect similarity between proteins sequences. The substitution matrices in common use today are constructed using sequences aligned without reference to protein structure. Here we present amino acid substitution matrices constructed from the alignment of a large number of protein domain structures from the structural classification of proteins (SCOP) database. We show that when incorporated into the homology search algorithms BLAST and PSI-blast, the structure-based substitution matrices enhance the efficacy of detecting remote homologs.

  5. Emergence of wheat blast in Bangladesh was caused by a South American lineage of Magnaporthe oryzae.

    Science.gov (United States)

    Islam, M Tofazzal; Croll, Daniel; Gladieux, Pierre; Soanes, Darren M; Persoons, Antoine; Bhattacharjee, Pallab; Hossain, Md Shaid; Gupta, Dipali Rani; Rahman, Md Mahbubur; Mahboob, M Golam; Cook, Nicola; Salam, Moin U; Surovy, Musrat Zahan; Sancho, Vanessa Bueno; Maciel, João Leodato Nunes; NhaniJúnior, Antonio; Castroagudín, Vanina Lilián; Reges, Juliana T de Assis; Ceresini, Paulo Cezar; Ravel, Sebastien; Kellner, Ronny; Fournier, Elisabeth; Tharreau, Didier; Lebrun, Marc-Henri; McDonald, Bruce A; Stitt, Timothy; Swan, Daniel; Talbot, Nicholas J; Saunders, Diane G O; Win, Joe; Kamoun, Sophien

    2016-10-03

    In February 2016, a new fungal disease was spotted in wheat fields across eight districts in Bangladesh. The epidemic spread to an estimated 15,000 hectares, about 16 % of the cultivated wheat area in Bangladesh, with yield losses reaching up to 100 %. Within weeks of the onset of the epidemic, we performed transcriptome sequencing of symptomatic leaf samples collected directly from Bangladeshi fields. Reinoculation of seedlings with strains isolated from infected wheat grains showed wheat blast symptoms on leaves of wheat but not rice. Our phylogenomic and population genomic analyses revealed that the wheat blast outbreak in Bangladesh was most likely caused by a wheat-infecting South American lineage of the blast fungus Magnaporthe oryzae. Our findings suggest that genomic surveillance can be rapidly applied to monitor plant disease outbreaks and provide valuable information regarding the identity and origin of the infectious agent.

  6. Employment of Near Full-Length Ribosome Gene TA-Cloning and Primer-Blast to Detect Multiple Species in a Natural Complex Microbial Community Using Species-Specific Primers Designed with Their Genome Sequences.

    Science.gov (United States)

    Zhang, Huimin; He, Hongkui; Yu, Xiujuan; Xu, Zhaohui; Zhang, Zhizhou

    2016-11-01

    It remains an unsolved problem to quantify a natural microbial community by rapidly and conveniently measuring multiple species with functional significance. Most widely used high throughput next-generation sequencing methods can only generate information mainly for genus-level taxonomic identification and quantification, and detection of multiple species in a complex microbial community is still heavily dependent on approaches based on near full-length ribosome RNA gene or genome sequence information. In this study, we used near full-length rRNA gene library sequencing plus Primer-Blast to design species-specific primers based on whole microbial genome sequences. The primers were intended to be specific at the species level within relevant microbial communities, i.e., a defined genomics background. The primers were tested with samples collected from the Daqu (also called fermentation starters) and pit mud of a traditional Chinese liquor production plant. Sixteen pairs of primers were found to be suitable for identification of individual species. Among them, seven pairs were chosen to measure the abundance of microbial species through quantitative PCR. The combination of near full-length ribosome RNA gene library sequencing and Primer-Blast may represent a broadly useful protocol to quantify multiple species in complex microbial population samples with species-specific primers.

  7. Brain injuries from blast.

    Science.gov (United States)

    Bass, Cameron R; Panzer, Matthew B; Rafaels, Karen A; Wood, Garrett; Shridharani, Jay; Capehart, Bruce

    2012-01-01

    Traumatic brain injury (TBI) from blast produces a number of conundrums. This review focuses on five fundamental questions including: (1) What are the physical correlates for blast TBI in humans? (2) Why is there limited evidence of traditional pulmonary injury from blast in current military field epidemiology? (3) What are the primary blast brain injury mechanisms in humans? (4) If TBI can present with clinical symptoms similar to those of Post-Traumatic Stress Disorder (PTSD), how do we clinically differentiate blast TBI from PTSD and other psychiatric conditions? (5) How do we scale experimental animal models to human response? The preponderance of the evidence from a combination of clinical practice and experimental models suggests that blast TBI from direct blast exposure occurs on the modern battlefield. Progress has been made in establishing injury risk functions in terms of blast overpressure time histories, and there is strong experimental evidence in animal models that mild brain injuries occur at blast intensities that are similar to the pulmonary injury threshold. Enhanced thoracic protection from ballistic protective body armor likely plays a role in the occurrence of blast TBI by preventing lung injuries at blast intensities that could cause TBI. Principal areas of uncertainty include the need for a more comprehensive injury assessment for mild blast injuries in humans, an improved understanding of blast TBI pathophysiology of blast TBI in animal models and humans, the relationship between clinical manifestations of PTSD and mild TBI from blunt or blast trauma including possible synergistic effects, and scaling between animals models and human exposure to blasts in wartime and terrorist attacks. Experimental methodologies, including location of the animal model relative to the shock or blast source, should be carefully designed to provide a realistic blast experiment with conditions comparable to blasts on humans. If traditional blast scaling is

  8. Tracing QTLs for Leaf Blast Resistance and Agronomic Performance of Finger Millet (Eleusine coracana (L. Gaertn. Genotypes through Association Mapping and in silico Comparative Genomics Analyses.

    Directory of Open Access Journals (Sweden)

    M Ramakrishnan

    Full Text Available Finger millet is one of the small millets with high nutritive value. This crop is vulnerable to blast disease caused by Pyricularia grisea, which occurs annually during rainy and winter seasons. Leaf blast occurs at early crop stage and is highly damaging. Mapping of resistance genes and other quantitative trait loci (QTLs for agronomic performance can be of great use for improving finger millet genotypes. Evaluation of one hundred and twenty-eight finger millet genotypes in natural field conditions revealed that leaf blast caused severe setback on agronomic performance for susceptible genotypes, most significant traits being plant height and root length. Plant height was reduced under disease severity while root length was increased. Among the genotypes, IE4795 showed superior response in terms of both disease resistance and better agronomic performance. A total of seven unambiguous QTLs were found to be associated with various agronomic traits including leaf blast resistance by association mapping analysis. The markers, UGEP101 and UGEP95, were strongly associated with blast resistance. UGEP98 was associated with tiller number and UGEP9 was associated with root length and seed yield. Cross species validation of markers revealed that 12 candidate genes were associated with 8 QTLs in the genomes of grass species such as rice, foxtail millet, maize, Brachypodium stacei, B. distachyon, Panicum hallii and switchgrass. Several candidate genes were found proximal to orthologous sequences of the identified QTLs such as 1,4-β-glucanase for leaf blast resistance, cytokinin dehydrogenase (CKX for tiller production, calmodulin (CaM binding protein for seed yield and pectin methylesterase inhibitor (PMEI for root growth and development. Most of these QTLs and their putatively associated candidate genes are reported for first time in finger millet. On validation, these novel QTLs may be utilized in future for marker assisted breeding for the development of

  9. Tracing QTLs for Leaf Blast Resistance and Agronomic Performance of Finger Millet (Eleusine coracana (L.) Gaertn.) Genotypes through Association Mapping and in silico Comparative Genomics Analyses.

    Science.gov (United States)

    Ramakrishnan, M; Antony Ceasar, S; Duraipandiyan, V; Vinod, K K; Kalpana, Krishnan; Al-Dhabi, N A; Ignacimuthu, S

    2016-01-01

    Finger millet is one of the small millets with high nutritive value. This crop is vulnerable to blast disease caused by Pyricularia grisea, which occurs annually during rainy and winter seasons. Leaf blast occurs at early crop stage and is highly damaging. Mapping of resistance genes and other quantitative trait loci (QTLs) for agronomic performance can be of great use for improving finger millet genotypes. Evaluation of one hundred and twenty-eight finger millet genotypes in natural field conditions revealed that leaf blast caused severe setback on agronomic performance for susceptible genotypes, most significant traits being plant height and root length. Plant height was reduced under disease severity while root length was increased. Among the genotypes, IE4795 showed superior response in terms of both disease resistance and better agronomic performance. A total of seven unambiguous QTLs were found to be associated with various agronomic traits including leaf blast resistance by association mapping analysis. The markers, UGEP101 and UGEP95, were strongly associated with blast resistance. UGEP98 was associated with tiller number and UGEP9 was associated with root length and seed yield. Cross species validation of markers revealed that 12 candidate genes were associated with 8 QTLs in the genomes of grass species such as rice, foxtail millet, maize, Brachypodium stacei, B. distachyon, Panicum hallii and switchgrass. Several candidate genes were found proximal to orthologous sequences of the identified QTLs such as 1,4-β-glucanase for leaf blast resistance, cytokinin dehydrogenase (CKX) for tiller production, calmodulin (CaM) binding protein for seed yield and pectin methylesterase inhibitor (PMEI) for root growth and development. Most of these QTLs and their putatively associated candidate genes are reported for first time in finger millet. On validation, these novel QTLs may be utilized in future for marker assisted breeding for the development of fungal

  10. CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing.

    Science.gov (United States)

    Tristão Ramos, Ravi José; de Azevedo Martins, Allan Cézar; da Silva Delgado, Gabrielle; Ionescu, Crina-Maria; Ürményi, Turán Peter; Silva, Rosane; Koca, Jaroslav

    2017-11-15

    CrocoBLAST is a tool for dramatically speeding up BLAST+ execution on any computer. Alignments that would take days or weeks with NCBI BLAST+ can be run overnight with CrocoBLAST. Additionally, CrocoBLAST provides features critical for NGS data analysis, including: results identical to those of BLAST+; compatibility with any BLAST+ version; real-time information regarding calculation progress and remaining run time; access to partial alignment results; queueing, pausing, and resuming BLAST+ calculations without information loss. CrocoBLAST is freely available online, with ample documentation (webchem.ncbr.muni.cz/Platform/App/CrocoBLAST). No installation or user registration is required. CrocoBLAST is implemented in C, while the graphical user interface is implemented in Java. CrocoBLAST is supported under Linux and Windows, and can be run under Mac OS X in a Linux virtual machine. jkoca@ceitec.cz. Supplementary data are available at Bioinformatics online. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com

  11. A numerical technique to design blast noise mitigation measures

    NARCIS (Netherlands)

    Berg, F. van den; Eerden, F.J.M. van der

    2007-01-01

    Large weapons, such as armor, artillery or demolitions, create a high-energy blast wave. It has a low frequency content, typically between 15 and 125 Hz, and can propagate over large distances. As a result it is a relative important cause for annoyance. Mitigation measures need to be close to the

  12. Acceleration-based methodology to assess the blast mitigation performance of explosive ordnance disposal helmets

    Science.gov (United States)

    Dionne, J. P.; Levine, J.; Makris, A.

    2018-01-01

    To design the next generation of blast mitigation helmets that offer increasing levels of protection against explosive devices, manufacturers must be able to rely on appropriate test methodologies and human surrogates that will differentiate the performance level of various helmet solutions and ensure user safety. Ideally, such test methodologies and associated injury thresholds should be based on widely accepted injury criteria relevant within the context of blast. Unfortunately, even though significant research has taken place over the last decade in the area of blast neurotrauma, there currently exists no agreement in terms of injury mechanisms for blast-induced traumatic brain injury. In absence of such widely accepted test methods and injury criteria, the current study presents a specific blast test methodology focusing on explosive ordnance disposal protective equipment, involving the readily available Hybrid III mannequin, initially developed for the automotive industry. The unlikely applicability of the associated brain injury criteria (based on both linear and rotational head acceleration) is discussed in the context of blast. Test results encompassing a large number of blast configurations and personal protective equipment are presented, emphasizing the possibility to develop useful correlations between blast parameters, such as the scaled distance, and mannequin engineering measurements (head acceleration). Suggestions are put forward for a practical standardized blast testing methodology taking into account limitations in the applicability of acceleration-based injury criteria as well as the inherent variability in blast testing results.

  13. Primary blast survival and injury risk assessment for repeated blast exposures.

    Science.gov (United States)

    Panzer, Matthew B; Bass, Cameron R Dale; Rafaels, Karin A; Shridharani, Jay; Capehart, Bruce P

    2012-02-01

    The widespread use of explosives by modern insurgents and terrorists has increased the potential frequency of blast exposure in soldiers and civilians. This growing threat highlights the importance of understanding and evaluating blast injury risk and the increase of injury risk from exposure to repeated blast effects. Data from more than 3,250 large animal experiments were collected from studies focusing on the effects of blast exposure. The current study uses 2,349 experiments from the data collection for analysis of the primary blast injury and survival risk for both long- and short-duration blasts, including the effects from repeated exposures. A piecewise linear logistic regression was performed on the data to develop survival and injury risk assessment curves. New injury risk assessment curves uniting long- and short-duration blasts were developed for incident and reflected pressure measures and were used to evaluate the risk of injury based on blast over pressure, positive-phase duration, and the number of repeated exposures. The risk assessments were derived for three levels of injury severity: nonauditory, pulmonary, and fatality. The analysis showed a marked initial decrease in injury tolerance with each subsequent blast exposure. This effect decreases with increasing number of blast exposures. The new injury risk functions showed good agreement with the existing experimental data and provided a simplified model for primary blast injury risk. This model can be used to predict blast injury or fatality risk for single exposure and repeated exposure cases and has application in modern combat scenarios or in setting occupational health limits. .Copyright © 2012 by Lippincott Williams & Wilkins

  14. Development and Application of Blast Casting Technique in Large-Scale Surface Mines: A Case Study of Heidaigou Surface Coal Mine in China

    Directory of Open Access Journals (Sweden)

    Li Ma

    2016-01-01

    Full Text Available Blast casting is a high-efficiency technique applied in surface mines for overburden removal and results in stripping cost savings. According to ballistic theory and center-of-mass frame basic movement principles, key factors influencing blast casting effect were analyzed, which include bench height and mining panel width, inclined angle of blast holes, explosive unit consumption (EUC, delay-time interval, presplitting, and blast hole pattern parameters. An intelligent design software was developed for obtaining better breaking and casting effect, and the error rates predicted with actual result can be controlled with 10%. Blast casting technique was successfully applied in Heidaigou Surface Coal Mine (HSCM with more than 34% of material casted into the inner dump. A ramp ditch was set within the middle inner dump for coal transportation. The procedure of stripping and excavating was implemented separately and alternately in the two sections around the middle ramp ditch. An unconstrained-nonlinear model was deduced for optimizing the shift distance of the middle ramp. The calculation results show that optimum shift distance of HSCM is 480 m, and the middle ditch should be shifted after 6 blast casting mining panels being stripped.

  15. Quarry blasts assessment and their environmental impacts on the nearby oil pipelines, southeast of Helwan City, Egypt

    Directory of Open Access Journals (Sweden)

    Adel M.E. Mohamed

    2013-06-01

    Full Text Available Ground vibrations induced by blasting in the cement quarries are one of the fundamental problems in the quarrying industry and may cause severe damage to the nearby utilities and pipelines. Therefore, a vibration control study plays an important role in the minimization of environmental effects of blasting in quarries. The current paper presents the influence of the quarry blasts at the National Cement Company (NCC on the two oil pipelines of SUMED Company southeast of Helwan City, by measuring the ground vibrations in terms of Peak Particle Velocity (PPV. The seismic refraction for compressional waves deduced from the shallow seismic survey and the shear wave velocity obtained from the Multi channel Analysis of Surface Waves (MASW technique are used to evaluate the closest site of the two pipelines to the quarry blasts. The results demonstrate that, the closest site of the two pipelines is of class B, according to the National Earthquake Hazard Reduction Program (NEHRP classification and the safe distance to avoid any environmental effects is 650 m, following the deduced Peak Particle Velocity (PPV and scaled distance (SD relationship (PPV = 700.08 × SD−1.225 in mm/s and the Air over Pressure (air blast formula (air blast = 170.23 × SD−0.071 in dB. In the light of prediction analysis, the maximum allowable charge weight per delay was found to be 591 kg with damage criterion of 12.5 mm/s at the closest site of the SUMED pipelines.

  16. Risk-targeted safety distance of reinforced concrete buildings from natural-gas transmission pipelines

    International Nuclear Information System (INIS)

    Russo, Paola; Parisi, Fulvio

    2016-01-01

    Natural-gas pipeline accidents mostly result in major damage even to buildings located far away. Therefore, proper safety distances should be observed in land use planning to ensure target safety levels for both existing and new buildings. In this paper, a quantitative risk assessment procedure is presented for the estimation of the annual probability of direct structural damage to reinforced concrete buildings associated with high-pressure natural-gas pipeline explosions. The procedure is based on Monte Carlo simulation and takes into account physical features of blast generation and propagation, as well as damage to reinforced concrete columns. The natural-gas jet release process and the flammable cloud size are estimated through SLAB one-dimensional integral model incorporating a release rate model. The explosion effects are evaluated by a Multi-Energy Method. Damage to reinforced concrete columns is predicted by means of pressure–impulse diagrams. The conditional probability of damage was estimated at multiple pressure–impulse levels, allowing blast fragility surfaces to be derived at different performance limit states. Finally, blast risk was evaluated and allowed the estimation of minimum pipeline-to-building safety distances for risk-informed urban planning. The probabilistic procedure presented herein may be used for performance-based design/assessment of buildings and to define the path of new natural-gas pipeline networks. - Highlights: • The safety of buildings against blast loads due to pipeline accidents is assessed. • A probabilistic risk assessment procedure is presented for natural-gas pipelines. • The annual risk of collapse of reinforced concrete building columns is evaluated. • Monte Carlo simulation was carried out considering both pipeline and column features. • A risk-targeted safety distance is proposed for blast strength class 9.

  17. Water in blast holes can improve blasting efficiency and cut costs

    Energy Technology Data Exchange (ETDEWEB)

    O' Regan, G.

    1983-08-01

    Water in blast holes has been a traditional problem faced by blasting engineers and foremen in surface mining. Presently accepted techniques for blasting in water-filled holes include the use of more expensive water-gel explosives which are denser than water, dewatering of holes by pumping, and blowing out the water with a small charge before loading the main ANFO charge column. These methods involve considerable expense and delay to the normal charge-loading procedure. The author describes a method of using the water in blast holes to improve blasting efficiency and reduce the consumption of explosive.

  18. Numerical Evaluation on Dynamic Response of Existing Underlying Tunnel Induced by Blasting Excavation of a Subway Tunnel

    Directory of Open Access Journals (Sweden)

    Jixue Zhou

    2017-01-01

    Full Text Available In Southwest China, most regions are mountainous, where traditional drill-and-blast method is adopted to excavate relatively harder rocks. However, blasting would cause vibration to adjacent structures and might result in damage or even failure. This paper considers a case where subway tunnel is overlying an existing railway tunnel, while the excavation requires blasting method. Vibration and stress distribution are calculated via Dynamic Finite Element Method (DFEM for both full-face excavation and CD method. Result shows that vibration induced by CD method is only 28% of that caused by full-face blasting with same distance. Peak vibration is located on the lining facing the blasting source, while peak tensile stress is on the other side of the contour due to the reflection of stress wave on strata boundary. And peak value of tensile stress induced by full-face blasting is capable of causing lining failure; thus full-face blasting is not suggested within 40 m beyond the underlying tunnel axis. However, CD method has shown much advantage, since blasting within 25 m is also considered safe to the underlying tunnel. But when the blasting source is as near as 12 m within the underlying tunnel, the CD method is no longer safe.

  19. Analysis of pan-genome content and its application in microbial identification

    DEFF Research Database (Denmark)

    Lukjancenko, Oksana

    microorganisms and eventually speed up the diagnosis of foodborne illnesses. This genomic data can give biologists many possibilities to improve knowledge of organismal evolution and complex genetic systems. The general interest of this PhD thesis is how to obtain relevant information from growing amounts...... groups or genomic structures; and to use the information of a specific proteome to predict which species it might belong to. Two different algorithms, BLAST and profile Hidden Markov Models (HMMs), are used to determine similarity between sequences and to address the questions in this thesis. The first...... the application of PanFunPro to a set of more than 2000 genomes; this paper aims to define set of protein families, which are conserved among all the genomes. Papers V demonstrates comparative genomics analysis of proteomes, belonging to Vibrio genus. In the last project, described in Chapter 5, both BLAST...

  20. A Small-Group Activity Introducing the Use and Interpretation of BLAST

    Directory of Open Access Journals (Sweden)

    Peter D. Newell

    2013-08-01

    Full Text Available As biological sequence data are generated at an ever increasing rate, the role of bioinformatics in biological research also grows. Students must be trained to complete and interpret bioinformatic searches to enable them to effectively utilize the trove of sequence data available. A key bioinformatic tool for sequence comparison and genome database searching is BLAST (Basic Local Alignment Search Tool. BLAST identifies sequences in a database that are similar to the entered query sequence, and ranks them based on the length and quality of the alignment. Our goal was to introduce sophomore and junior level undergraduate students to the basic functions and uses of BLAST with a small group activity lasting a single class period. The activity provides students an opportunity to perform a BLAST search, interpret the data output, and use the data to make inferences about bacterial cell envelope structure. The activity consists of two parts. Part 1 is a handout to be completed prior to class, complete with video tutorial, that reviews cell envelope structure, introduces key terms, and allows students to familiarize themselves with the mechanics of a BLAST search. Part 2 consists of a hands-on, web-based small group activity to be completed during the class period. Evaluation of the activity through student performance assessments suggests that students who complete the activity can better interpret the BLAST output parameters % query coverage and % max identity. While the topic of the activity is bacterial cell wall structure, it could be adapted to address other biological concepts.

  1. Study of wet blasting of components in nuclear power stations

    International Nuclear Information System (INIS)

    Hall, J.

    1999-12-01

    This report looks at the method of wet blasting radioactive components in nuclear power stations. The wet blaster uses pearl shaped glass beads with the dimensions of 150-250 μm mixed with water as blasting media. The improved design, providing outer operator's positions with proper radiation protection and more efficient blasting equipment has resulted in a lesser dose taken by the operators. The main reason to decontaminate components in nuclear power plants is to enable service on these components. On components like valves, pump shafts, pipes etc. oxides form and bind radiation. These components are normally situated at some distance from the reactor core and will mainly suffer from radiation from so called activation products. When a component is to be decontaminated it can be decontaminated to a radioactive level where it will be declassified. This report has found levels ranging from 150-1000 Bq/kg allowing declassification of radioactive materials. This difference is found between different countries and different organisations. The report also looks at the levels of waste generated using wet blasting. This is done by tracking the contamination to determine where it collects. It is either collected in the water treatment plant or collected in the blasting media. At Barsebaeck the waste levels, from de-contaminating nearly 800 components in one year, results in a waste volume of about 0,250 m 3 . This waste consists of low and medium level waste and will cost about 3 600 EURO to store. The conclusions of the report are that wet blasting is an indispensable way to treat contaminated components in modern nuclear power plants. The wet blasting equipment can be improved by using a robot enabling the operators to remotely treat components from the outer operator's positions. There they will benefit from better radiation protection thus further reduce their taken dose. The wet blasting equipment could also be used to better control the levels of radioactivity on

  2. Study of wet blasting of components in nuclear power stations

    Energy Technology Data Exchange (ETDEWEB)

    Hall, J

    1999-12-01

    This report looks at the method of wet blasting radioactive components in nuclear power stations. The wet blaster uses pearl shaped glass beads with the dimensions of 150-250 {mu}m mixed with water as blasting media. The improved design, providing outer operator's positions with proper radiation protection and more efficient blasting equipment has resulted in a lesser dose taken by the operators. The main reason to decontaminate components in nuclear power plants is to enable service on these components. On components like valves, pump shafts, pipes etc. oxides form and bind radiation. These components are normally situated at some distance from the reactor core and will mainly suffer from radiation from so called activation products. When a component is to be decontaminated it can be decontaminated to a radioactive level where it will be declassified. This report has found levels ranging from 150-1000 Bq/kg allowing declassification of radioactive materials.This difference is found between different countries and different organisations. The report also looks at the levels of waste generated using wet blasting. This is done by tracking the contamination to determine where it collects. It is either collected in the water treatment plant or collected in the blasting media. At Barsebaeck the waste levels, from de-contaminating nearly 800 components in one year, results in a waste volume of about 0,250 m{sup 3}. This waste consists of low and medium level waste and will cost about 3 600 EURO to store. The conclusions of the report are that wet blasting is an indispensable way to treat contaminated components in modern nuclear power plants. The wet blasting equipment can be improved by using a robot enabling the operators to remotely treat components from the outer operator's positions. There they will benefit from better radiation protection thus further reduce their taken dose. The wet blasting equipment could also be used to better control the levels of

  3. The use of computer blast simulations to improve blast quality

    International Nuclear Information System (INIS)

    Favreau, R.F.; Kuzyk, G.W.; Babulic, P.J.; Tienkamp, N.J.

    1989-01-01

    Atomic Energy of Canada Limited is constructing an Underground Research Laboratory (URL) as part of a comprehensive program to evaluate the concept of nuclear fuel waste disposal deep in crystalline rock formations. Careful blasting methods have been used to minimize damage to the excavation surfaces. Good wall quality is desirable in any excavation. In excavations required for nuclear waste disposal, the objective will be to minimize blast-induced fractures which may complicate the sealing requirements necessary to control subsequent movement of groundwater around a sealed disposal vault. The construction of the URL has provided an opportunity for the development of controlled blasting methods, especially for drilling accuracy and optimization of explosive loads in the perimeter and cushion holes. The work has been assisted by the use of blast simulations with the mathematical model Blaspa. This paper reviews the results of a recent project to develop a controlled method of full-face blasting, and compares the observed field results with the results of a blast simulator called Blaspa. Good agreement is found between the two, and the Blaspa results indicate quantitatively how the blasting may induce damage in the final excavation surface. In particular, the rock in the final wall may be stressed more severely by the cushion holes than by the perimeter holes. Bootleg of the rock between the perimeter and cushion rows occurs when the burst-out velocity imparted to it by the explosive loads in the perimeter holes is inadequate. In practice, these findings indicate that quantitative rock stress and rock burst-out velocity criteria can be established to minimize wall damage and bootleg. Thus, blast simulations become an efficient way to design controlled blasting and to optimize quality of the excavation surface

  4. Introgression of Blast Resistance Genes (Putative Pi-b and Pi-kh) into Elite Rice Cultivar MR219 through Marker-Assisted Selection

    Science.gov (United States)

    Tanweer, Fatah A.; Rafii, Mohd Y.; Sijam, Kamaruzaman; Rahim, Harun A.; Ahmed, Fahim; Ashkani, Sadegh; Latif, Mohammad A.

    2015-01-01

    Blast is the most common biotic stress leading to the reduction of rice yield in many rice-growing areas of the world, including Malaysia. Improvement of blast resistance of rice varieties cultivated in blast endemic areas is one of the most important objectives of rice breeding programs. In this study, the marker-assisted backcrossing strategy was applied to improve the blast resistance of the most popular Malaysian rice variety MR219 by introgressing blast resistance genes from the Pongsu Seribu 2 variety. Two blast resistance genes, Pi-b and Pi-kh, were pyramided into MR219. Foreground selection coupled with stringent phenotypic selection identified 15 plants homozygous for the Pi-b and Pi-kh genes, and background selection revealed more than 95% genome recovery of MR219 in advanced blast resistant lines. Phenotypic screening against blast disease indicated that advanced homozygous blast resistant lines were strongly resistant against pathotype P7.2 in the blast disease endemic areas. The morphological, yield, grain quality, and yield-contributing characteristics were significantly similar to those of MR219. The newly developed blast resistant improved lines will retain the high adoptability of MR219 by farmers. The present results will also play an important role in sustaining the rice production of Malaysia. PMID:26734013

  5. An automated annotation tool for genomic DNA sequences using

    Indian Academy of Sciences (India)

    Genomic sequence data are often available well before the annotated sequence is published. We present a method for analysis of genomic DNA to identify coding sequences using the GeneScan algorithm and characterize these resultant sequences by BLAST. The routines are used to develop a system for automated ...

  6. Genomic analysis of a 1 Mb region near the telomere of Hessian fly chromosome X2 and avirulence gene vH13

    Directory of Open Access Journals (Sweden)

    Chen Ming-Shun

    2006-01-01

    Full Text Available Abstract Background To have an insight into the Mayetiola destructor (Hessian fly genome, we performed an in silico comparative genomic analysis utilizing genetic mapping, genomic sequence and EST sequence data along with data available from public databases. Results Chromosome walking and FISH were utilized to identify a contig of 50 BAC clones near the telomere of the short arm of Hessian fly chromosome X2 and near the avirulence gene vH13. These clones enabled us to correlate physical and genetic distance in this region of the Hessian fly genome. Sequence data from these BAC ends encompassing a 760 kb region, and a fully sequenced and assembled 42.6 kb BAC clone, was utilized to perform a comparative genomic study. In silico gene prediction combined with BLAST analyses was used to determine putative orthology to the sequenced dipteran genomes of the fruit fly, Drosophila melanogaster, and the malaria mosquito, Anopheles gambiae, and to infer evolutionary relationships. Conclusion This initial effort enables us to advance our understanding of the structure, composition and evolution of the genome of this important agricultural pest and is an invaluable tool for a whole genome sequencing effort.

  7. Performance of Hybrid Steel Fibers Reinforced Concrete Subjected to Air Blast Loading

    Directory of Open Access Journals (Sweden)

    Mohammed Alias Yusof

    2013-01-01

    Full Text Available This paper presents the results of the experimental data and simulation on the performance of hybrid steel fiber reinforced concrete (HSFRC and also normal reinforced concrete (NRC subjected to air blast loading. HSFRC concrete mix consists of a combination of 70% long steel hook end fibre and also 30% of short steel hook end fibre with a volume fraction of 1.5% mix. A total of six concrete panels were subjected to air blast using plastic explosive (PE4 weighing 1 kg each at standoff distance of 0.3 meter. The parameters measured are mode of failure under static and blast loading and also peak overpressure that resulted from detonation using high speed data acquisition system. In addition to this simulation work using AUTODYN was carried out and validated using experimental data. The experimental results indicate that hybrid steel fiber reinforced concrete panel (HSFRC possesses excellent resistance to air blast loading as compared to normal reinforced concrete (NRC panel. The simulation results were also found to be close with experimental data. Therefore the results have been validated using experimental data.

  8. Recurrent parent genome recovery analysis in a marker-assisted backcrossing program of rice (Oryza sativa L.).

    Science.gov (United States)

    Miah, Gous; Rafii, Mohd Y; Ismail, Mohd R; Puteh, Adam B; Rahim, Harun A; Latif, Mohammad A

    2015-02-01

    Backcross breeding is the most commonly used method for incorporating a blast resistance gene into a rice cultivar. Linkage between the resistance gene and undesirable units can persist for many generations of backcrossing. Marker-assisted backcrossing (MABC) along with marker-assisted selection (MAS) contributes immensely to overcome the main limitation of the conventional breeding and accelerates recurrent parent genome (RPG) recovery. The MABC approach was employed to incorporate (a) blast resistance gene(s) from the donor parent Pongsu Seribu 1, the blast-resistant local variety in Malaysia, into the genetic background of MR219, a popular high-yielding rice variety that is blast susceptible, to develop a blast-resistant MR219 improved variety. In this perspective, the recurrent parent genome recovery was analyzed in early generations of backcrossing using simple sequence repeat (SSR) markers. Out of 375 SSR markers, 70 markers were found polymorphic between the parents, and these markers were used to evaluate the plants in subsequent generations. Background analysis revealed that the extent of RPG recovery ranged from 75.40% to 91.3% and from 80.40% to 96.70% in BC1F1 and BC2F1 generations, respectively. In this study, the recurrent parent genome content in the selected BC2F2 lines ranged from 92.7% to 97.7%. The average proportion of the recurrent parent in the selected improved line was 95.98%. MAS allowed identification of the plants that are more similar to the recurrent parent for the loci evaluated in backcross generations. The application of MAS with the MABC breeding program accelerated the recovery of the RP genome, reducing the number of generations and the time for incorporating resistance against rice blast. Copyright © 2014 Académie des sciences. Published by Elsevier SAS. All rights reserved.

  9. Membranes replace irradiated blast cells as growth requirement for leukemic blast progenitors in suspension culture

    International Nuclear Information System (INIS)

    Nara, N.; McCulloch, E.A.

    1985-01-01

    The blast cells of acute myeloblastic leukemia (AML) may be considered as a renewal population, maintained by blast stem cells capable of both self-renewal and the generation of progeny with reduced or absent proliferative potential. This growth requires that two conditions be met: first, the cultures must contain growth factors in media conditioned either by phytohemagglutinin (PHA)-stimulated mononuclear leukocytes (PHA-LCM), or by cells of the continuous bladder carcinoma line HTB9 (HTB9-CM). Second, the cell density must be maintained at 10(6) blasts/ml; this may be achieved by adding irradiated cells to smaller numbers of intact blasts. The authors are concerned with the mechanism of the feeding function. They present evidence that (a) cell-cell contact is required. (b) Blasts are heterogeneous in respect to their capacity to support growth. (c) Fractions containing membranes from blast cells will substitute for intact cells in promoting the generation of new blast progenitors in culture. (d) This membrane function may be specific for AML blasts, since membranes from blasts of lymphoblastic leukemia or normal marrow cells were inactive

  10. Blast-Induced Acceleration in a Shock Tube: Distinguishing Primary and Tertiary Blast Injury

    Science.gov (United States)

    2016-10-01

    injury conditions (blast and acceleration vs acceleration alone) undergo neurobehavioral and histopathological assessments to comprehensively... reversal . To facilitate mid-air blasts, a release mechanism was devised. Balls were attached to the bail of the mechanism. The blast wave would cause

  11. Development of GP and GEP models to estimate an environmental issue induced by blasting operation.

    Science.gov (United States)

    Faradonbeh, Roohollah Shirani; Hasanipanah, Mahdi; Amnieh, Hassan Bakhshandeh; Armaghani, Danial Jahed; Monjezi, Masoud

    2018-05-21

    Air overpressure (AOp) is one of the most adverse effects induced by blasting in the surface mines and civil projects. So, proper evaluation and estimation of the AOp is important for minimizing the environmental problems resulting from blasting. The main aim of this study is to estimate AOp produced by blasting operation in Miduk copper mine, Iran, developing two artificial intelligence models, i.e., genetic programming (GP) and gene expression programming (GEP). Then, the accuracy of the GP and GEP models has been compared to multiple linear regression (MLR) and three empirical models. For this purpose, 92 blasting events were investigated, and subsequently, the AOp values were carefully measured. Moreover, in each operation, the values of maximum charge per delay and distance from blast points, as two effective parameters on the AOp, were measured. After predicting by the predictive models, their performance prediction was checked in terms of variance account for (VAF), coefficient of determination (CoD), and root mean square error (RMSE). Finally, it was found that the GEP with VAF of 94.12%, CoD of 0.941, and RMSE of 0.06 is a more precise model than other predictive models for the AOp prediction in the Miduk copper mine, and it can be introduced as a new powerful tool for estimating the AOp resulting from blasting.

  12. NOBLAST and JAMBLAST: New Options for BLAST and a Java Application Manager for BLAST results.

    Science.gov (United States)

    Lagnel, Jacques; Tsigenopoulos, Costas S; Iliopoulos, Ioannis

    2009-03-15

    NOBLAST (New Options for BLAST) is an open source program that provides a new user-friendly tabular output format for various NCBI BLAST programs (Blastn, Blastp, Blastx, Tblastn, Tblastx, Mega BLAST and Psi BLAST) without any use of a parser and provides E-value correction in case of use of segmented BLAST database. JAMBLAST using the NOBLAST output allows the user to manage, view and filter the BLAST hits using a number of selection criteria. A distribution package of NOBLAST and JAMBLAST including detailed installation procedure is freely available from http://sourceforge.net/projects/JAMBLAST/ and http://sourceforge.net/projects/NOBLAST. Supplementary data are available at Bioinformatics online.

  13. A coupling of empirical explosive blast loads to ALE air domains in LS-DYNA (registered)

    International Nuclear Information System (INIS)

    Slavik, Todd P

    2010-01-01

    A coupling method recently implemented in LS-DYNA (registered) allows empirical explosive blast loads to be applied to air domains treated with the multi-material arbitrary Lagrangian-Eulerian (ALE) formulation. Previously, when simulating structures subjected to blast loads, two methods of analysis were available: a purely Lagrangian approach or one involving the ALE and Lagrangian formulations coupled with a fluid-structure interaction (FSI) algorithm. In the former, air blast pressure is computed with empirical equations and directly applied to Lagrangian elements of the structure. In the latter approach, the explosive as well as the air are explicitly modeled and the blast wave propagating through the ALE air domain impinges on the Lagrangian structure through FSI. Since the purely Lagrangian approach avoids modeling the air between the explosive and structure, a significant computational cost savings can be realized - especially so when large standoff distances are considered. The shortcoming of the empirical blast equations is their inability to account for focusing or shadowing of the blast waves due to their interaction with structures which may intervene between the explosive and primary structure of interest. The new method presented here obviates modeling the explosive and air leading up the structure. Instead, only the air immediately surrounding the Lagrangian structures need be modeled with ALE, while effects of the far-field blast are applied to the outer face of that ALE air domain with the empirical blast equations; thus, focusing and shadowing effects can be accommodated yet computational costs are kept to a minimum. Comparison of the efficiency and accuracy of this new method with other approaches shows that the ability of LS-DYNA (registered) to model a variety of new blast scenarios has been greatly extended.

  14. Divide and Conquer (DC BLAST: fast and easy BLAST execution within HPC environments

    Directory of Open Access Journals (Sweden)

    Won Cheol Yim

    2017-06-01

    Full Text Available Bioinformatics is currently faced with very large-scale data sets that lead to computational jobs, especially sequence similarity searches, that can take absurdly long times to run. For example, the National Center for Biotechnology Information (NCBI Basic Local Alignment Search Tool (BLAST and BLAST+ suite, which is by far the most widely used tool for rapid similarity searching among nucleic acid or amino acid sequences, is highly central processing unit (CPU intensive. While the BLAST suite of programs perform searches very rapidly, they have the potential to be accelerated. In recent years, distributed computing environments have become more widely accessible and used due to the increasing availability of high-performance computing (HPC systems. Therefore, simple solutions for data parallelization are needed to expedite BLAST and other sequence analysis tools. However, existing software for parallel sequence similarity searches often requires extensive computational experience and skill on the part of the user. In order to accelerate BLAST and other sequence analysis tools, Divide and Conquer BLAST (DCBLAST was developed to perform NCBI BLAST searches within a cluster, grid, or HPC environment by using a query sequence distribution approach. Scaling from one (1 to 256 CPU cores resulted in significant improvements in processing speed. Thus, DCBLAST dramatically accelerates the execution of BLAST searches using a simple, accessible, robust, and parallel approach. DCBLAST works across multiple nodes automatically and it overcomes the speed limitation of single-node BLAST programs. DCBLAST can be used on any HPC system, can take advantage of hundreds of nodes, and has no output limitations. This freely available tool simplifies distributed computation pipelines to facilitate the rapid discovery of sequence similarities between very large data sets.

  15. Effect of Plate Curvature on Blast Response of Structural Steel Plates

    Science.gov (United States)

    Veeredhi, Lakshmi Shireen Banu; Ramana Rao, N. V.; Veeredhi, Vasudeva Rao

    2018-04-01

    In the present work an attempt is made, through simulation studies, to determine the effect of plate curvature on the blast response of a door structure made of ASTM A515 grade 50 steel plates. A door structure with dimensions of 5.142 m × 2.56 m × 10 mm having six different radii of curvatures is analyzed which is subjected to blast load. The radii of curvature investigated are infinity (flat plate), 16.63, 10.81, 8.26, 6.61 and 5.56 m. In the present study, a stand-off distance of 11 m is considered for all the cases. Results showed that the door structure with smallest radius of curvature experienced least plastic deformation and yielding when compared to a door with larger radius of curvature with same projected area. From the present Investigation, it is observed that, as the radius of curvature of the plate increases, the deformation mode gradually shifts from indentation mode to flexural mode. The plates with infinity and 16.63 m radius of curvature have undergone flexural mode of deformation and plates with 6.61 and 5.56 m radius of curvature undergo indentation mode of deformation. Whereas, mixed mode of deformation that consists of both flexural and indentation mode of deformations are seen in the plates with radius of curvature 10.81 and 8.26 m. As the radius of curvature of the plate decreases the ability of the plate to mitigate the effect the blast loads increased. It is observed that the plate with smaller radius of curvature deflects most of the blast energy and results in least indentation mode of deformation. The most significant observation made in the present investigation is that the strain energy absorbed by the steel plate gets reduced to 1/3 rd when the radius of curvature is approximately equal to the stand-off distance which could be the critical radius of curvature.

  16. PLAN: a web platform for automating high-throughput BLAST searches and for managing and mining results.

    Science.gov (United States)

    He, Ji; Dai, Xinbin; Zhao, Xuechun

    2007-02-09

    BLAST searches are widely used for sequence alignment. The search results are commonly adopted for various functional and comparative genomics tasks such as annotating unknown sequences, investigating gene models and comparing two sequence sets. Advances in sequencing technologies pose challenges for high-throughput analysis of large-scale sequence data. A number of programs and hardware solutions exist for efficient BLAST searching, but there is a lack of generic software solutions for mining and personalized management of the results. Systematically reviewing the results and identifying information of interest remains tedious and time-consuming. Personal BLAST Navigator (PLAN) is a versatile web platform that helps users to carry out various personalized pre- and post-BLAST tasks, including: (1) query and target sequence database management, (2) automated high-throughput BLAST searching, (3) indexing and searching of results, (4) filtering results online, (5) managing results of personal interest in favorite categories, (6) automated sequence annotation (such as NCBI NR and ontology-based annotation). PLAN integrates, by default, the Decypher hardware-based BLAST solution provided by Active Motif Inc. with a greatly improved efficiency over conventional BLAST software. BLAST results are visualized by spreadsheets and graphs and are full-text searchable. BLAST results and sequence annotations can be exported, in part or in full, in various formats including Microsoft Excel and FASTA. Sequences and BLAST results are organized in projects, the data publication levels of which are controlled by the registered project owners. In addition, all analytical functions are provided to public users without registration. PLAN has proved a valuable addition to the community for automated high-throughput BLAST searches, and, more importantly, for knowledge discovery, management and sharing based on sequence alignment results. The PLAN web interface is platform

  17. PLAN: a web platform for automating high-throughput BLAST searches and for managing and mining results

    Directory of Open Access Journals (Sweden)

    Zhao Xuechun

    2007-02-01

    Full Text Available Abstract Background BLAST searches are widely used for sequence alignment. The search results are commonly adopted for various functional and comparative genomics tasks such as annotating unknown sequences, investigating gene models and comparing two sequence sets. Advances in sequencing technologies pose challenges for high-throughput analysis of large-scale sequence data. A number of programs and hardware solutions exist for efficient BLAST searching, but there is a lack of generic software solutions for mining and personalized management of the results. Systematically reviewing the results and identifying information of interest remains tedious and time-consuming. Results Personal BLAST Navigator (PLAN is a versatile web platform that helps users to carry out various personalized pre- and post-BLAST tasks, including: (1 query and target sequence database management, (2 automated high-throughput BLAST searching, (3 indexing and searching of results, (4 filtering results online, (5 managing results of personal interest in favorite categories, (6 automated sequence annotation (such as NCBI NR and ontology-based annotation. PLAN integrates, by default, the Decypher hardware-based BLAST solution provided by Active Motif Inc. with a greatly improved efficiency over conventional BLAST software. BLAST results are visualized by spreadsheets and graphs and are full-text searchable. BLAST results and sequence annotations can be exported, in part or in full, in various formats including Microsoft Excel and FASTA. Sequences and BLAST results are organized in projects, the data publication levels of which are controlled by the registered project owners. In addition, all analytical functions are provided to public users without registration. Conclusion PLAN has proved a valuable addition to the community for automated high-throughput BLAST searches, and, more importantly, for knowledge discovery, management and sharing based on sequence alignment results

  18. Study of blast wave overpressures using the computational fluid dynamics

    Directory of Open Access Journals (Sweden)

    M. L. COSTA NETO

    Full Text Available ABSTRACT The threats of bomb attacks by criminal organizations and accidental events involving chemical explosives are a danger to the people and buildings. Due the severity of these issues and the need of data required for a safety design, more research is required about explosions and shock waves. This paper presents an assessment of blast wave overpressures using a computational fluid dynamics software. Analyses of phenomena as reflection of shock waves and channeling effects were done and a comparison between numerical results and analytical predictions has been executed, based on the simulation on several models. The results suggest that the common analytical predictions aren’t accurate enough for an overpressure analysis in small stand-off distances and that poorly designed buildings may increase the shock wave overpressures due multiple blast wave reflections, increasing the destructive potential of the explosions.

  19. Research on Effects of Blast Casting Vibration and Vibration Absorption of Presplitting Blasting in Open Cast Mine

    Directory of Open Access Journals (Sweden)

    Li Ma

    2016-01-01

    Full Text Available The impact energy produced by blast casting is able to break and cast rocks, yet the strong vibration effects caused at the same time would threaten the safety of mines. Based on the theory of Janbu’s Limit Equilibrium Method (LEM, pseudo-static method has been incorporated to analyze the influence of dynamic loads of blasting on slope stability. The horizontal loads produced by blast vibrations cause an increase in sliding forces, and this leads to a lower slope stability coefficient. When the tensile stresses of the two adjacent blast holes are greater than the tensile strength of rock mass, the radical oriented cracks are formed, which is the precondition for the formation of presplit face. Thus, the formula for calculating the blast hole spacing of presplit blasting can be obtained. Based on the analysis of the principles of vibration tester and vibration pick-up in detecting blast vibrations, a detection scheme of blast vibration is worked out by taking the blast area with precrack rear and non-precrack side of the detection object. The detection and research results of blast vibration show that presplit blasting can reduce the attenuation coefficient of stress wave by half, and the vibration absorption ratio could reach 50.2%; the impact of dynamic loads on the end-wall slope stability coefficient is 1.98%, which proves that presplit blasting plays an important role in shock absorption of blast casting.

  20. 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

  1. An analysis of the heap construction by long hole blasting for in-situ leaching of blasted ore

    International Nuclear Information System (INIS)

    Yang Shijiao

    1999-01-01

    The author establishes specific requirements for heap construction by blasting on the basis of the mechanism for in situ leaching of blasted ore, analyses the feasibility of heap construction by long hole blasting, selection of the blast plan and the relevant technological problems, and gives a case of heap construction by long hole blasting in Renhua uranium mine

  2. Aspergillus flavus Blast2GO gene ontology database: elevated growth temperature alters amino acid metabolism

    Science.gov (United States)

    The availability of a representative gene ontology (GO) database is a prerequisite for a successful functional genomics study. Using online Blast2GO resources we constructed a GO database of Aspergillus flavus. Of the predicted total 13,485 A. flavus genes 8,987 were annotated with GO terms. The mea...

  3. Rock fragmentation control in opencast blasting

    Directory of Open Access Journals (Sweden)

    P.K. Singh

    2016-04-01

    Full Text Available The blasting operation plays a pivotal role in the overall economics of opencast mines. The blasting sub-system affects all the other associated sub-systems, i.e. loading, transport, crushing and milling operations. Fragmentation control through effective blast design and its effect on productivity are the challenging tasks for practicing blasting engineer due to inadequate knowledge of actual explosive energy released in the borehole, varying initiation practice in blast design and its effect on explosive energy release characteristic. This paper describes the result of a systematic study on the impact of blast design parameters on rock fragmentation at three mines in India. The mines use draglines and shovel–dumper combination for removal of overburden. Despite its pivotal role in controlling the overall economics of a mining operation, the expected blasting performance is often judged almost exclusively on the basis of poorly defined parameters such as powder factor and is often qualitative which results in very subjective assessment of blasting performance. Such an approach is very poor substitutes for accurate assessment of explosive and blasting performance. Ninety one blasts were conducted with varying blast designs and charging patterns, and their impacts on the rock fragmentation were documented. A high-speed camera was deployed to record the detonation sequences of the blasts. The efficiency of the loading machines was also correlated with the mean fragment size obtained from the fragmentation analyses.

  4. Genome-Wide Comparison of Magnaporthe Species Reveals a Host-Specific Pattern of Secretory Proteins and Transposable Elements.

    Directory of Open Access Journals (Sweden)

    Meghana Deepak Shirke

    Full Text Available Blast disease caused by the Magnaporthe species is a major factor affecting the productivity of rice, wheat and millets. This study was aimed at generating genomic information for rice and non-rice Magnaporthe isolates to understand the extent of genetic variation. We have sequenced the whole genome of the Magnaporthe isolates, infecting rice (leaf and neck, finger millet (leaf and neck, foxtail millet (leaf and buffel grass (leaf. Rice and finger millet isolates infecting both leaf and neck tissues were sequenced, since the damage and yield loss caused due to neck blast is much higher as compared to leaf blast. The genome-wide comparison was carried out to study the variability in gene content, candidate effectors, repeat element distribution, genes involved in carbohydrate metabolism and SNPs. The analysis of repeat element footprints revealed some genes such as naringenin, 2-oxoglutarate 3-dioxygenase being targeted by Pot2 and Occan, in isolates from different host species. Some repeat insertions were host-specific while other insertions were randomly shared between isolates. The distributions of repeat elements, secretory proteins, CAZymes and SNPs showed significant variation across host-specific lineages of Magnaporthe indicating an independent genome evolution orchestrated by multiple genomic factors.

  5. ChickVD: a sequence variation database for the chicken genome

    DEFF Research Database (Denmark)

    Wang, Jing; He, Ximiao; Ruan, Jue

    2005-01-01

    Working in parallel with the efforts to sequence the chicken (Gallus gallus) genome, the Beijing Genomics Institute led an international team of scientists from China, USA, UK, Sweden, The Netherlands and Germany to map extensive DNA sequence variation throughout the chicken genome by sampling DN...... on quantitative trait loci using data from collaborating institutions and public resources. Our data can be queried by search engine and homology-based BLAST searches. ChickVD is publicly accessible at http://chicken.genomics.org.cn. Udgivelsesdato: 2005-Jan-1...

  6. GapBlaster-A Graphical Gap Filler for Prokaryote Genomes.

    Directory of Open Access Journals (Sweden)

    Pablo H C G de Sá

    Full Text Available The advent of NGS (Next Generation Sequencing technologies has resulted in an exponential increase in the number of complete genomes available in biological databases. This advance has allowed the development of several computational tools enabling analyses of large amounts of data in each of the various steps, from processing and quality filtering to gap filling and manual curation. The tools developed for gap closure are very useful as they result in more complete genomes, which will influence downstream analyses of genomic plasticity and comparative genomics. However, the gap filling step remains a challenge for genome assembly, often requiring manual intervention. Here, we present GapBlaster, a graphical application to evaluate and close gaps. GapBlaster was developed via Java programming language. The software uses contigs obtained in the assembly of the genome to perform an alignment against a draft of the genome/scaffold, using BLAST or Mummer to close gaps. Then, all identified alignments of contigs that extend through the gaps in the draft sequence are presented to the user for further evaluation via the GapBlaster graphical interface. GapBlaster presents significant results compared to other similar software and has the advantage of offering a graphical interface for manual curation of the gaps. GapBlaster program, the user guide and the test datasets are freely available at https://sourceforge.net/projects/gapblaster2015/. It requires Sun JDK 8 and Blast or Mummer.

  7. CrisprGE: a central hub of CRISPR/Cas-based genome editing.

    Science.gov (United States)

    Kaur, Karambir; Tandon, Himani; Gupta, Amit Kumar; Kumar, Manoj

    2015-01-01

    CRISPR system is a powerful defense mechanism in bacteria and archaea to provide immunity against viruses. Recently, this process found a new application in intended targeting of the genomes. CRISPR-mediated genome editing is performed by two main components namely single guide RNA and Cas9 protein. Despite the enormous data generated in this area, there is a dearth of high throughput resource. Therefore, we have developed CrisprGE, a central hub of CRISPR/Cas-based genome editing. Presently, this database holds a total of 4680 entries of 223 unique genes from 32 model and other organisms. It encompasses information about the organism, gene, target gene sequences, genetic modification, modifications length, genome editing efficiency, cell line, assay, etc. This depository is developed using the open source LAMP (Linux Apache MYSQL PHP) server. User-friendly browsing, searching facility is integrated for easy data retrieval. It also includes useful tools like BLAST CrisprGE, BLAST NTdb and CRISPR Mapper. Considering potential utilities of CRISPR in the vast area of biology and therapeutics, we foresee this platform as an assistance to accelerate research in the burgeoning field of genome engineering. © The Author(s) 2015. Published by Oxford University Press.

  8. Chloroplast-expressed MSI-99 in tobacco improves disease resistance and displays inhibitory effect against rice blast fungus.

    Science.gov (United States)

    Wang, Yun-Peng; Wei, Zheng-Yi; Zhang, Yu-Ying; Lin, Chun-Jing; Zhong, Xiao-Fang; Wang, Yue-Lin; Ma, Jing-Yong; Ma, Jian; Xing, Shao-Chen

    2015-03-02

    Rice blast is a major destructive fungal disease that poses a serious threat to rice production and the improvement of blast resistance is critical to rice breeding. The antimicrobial peptide MSI-99 has been suggested as an antimicrobial peptide conferring resistance to bacterial and fungal diseases. Here, a vector harboring the MSI-99 gene was constructed and introduced into the tobacco chloroplast genome via particle bombardment. Transformed plants were obtained and verified to be homoplastomic by PCR and Southern hybridization. In planta assays demonstrated that the transgenic tobacco plants displayed an enhanced resistance to the fungal disease. The evaluation of the antimicrobial activity revealed that the crude protein extracts from the transgenic plants manifested an antimicrobial activity against E. coli, even after incubation at 120 °C for 20 min, indicating significant heat stability of MSI-99. More importantly, the MSI-99-containing protein extracts were firstly proved in vitro and in vivo to display significant suppressive effects on two rice blast isolates. These findings provide a strong basis for the development of new biopesticides to combat rice blast.

  9. Chloroplast-Expressed MSI-99 in Tobacco Improves Disease Resistance and Displays Inhibitory Effect against Rice Blast Fungus

    Directory of Open Access Journals (Sweden)

    Yun-Peng Wang

    2015-03-01

    Full Text Available Rice blast is a major destructive fungal disease that poses a serious threat to rice production and the improvement of blast resistance is critical to rice breeding. The antimicrobial peptide MSI-99 has been suggested as an antimicrobial peptide conferring resistance to bacterial and fungal diseases. Here, a vector harboring the MSI-99 gene was constructed and introduced into the tobacco chloroplast genome via particle bombardment. Transformed plants were obtained and verified to be homoplastomic by PCR and Southern hybridization. In planta assays demonstrated that the transgenic tobacco plants displayed an enhanced resistance to the fungal disease. The evaluation of the antimicrobial activity revealed that the crude protein extracts from the transgenic plants manifested an antimicrobial activity against E. coli, even after incubation at 120 °C for 20 min, indicating significant heat stability of MSI-99. More importantly, the MSI-99-containing protein extracts were firstly proved in vitro and in vivo to display significant suppressive effects on two rice blast isolates. These findings provide a strong basis for the development of new biopesticides to combat rice blast.

  10. Marker-assisted introgression of broad-spectrum blast resistance genes into the cultivated MR219 rice variety.

    Science.gov (United States)

    Miah, Gous; Rafii, Mohd Y; Ismail, Mohd R; Puteh, Adam B; Rahim, Harun A; Latif, Mohammad A

    2017-07-01

    The rice cultivar MR219 is famous for its better yield and long and fine grain quality; however, it is susceptible to blast disease. The main objective of this study was to introgress blast resistance genes into MR219 through marker-assisted selection (MAS). The rice cultivar MR219 was used as the recurrent parent, and Pongsu Seribu 1 was used as the donor. Marker-assisted foreground selection was performed using RM6836 and RM8225 to identify plants possessing blast resistance genes. Seventy microsatellite markers were used to estimate recurrent parent genome (RPG) recovery. Our analysis led to the development of 13 improved blast resistant lines with Piz, Pi2 and Pi9 broad-spectrum blast resistance genes and an MR219 genetic background. The RPG recovery of the selected improved lines was up to 97.70% with an average value of 95.98%. Selected improved lines showed a resistance response against the most virulent blast pathogen pathotype, P7.2. The selected improved lines did not express any negative effect on agronomic traits in comparison with MR219. The research findings of this study will be a conducive approach for the application of different molecular techniques that may result in accelerating the development of new disease-resistant rice varieties, which in turn will match rising demand and food security worldwide. © 2016 Society of Chemical Industry. © 2016 Society of Chemical Industry.

  11. Damage Curves of a Nuclear Reactor Structure exposed to Air Blast Loading

    International Nuclear Information System (INIS)

    Brandys, I.; Ornai, D.; Ronen, Y.

    2014-01-01

    Nuclear Power Plant (NPP) radiological hazards due to accidental failure or deliberated attacks are of most concern due to their destructive and global consequences: large area contaminations, injuries, exposure to ionizing radiation (which can cause death or illness, depends on the levels of exposure), loss of lives of both humans and animals, and severe damage to the environment. Prevention of such consequences is of a global importance and it has led to the definition of safety & design guidelines, and regulations by various authorities such as IAEA, U.S. NRC, etc. The guidelines define general requirements for the integrity of a NPP’s physical barriers (such as protective walls) when challenged by external events, for example human induced explosion. A more specific relation to the design of a NPP is that its structures and equipment (reactor building, fuel building, safeguards building, diesel-generator building, pumping station, nuclear auxiliaries building, and effluent treatment building) must function properly: shutdown the reactor, removal of decayed heat, storage of spent fuel, and treatment and containment of radioactive effluents) under external explosion. It requires that the NPP’s structures and equipment resistance to external explosion should be analyzed and verified. The air blast loading created by external explosion, as well as its effects & consequences on different kinds of structures are described in the literature. Structural elements response to the air blast can be analyzed in general by a Single Degree of Freedom (SDOF) system that converts a distributed mass, loads, and resistance to concentrated mass, force, and stiffness located at a representative point of the structure's element where the displacements are the highest one. Proper shielding should be designed if the explosion blast effects are greater than the resistance capacity.External explosion effects should be considered within the Screening Distance Value (SDV) of the NPP

  12. AGORA : Organellar genome annotation from the amino acid and nucleotide references.

    Science.gov (United States)

    Jung, Jaehee; Kim, Jong Im; Jeong, Young-Sik; Yi, Gangman

    2018-03-29

    Next-generation sequencing (NGS) technologies have led to the accumulation of highthroughput sequence data from various organisms in biology. To apply gene annotation of organellar genomes for various organisms, more optimized tools for functional gene annotation are required. Almost all gene annotation tools are mainly focused on the chloroplast genome of land plants or the mitochondrial genome of animals.We have developed a web application AGORA for the fast, user-friendly, and improved annotations of organellar genomes. AGORA annotates genes based on a BLAST-based homology search and clustering with selected reference sequences from the NCBI database or user-defined uploaded data. AGORA can annotate the functional genes in almost all mitochondrion and plastid genomes of eukaryotes. The gene annotation of a genome with an exon-intron structure within a gene or inverted repeat region is also available. It provides information of start and end positions of each gene, BLAST results compared with the reference sequence, and visualization of gene map by OGDRAW. Users can freely use the software, and the accessible URL is https://bigdata.dongguk.edu/gene_project/AGORA/.The main module of the tool is implemented by the python and php, and the web page is built by the HTML and CSS to support all browsers. gangman@dongguk.edu.

  13. Blasting agents and initiation systems

    Energy Technology Data Exchange (ETDEWEB)

    Fiscor, S.

    2000-01-01

    Although blasting differs between and within each industry, as a whole, the mines and quarries are making a shift from a purely ammonium nitrate/fuel oil (ANFO) mixture to a blend of emulsion and ANFO on a straight emulsion. Non-electric (shock tube) initiation systems have provided a viable alternative to the electric detonator (blasting cap). Explosives manufacturers are seeing their roles changes to being blasting contractors or consultants rather than just suppliers. The article discusses these trends and gives examples of typical blasting techniques and amounts of blasting agent used at large USA surface coal mines. Electric caps are still used in blasting underground coal. The Ensign Bickford Co. (EBCo) is developing electronic detonators and has been field testing an electronic initiator, the DIGIDET detonator, for the last four years. When commercially available, electronic detonators will be accurate but will come with a hefty price tag. 2 photos.

  14. Low-cost blast wave generator for studies of hearing loss and brain injury: blast wave effects in closed spaces.

    Science.gov (United States)

    Newman, Andrew J; Hayes, Sarah H; Rao, Abhiram S; Allman, Brian L; Manohar, Senthilvelan; Ding, Dalian; Stolzberg, Daniel; Lobarinas, Edward; Mollendorf, Joseph C; Salvi, Richard

    2015-03-15

    Military personnel and civilians living in areas of armed conflict have increased risk of exposure to blast overpressures that can cause significant hearing loss and/or brain injury. The equipment used to simulate comparable blast overpressures in animal models within laboratory settings is typically very large and prohibitively expensive. To overcome the fiscal and space limitations introduced by previously reported blast wave generators, we developed a compact, low-cost blast wave generator to investigate the effects of blast exposures on the auditory system and brain. The blast wave generator was constructed largely from off the shelf components, and reliably produced blasts with peak sound pressures of up to 198dB SPL (159.3kPa) that were qualitatively similar to those produced from muzzle blasts or explosions. Exposure of adult rats to 3 blasts of 188dB peak SPL (50.4kPa) resulted in significant loss of cochlear hair cells, reduced outer hair cell function and a decrease in neurogenesis in the hippocampus. Existing blast wave generators are typically large, expensive, and are not commercially available. The blast wave generator reported here provides a low-cost method of generating blast waves in a typical laboratory setting. This compact blast wave generator provides scientists with a low cost device for investigating the biological mechanisms involved in blast wave injury to the rodent cochlea and brain that may model many of the damaging effects sustained by military personnel and civilians exposed to intense blasts. Copyright © 2015 Elsevier B.V. All rights reserved.

  15. Drilling and blasting parameters in sublevel caving in Sheregesh mine

    Science.gov (United States)

    Eremenko, AA; Filippov, VN; Konurin, AI; Khmelinin, AP; Baryshnikov, DV; Khristolyubov, EA

    2018-03-01

    The factors that influence geomechanical state of rock mass in Sheregesh Mine are determined. The authors discuss a variant of geotechnology with fan drilling. The drill-hole patterns and drilling-and-blasting parameters are presented. The revealed causes of low-quality fragmentation of rocks include the presence of closed and open fractures at different distances from drill-hole mouths, both in case of rings and fans, as well as the blocking of drill-holes with rocks.

  16. Investigation of genome sequences within the family Pasteurellaceae

    DEFF Research Database (Denmark)

    Angen, Øystein; Ussery, David

    Introduction The bacterial genome sequences are now available for an increasing number of strains within the family Pasteurellaceae. At present, 24 Pasteurellaceae genomes are publicly available through internet databases, and another 40 genomes are being sequenced. This investigation will describe...... the core genome for both the family Pasteurellaceae and for the species Haemophilus influenzae. Methods Twenty genome sequences from the following species were included: Haemophilus influenzae (11 strains), Haemophilus ducreyi (1 strain), Histophilus somni (2 strains), Haemophilus parasuis (1 strain......), Actinobacillus pleuropneumoniae (2 strains), Actinobacillus succinogenes (1 strain), Mannheimia succiniciproducens (1 strain), and Pasteurella multocida (1 strain). The predicted proteins for each genome were BLASTed against each other, and a set of conserved core gene families was determined as described...

  17. Fragment Size Distribution of Blasted Rock Mass

    Science.gov (United States)

    Jug, Jasmin; Strelec, Stjepan; Gazdek, Mario; Kavur, Boris

    2017-12-01

    Rock mass is a heterogeneous material, and the heterogeneity of rock causes sizes distribution of fragmented rocks in blasting. Prediction of blasted rock mass fragmentation has a significant role in the overall economics of opencast mines. Blasting as primary fragmentation can significantly decrease the cost of loading, transport, crushing and milling operations. Blast fragmentation chiefly depends on the specific blast design (geometry of blast holes drilling, the quantity and class of explosive, the blasting form, the timing and partition, etc.) and on the properties of the rock mass (including the uniaxial compressive strength, the rock mass elastic Young modulus, the rock discontinuity characteristics and the rock density). Prediction and processing of blasting results researchers can accomplish by a variety of existing software’s and models, one of them is the Kuz-Ram model, which is possibly the most widely used approach to estimating fragmentation from blasting. This paper shows the estimation of fragmentation using the "SB" program, which was created by the authors. Mentioned program includes the Kuz-Ram model. Models of fragmentation are confirmed and calibrated by comparing the estimated fragmentation with actual post-blast fragmentation from image processing techniques. In this study, the Kuz-Ram fragmentation model has been used for an open-pit limestone quarry in Dalmatia, southern Croatia. The resulting calibrated value of the rock factor enables the quality prognosis of fragmentation in further blasting works, with changed drilling geometry and blast design parameters. It also facilitates simulation in the program to optimize blasting works and get the desired fragmentations of the blasted rock mass.

  18. DYNAMIC TIME HISTORY ANALYSIS OF BLAST RESISTANT DOOR USING BLAST LOAD MODELED AS IMPACT LOAD

    Directory of Open Access Journals (Sweden)

    Y. A. Pranata

    2012-06-01

    Full Text Available A blast resistant single door was designed to withstand a 0.91 bar blast pressure and 44 ms blast duration. The analysis was done using Dynamic Time History Analysis using Blast Load modeled as Impact Load for given duration. The material properties used have been modified to accommodate dynamic effects. The analysis was done using dynamic finite element method (fem for time of the blast duration, and the maximum/minimum internal forces and displacement were taken from the time history output, in order to know the behavior under blast load and estimate the safety margin of the door. Results obtained from this research indicated that the maximum z-displacement is 1.709 mm, while in the term of serviceability, the permitted is 25 mm. The maximum reaction force is 73,960 N, while the maximum anchor capacity is 82,069 N. On blast condition, the maximum frame stress is 71.71 MPa, the maximum hinge shear stress is 45.28 MPa. While on rebound condition, the maximum frame stress is 172.11 MPa, the maximum hinge shear stress is 29.46 MPa. The maximum door edge rotation is 0.44 degree, which is not exceed the permitted boundary (1.2 degree. Keywords: Dynamic time history, blast resistant door, single door, finite element method.

  19. HIGH PRODUCTIVITY VACUUM BLASTING SYSTEM

    International Nuclear Information System (INIS)

    McPhee, William S.

    1999-01-01

    The objective of this project is to improve the productivity and lower the expense of existing vacuum blasting technology. This technology is used to remove radioactive contamination, PCBs, and lead-based paint and provides worker protection by continuously recycling the material and dust for the decontamination tasks. The proposed work would increase the cleaning rate and provide safe and cost-effective decontamination of the DOE sites. This work focuses on redesigning and improving existing vacuum blasting technology including blast head nozzles, ergonomic handling of the blast head by reducing its weight; brush-ring design, vacuum level regulator, efficiency of the dust separator, and operational control sensors. The redesign is expected to enhance the productivity and economy of the vacuum blasting system by at least 50% over current vacuum blasting systems. There are three phases in the project. Phase I consists of developing and testing mathematical models. Phase II consists of pre-prototype design and fabrication and pre-prototype unit testing. Phase III consists of prototype design and field verification testing. In phase I, mathematical models are developed and analyzed for the nozzle, blast head, wind curtain, and dust separator, first as individual devices and then combined as an integrated model. This allows study of respective airflow and design parameters. The Contractor shall, based on the results of the mathematical modeling studies, design experimental models of the components and test these models. In addition, the Contractor shall develop sensors to detect the relationship of the blast head to the blast surfaces and controls to minimize the dependency on an operator's skill and judgment to obtain optimum positioning, as well as real-time characterization sensors to determine as the blast head is moving the depth to which coatings must be removed, thereby improving production and minimizing waste. In phase II, the Contractor shall design and

  20. Improving scaling methods to estimate eruption energies from volcanic crater structures using blast experiments

    Science.gov (United States)

    Sonder, I.; Graettinger, A. H.; Valentine, G.; Schmid, A.; Zimanowski, B.; Majji, M.; Ross, P.; White, J. D.; Taddeucci, J.; Lube, G.; Kueppers, U.; Bowman, D. C.

    2013-12-01

    In an ongoing effort to understand the relevant processes behind the formation of volcanic crater-, maar-, and diatreme structures, experiments producing craters with radii exceeding one meter were conducted at University at Buffalos Geohazards Field Station. A chemical explosive was used as energy source for the tests, and detonated in prepared test beds made from several stratified, compacted aggregates. The amount of explosive, as well as its depth of burial were varied in the twelve experiments. The detonations were recorded by a diverse set of sensors including high-speed/high-definition cameras, seismic and electric field sensors, normal- and infrasound microphones. Morphology and structures were documented after each blast by manual measurements and semi-automated photogrammetry. After all blasts were complete the structures excavated and analyzed. The measured sensor signals were evaluated and related to blast energies, depths of burial and crater morphologies. Former experiments e.g. performed by Goto et al. (2001; Geophys. Res. Lett. 28, 4287-4290) considered craters of single blasts at a given lateral position and found empirical relationships emphasizing the importance of length scaling with the cube root of the blasts energy E. For example the depth of burial producing the largest crater radius--the ';optimal' depth--is proportional to E1/3, as is the corresponding radius. Resembling natural processes creating crater and diatreme structures the experiments performed here feature several blasts at one lateral position. The dependencies on E1/3 could be roughly confirmed. Also the scaled depth correlated with the sensor signals capturing the blasts dynamics. However, significant scatter was introduced by the pre-existing morphologies. Using a suitable re-definition for the charges depth of burial (';eruption depth'), accounting for a pre-existing (crater) morphology, the measured dependencies of morphology and blast dynamics on E can be improved

  1. Blast-induced traumatic brain injury: a new trend of blast injury research.

    Science.gov (United States)

    Zhao, Yan; Wang, Zheng-Guo

    2015-01-01

    Blast injury has become the major life- and function-threatening injuries in recent warfares. There is increased research interest in the mental disorders caused by blast-induced traumatic brain injury (bTBI), which has been proved as one of the "signature wounds" in modern battlefield. We reviewed the recent progresses in bTBI-related researches and concluded that the new era of blast injury research has shifted from the traditional physical impairments to cognitive dysfunctional/mental disorders that are proved to be more related to the outcome of combat casualty care.

  2. A Secure Web Application Providing Public Access to High-Performance Data Intensive Scientific Resources - ScalaBLAST Web Application

    International Nuclear Information System (INIS)

    Curtis, Darren S.; Peterson, Elena S.; Oehmen, Chris S.

    2008-01-01

    This work presents the ScalaBLAST Web Application (SWA), a web based application implemented using the PHP script language, MySQL DBMS, and Apache web server under a GNU/Linux platform. SWA is an application built as part of the Data Intensive Computer for Complex Biological Systems (DICCBS) project at the Pacific Northwest National Laboratory (PNNL). SWA delivers accelerated throughput of bioinformatics analysis via high-performance computing through a convenient, easy-to-use web interface. This approach greatly enhances emerging fields of study in biology such as ontology-based homology, and multiple whole genome comparisons which, in the absence of a tool like SWA, require a heroic effort to overcome the computational bottleneck associated with genome analysis. The current version of SWA includes a user account management system, a web based user interface, and a backend process that generates the files necessary for the Internet scientific community to submit a ScalaBLAST parallel processing job on a dedicated cluster

  3. Comparison of methods for genomic localization of gene trap sequences

    Directory of Open Access Journals (Sweden)

    Ferrin Thomas E

    2006-09-01

    Full Text Available Abstract Background Gene knockouts in a model organism such as mouse provide a valuable resource for the study of basic biology and human disease. Determining which gene has been inactivated by an untargeted gene trapping event poses a challenging annotation problem because gene trap sequence tags, which represent sequence near the vector insertion site of a trapped gene, are typically short and often contain unresolved residues. To understand better the localization of these sequences on the mouse genome, we compared stand-alone versions of the alignment programs BLAT, SSAHA, and MegaBLAST. A set of 3,369 sequence tags was aligned to build 34 of the mouse genome using default parameters for each algorithm. Known genome coordinates for the cognate set of full-length genes (1,659 sequences were used to evaluate localization results. Results In general, all three programs performed well in terms of localizing sequences to a general region of the genome, with only relatively subtle errors identified for a small proportion of the sequence tags. However, large differences in performance were noted with regard to correctly identifying exon boundaries. BLAT correctly identified the vast majority of exon boundaries, while SSAHA and MegaBLAST missed the majority of exon boundaries. SSAHA consistently reported the fewest false positives and is the fastest algorithm. MegaBLAST was comparable to BLAT in speed, but was the most susceptible to localizing sequence tags incorrectly to pseudogenes. Conclusion The differences in performance for sequence tags and full-length reference sequences were surprisingly small. Characteristic variations in localization results for each program were noted that affect the localization of sequence at exon boundaries, in particular.

  4. Gene Discovery through Genomic Sequencing of Brucella abortus

    OpenAIRE

    Sánchez, Daniel O.; Zandomeni, Ruben O.; Cravero, Silvio; Verdún, Ramiro E.; Pierrou, Ester; Faccio, Paula; Diaz, Gabriela; Lanzavecchia, Silvia; Agüero, Fernán; Frasch, Alberto C. C.; Andersson, Siv G. E.; Rossetti, Osvaldo L.; Grau, Oscar; Ugalde, Rodolfo A.

    2001-01-01

    Brucella abortus is the etiological agent of brucellosis, a disease that affects bovines and human. We generated DNA random sequences from the genome of B. abortus strain 2308 in order to characterize molecular targets that might be useful for developing immunological or chemotherapeutic strategies against this pathogen. The partial sequencing of 1,899 clones allowed the identification of 1,199 genomic sequence surveys (GSSs) with high homology (BLAST expect value < 10−5) to sequences deposit...

  5. Blast management

    OpenAIRE

    Shouraki, Mohammad Kargar; Naserkheil, Ali Asghar

    2011-01-01

    Blast Management (BM) is composed of the combination of human resources management (HRM) principles and concepts and various methods of quality management (QM) with a financial approach. BM is made up of three aspects: hard, soft and concept and BLAST means an explosive shift in organization's mindset and thought and rapid action against it. The first aspect, hard, includes a set of managerial toots and philosophies to improve the quality and productivity with a financial approach.

  6. Genome-wide identification of specific oligonucleotides using artificial neural network and computational genomic analysis

    Directory of Open Access Journals (Sweden)

    Chen Jiun-Ching

    2007-05-01

    Full Text Available Abstract Background Genome-wide identification of specific oligonucleotides (oligos is a computationally-intensive task and is a requirement for designing microarray probes, primers, and siRNAs. An artificial neural network (ANN is a machine learning technique that can effectively process complex and high noise data. Here, ANNs are applied to process the unique subsequence distribution for prediction of specific oligos. Results We present a novel and efficient algorithm, named the integration of ANN and BLAST (IAB algorithm, to identify specific oligos. We establish the unique marker database for human and rat gene index databases using the hash table algorithm. We then create the input vectors, via the unique marker database, to train and test the ANN. The trained ANN predicted the specific oligos with high efficiency, and these oligos were subsequently verified by BLAST. To improve the prediction performance, the ANN over-fitting issue was avoided by early stopping with the best observed error and a k-fold validation was also applied. The performance of the IAB algorithm was about 5.2, 7.1, and 6.7 times faster than the BLAST search without ANN for experimental results of 70-mer, 50-mer, and 25-mer specific oligos, respectively. In addition, the results of polymerase chain reactions showed that the primers predicted by the IAB algorithm could specifically amplify the corresponding genes. The IAB algorithm has been integrated into a previously published comprehensive web server to support microarray analysis and genome-wide iterative enrichment analysis, through which users can identify a group of desired genes and then discover the specific oligos of these genes. Conclusion The IAB algorithm has been developed to construct SpecificDB, a web server that provides a specific and valid oligo database of the probe, siRNA, and primer design for the human genome. We also demonstrate the ability of the IAB algorithm to predict specific oligos through

  7. Distinguishing Realistic Military Blasts from Firecrackers in Mitigation Studies of Blast Induced Traumatic Brain Injury

    Energy Technology Data Exchange (ETDEWEB)

    Moss, W C; King, M J; Blackman, E G

    2011-01-21

    In their Contributed Article, Nyein et al. (1,2) present numerical simulations of blast waves interacting with a helmeted head and conclude that a face shield may significantly mitigate blast induced traumatic brain injury (TBI). A face shield may indeed be important for future military helmets, but the authors derive their conclusions from a much smaller explosion than typically experienced on the battlefield. The blast from the 3.16 gm TNT charge of (1) has the following approximate peak overpressures, positive phase durations, and incident impulses (3): 10 atm, 0.25 ms, and 3.9 psi-ms at the front of the head (14 cm from charge), and 1.4 atm, 0.32 ms, and 1.7 psi-ms at the back of a typical 20 cm head (34 cm from charge). The peak pressure of the wave decreases by a factor of 7 as it traverses the head. The blast conditions are at the threshold for injury at the front of the head, but well below threshold at the back of the head (4). The blast traverses the head in 0.3 ms, roughly equal to the positive phase duration of the blast. Therefore, when the blast reaches the back of the head, near ambient conditions exist at the front. Because the headform is so close to the charge, it experiences a wave with significant curvature. By contrast, a realistic blast from a 2.2 kg TNT charge ({approx} an uncased 105 mm artillery round) is fatal at an overpressure of 10 atm (4). For an injury level (4) similar to (1), a 2.2 kg charge has the following approximate peak overpressures, positive phase durations, and incident impulses (3): 2.1 atm, 2.3 ms, and 18 psi-ms at the front of the head (250 cm from charge), and 1.8 atm, 2.5 ms, and 16.8 psi-ms at the back of the head (270 cm from charge). The peak pressure decreases by only a factor of 1.2 as it traverses the head. Because the 0.36 ms traversal time is much smaller than the positive phase duration, pressures on the head become relatively uniform when the blast reaches the back of the head. The larger standoff implies

  8. FastBLAST: homology relationships for millions of proteins.

    Directory of Open Access Journals (Sweden)

    Morgan N Price

    Full Text Available BACKGROUND: All-versus-all BLAST, which searches for homologous pairs of sequences in a database of proteins, is used to identify potential orthologs, to find new protein families, and to provide rapid access to these homology relationships. As DNA sequencing accelerates and data sets grow, all-versus-all BLAST has become computationally demanding. METHODOLOGY/PRINCIPAL FINDINGS: We present FastBLAST, a heuristic replacement for all-versus-all BLAST that relies on alignments of proteins to known families, obtained from tools such as PSI-BLAST and HMMer. FastBLAST avoids most of the work of all-versus-all BLAST by taking advantage of these alignments and by clustering similar sequences. FastBLAST runs in two stages: the first stage identifies additional families and aligns them, and the second stage quickly identifies the homologs of a query sequence, based on the alignments of the families, before generating pairwise alignments. On 6.53 million proteins from the non-redundant Genbank database ("NR", FastBLAST identifies new families 25 times faster than all-versus-all BLAST. Once the first stage is completed, FastBLAST identifies homologs for the average query in less than 5 seconds (8.6 times faster than BLAST and gives nearly identical results. For hits above 70 bits, FastBLAST identifies 98% of the top 3,250 hits per query. CONCLUSIONS/SIGNIFICANCE: FastBLAST enables research groups that do not have supercomputers to analyze large protein sequence data sets. FastBLAST is open source software and is available at http://microbesonline.org/fastblast.

  9. The use of computer blast simulations to improve blast quality

    International Nuclear Information System (INIS)

    Favreau, R.F.; Kuzzyk, G.W.; Babulic, P.J.; Morin, R.A.; Tienkamp, N.J.

    1987-01-01

    An underground research laboratory (URL) has been constructed as part of a comprehensive program to evaluate the concept of nuclear fuel waste disposal in deep crystalline rock formations. Careful blasting methods have been used to minimize damage to the excavation surfaces. This paper reviews the results of the program to develop controlled blasting for the full-face method, comparing the field observed results achieved with the simulated theoretical results. The simulated results indicate how the blasting may damage the excavation surface. Results suggest that the rock around the final wall is stressed more severely by the cushion holes than by the perimeter holes and that bootleg of the rock between the perimeter and cushion rows occurs when the burst-out velocity imparted to it by the explosive loads in the perimeter holes is inadequate

  10. The catfish genome database cBARBEL: an informatic platform for genome biology of ictalurid catfish.

    Science.gov (United States)

    Lu, Jianguo; Peatman, Eric; Yang, Qing; Wang, Shaolin; Hu, Zhiliang; Reecy, James; Kucuktas, Huseyin; Liu, Zhanjiang

    2011-01-01

    The catfish genome database, cBARBEL (abbreviated from catfish Breeder And Researcher Bioinformatics Entry Location) is an online open-access database for genome biology of ictalurid catfish (Ictalurus spp.). It serves as a comprehensive, integrative platform for all aspects of catfish genetics, genomics and related data resources. cBARBEL provides BLAST-based, fuzzy and specific search functions, visualization of catfish linkage, physical and integrated maps, a catfish EST contig viewer with SNP information overlay, and GBrowse-based organization of catfish genomic data based on sequence similarity with zebrafish chromosomes. Subsections of the database are tightly related, allowing a user with a sequence or search string of interest to navigate seamlessly from one area to another. As catfish genome sequencing proceeds and ongoing quantitative trait loci (QTL) projects bear fruit, cBARBEL will allow rapid data integration and dissemination within the catfish research community and to interested stakeholders. cBARBEL can be accessed at http://catfishgenome.org.

  11. 30 CFR 780.13 - Operation plan: Blasting.

    Science.gov (United States)

    2010-07-01

    ... 30 Mineral Resources 3 2010-07-01 2010-07-01 false Operation plan: Blasting. 780.13 Section 780.13... SURFACE MINING PERMIT APPLICATIONS-MINIMUM REQUIREMENTS FOR RECLAMATION AND OPERATION PLAN § 780.13 Operation plan: Blasting. (a) Blasting plan. Each application shall contain a blasting plan for the proposed...

  12. Control blasting of reinforced concrete

    International Nuclear Information System (INIS)

    Nagase, Tetsuo

    1981-01-01

    With the need of decommissioning nuclear power plants, it is urgently required to establish its methods and standards. In Shimizu Construction Co., Ltd., experimental feasibility studies have been made on explosive demolition method i.e. the controlled blasting for the massive concrete structures peculiar to nuclear power plants, considering low radiation exposure, safety and high efficiency. As such, four techniques of line drilling, cushion blasting, pre-splitting and guide hole blasting, respectively, are described with photographs. Assuming the selective demolition of activated concrete structures, the series of experiments showed the good results of clear-cut surfaces and the effect of blasting was confined properly. Moreover, the scattering of debris in blasting was able to be entirely prevented by the use of rubber belts. The generation of gas and dust was also little due to the small amount of the charge used. (J.P.N.)

  13. Water-Depth-Based Prediction Formula for the Blasting Vibration Velocity of Lighthouse Caused by Underwater Drilling Blasting

    Directory of Open Access Journals (Sweden)

    Wenbin Gu

    2017-01-01

    Full Text Available Lighthouses are the most important hydraulic structures that should be protected during underwater drilling blasting. Thus, the effect of blasting vibration on lighthouse should be studied. On the basis of the dimensional analysis, we deduced a revised formula for water depth based on Sodev’s empirical formula and established the linear fitting model. During the underwater reef project in the main channel of Shipu Harbor in the Ningbo–Zhoushan Port, the blasting vibration data of the lighthouse near the underwater blasting area were monitored. The undetermined coefficient, resolvable coefficient, and F value of the two formulas were then obtained. The comparison of the data obtained from the two formulas showed that they can effectively predict the blasting vibration on the lighthouse. The correction formula that considers water depth can obviously reduce prediction errors and accurately predict blasting vibration.

  14. Consideration on local blast vibration control by delay blasting; Danpatsu happa ni yoru kyokuchiteki shindo seigyo ni kansuru ichikosatsu

    Energy Technology Data Exchange (ETDEWEB)

    Mogi, Gento; Adachi, Tsuyoshi; Yamatomi, Jiro [The University of Tokyo School of Engineering Department of Geosystem Engineering, Tokyo (Japan); Hoshino, Tatsuya [Mitsui Mining and Smelting Corp., Tokyo (Japan)

    1999-10-31

    In this research, local blast vibration control based on the theory of superposition of waves was investigated. Firstly, the influence of delay time errors of conventional electric detonators upon the level of local blast vibration was examined. Secondly, for a further effective local blast vibration control, a new delay blasting design concept 'combined delay blasting' that postulates the use of electronic detonators, which virtually have no delay time errors, is proposed. For a delay blasting with uniform detonation time intervals, an optimum time interval to minimize the local PPV (Peak Particle Velocity) is obtained based on the relationship between the PPV and the time interval, which is derived by superposing identical vibration time histories of each single hole shot. However, due to the scattering of the actual delay time caused by errors, PPV of a production blast seldom coincides with the estimated one. Since the expected value and the variance of PPV mainly depend on sensitivity of PPV around the nominal delay time, it is proposed that not only the optimum but also several sub-optimum candidates of delay time should be examined taking error into consideration. Concerning the 'combined delay blasting', its concept and some simulation results are presented. The estimated reduction effect of blast vibration of a delay blast based on this concept was quite favorable, indicating a possibility for further effective local blast vibration control. (author)

  15. Genome signature analysis of thermal virus metagenomes reveals Archaea and thermophilic signatures.

    Science.gov (United States)

    Pride, David T; Schoenfeld, Thomas

    2008-09-17

    Metagenomic analysis provides a rich source of biological information for otherwise intractable viral communities. However, study of viral metagenomes has been hampered by its nearly complete reliance on BLAST algorithms for identification of DNA sequences. We sought to develop algorithms for examination of viral metagenomes to identify the origin of sequences independent of BLAST algorithms. We chose viral metagenomes obtained from two hot springs, Bear Paw and Octopus, in Yellowstone National Park, as they represent simple microbial populations where comparatively large contigs were obtained. Thermal spring metagenomes have high proportions of sequences without significant Genbank homology, which has hampered identification of viruses and their linkage with hosts. To analyze each metagenome, we developed a method to classify DNA fragments using genome signature-based phylogenetic classification (GSPC), where metagenomic fragments are compared to a database of oligonucleotide signatures for all previously sequenced Bacteria, Archaea, and viruses. From both Bear Paw and Octopus hot springs, each assembled contig had more similarity to other metagenome contigs than to any sequenced microbial genome based on GSPC analysis, suggesting a genome signature common to each of these extreme environments. While viral metagenomes from Bear Paw and Octopus share some similarity, the genome signatures from each locale are largely unique. GSPC using a microbial database predicts most of the Octopus metagenome has archaeal signatures, while bacterial signatures predominate in Bear Paw; a finding consistent with those of Genbank BLAST. When using a viral database, the majority of the Octopus metagenome is predicted to belong to archaeal virus Families Globuloviridae and Fuselloviridae, while none of the Bear Paw metagenome is predicted to belong to archaeal viruses. As expected, when microbial and viral databases are combined, each of the Octopus and Bear Paw metagenomic contigs

  16. Real-Time Pathogen Detection in the Era of Whole-Genome Sequencing and Big Data: Comparison of k-mer and Site-Based Methods for Inferring the Genetic Distances among Tens of Thousands of Salmonella Samples.

    Science.gov (United States)

    Pettengill, James B; Pightling, Arthur W; Baugher, Joseph D; Rand, Hugh; Strain, Errol

    2016-01-01

    The adoption of whole-genome sequencing within the public health realm for molecular characterization of bacterial pathogens has been followed by an increased emphasis on real-time detection of emerging outbreaks (e.g., food-borne Salmonellosis). In turn, large databases of whole-genome sequence data are being populated. These databases currently contain tens of thousands of samples and are expected to grow to hundreds of thousands within a few years. For these databases to be of optimal use one must be able to quickly interrogate them to accurately determine the genetic distances among a set of samples. Being able to do so is challenging due to both biological (evolutionary diverse samples) and computational (petabytes of sequence data) issues. We evaluated seven measures of genetic distance, which were estimated from either k-mer profiles (Jaccard, Euclidean, Manhattan, Mash Jaccard, and Mash distances) or nucleotide sites (NUCmer and an extended multi-locus sequence typing (MLST) scheme). When analyzing empirical data (whole-genome sequence data from 18,997 Salmonella isolates) there are features (e.g., genomic, assembly, and contamination) that cause distances inferred from k-mer profiles, which treat absent data as informative, to fail to accurately capture the distance between samples when compared to distances inferred from differences in nucleotide sites. Thus, site-based distances, like NUCmer and extended MLST, are superior in performance, but accessing the computing resources necessary to perform them may be challenging when analyzing large databases.

  17. Real-Time Pathogen Detection in the Era of Whole-Genome Sequencing and Big Data: Comparison of k-mer and Site-Based Methods for Inferring the Genetic Distances among Tens of Thousands of Salmonella Samples.

    Directory of Open Access Journals (Sweden)

    James B Pettengill

    Full Text Available The adoption of whole-genome sequencing within the public health realm for molecular characterization of bacterial pathogens has been followed by an increased emphasis on real-time detection of emerging outbreaks (e.g., food-borne Salmonellosis. In turn, large databases of whole-genome sequence data are being populated. These databases currently contain tens of thousands of samples and are expected to grow to hundreds of thousands within a few years. For these databases to be of optimal use one must be able to quickly interrogate them to accurately determine the genetic distances among a set of samples. Being able to do so is challenging due to both biological (evolutionary diverse samples and computational (petabytes of sequence data issues. We evaluated seven measures of genetic distance, which were estimated from either k-mer profiles (Jaccard, Euclidean, Manhattan, Mash Jaccard, and Mash distances or nucleotide sites (NUCmer and an extended multi-locus sequence typing (MLST scheme. When analyzing empirical data (whole-genome sequence data from 18,997 Salmonella isolates there are features (e.g., genomic, assembly, and contamination that cause distances inferred from k-mer profiles, which treat absent data as informative, to fail to accurately capture the distance between samples when compared to distances inferred from differences in nucleotide sites. Thus, site-based distances, like NUCmer and extended MLST, are superior in performance, but accessing the computing resources necessary to perform them may be challenging when analyzing large databases.

  18. BLEVE blast by expansion-controlled evaporation

    NARCIS (Netherlands)

    Berg, A.C. van den; Voort, M.M. van der; Weerheijm, J.; Versloot, N.H.A.

    2006-01-01

    This report presents a new method to calculate the blast effects originating from an exploding vessel of liquefied gas. Adequate blast calculation requires full knowledge of the blast source characteristics, that is, the release and subsequent evaporation rate of the flashing liquid. Because the

  19. gmos: Rapid Detection of Genome Mosaicism over Short Evolutionary Distances.

    Science.gov (United States)

    Domazet-Lošo, Mirjana; Domazet-Lošo, Tomislav

    2016-01-01

    Prokaryotic and viral genomes are often altered by recombination and horizontal gene transfer. The existing methods for detecting recombination are primarily aimed at viral genomes or sets of loci, since the expensive computation of underlying statistical models often hinders the comparison of complete prokaryotic genomes. As an alternative, alignment-free solutions are more efficient, but cannot map (align) a query to subject genomes. To address this problem, we have developed gmos (Genome MOsaic Structure), a new program that determines the mosaic structure of query genomes when compared to a set of closely related subject genomes. The program first computes local alignments between query and subject genomes and then reconstructs the query mosaic structure by choosing the best local alignment for each query region. To accomplish the analysis quickly, the program mostly relies on pairwise alignments and constructs multiple sequence alignments over short overlapping subject regions only when necessary. This fine-tuned implementation achieves an efficiency comparable to an alignment-free tool. The program performs well for simulated and real data sets of closely related genomes and can be used for fast recombination detection; for instance, when a new prokaryotic pathogen is discovered. As an example, gmos was used to detect genome mosaicism in a pathogenic Enterococcus faecium strain compared to seven closely related genomes. The analysis took less than two minutes on a single 2.1 GHz processor. The output is available in fasta format and can be visualized using an accessory program, gmosDraw (freely available with gmos).

  20. gmos: Rapid Detection of Genome Mosaicism over Short Evolutionary Distances.

    Directory of Open Access Journals (Sweden)

    Mirjana Domazet-Lošo

    Full Text Available Prokaryotic and viral genomes are often altered by recombination and horizontal gene transfer. The existing methods for detecting recombination are primarily aimed at viral genomes or sets of loci, since the expensive computation of underlying statistical models often hinders the comparison of complete prokaryotic genomes. As an alternative, alignment-free solutions are more efficient, but cannot map (align a query to subject genomes. To address this problem, we have developed gmos (Genome MOsaic Structure, a new program that determines the mosaic structure of query genomes when compared to a set of closely related subject genomes. The program first computes local alignments between query and subject genomes and then reconstructs the query mosaic structure by choosing the best local alignment for each query region. To accomplish the analysis quickly, the program mostly relies on pairwise alignments and constructs multiple sequence alignments over short overlapping subject regions only when necessary. This fine-tuned implementation achieves an efficiency comparable to an alignment-free tool. The program performs well for simulated and real data sets of closely related genomes and can be used for fast recombination detection; for instance, when a new prokaryotic pathogen is discovered. As an example, gmos was used to detect genome mosaicism in a pathogenic Enterococcus faecium strain compared to seven closely related genomes. The analysis took less than two minutes on a single 2.1 GHz processor. The output is available in fasta format and can be visualized using an accessory program, gmosDraw (freely available with gmos.

  1. 瓦斯抽放煤层增透深孔聚能爆破钻孔参数%Drilling parameters of deep-hole cumulative blasting to improve coal seam permeability in gas drainage

    Institute of Scientific and Technical Information of China (English)

    郭德勇; 吕鹏飞; 单智勇; 谢安

    2013-01-01

    以焦作煤业集团九里山矿煤层深孔聚能爆破试验为基础,利用数值模拟分析了爆破煤体应力变化规律,发现聚能爆破效应导致应力峰值增大,扩大了煤体裂隙区范围.同时对聚能爆破钻孔参数进行优化,确定了合理的炮孔直径、爆破孔间距、爆破孔与邻近抽放孔及煤层顶底板间距.现场试验结果表明:优化的钻孔参数不仅使聚能爆破增透效果显著而且保证了爆破过程的安全.%Based on coal seam deep-hole cumulative blasting experiments in Jiulishan Coal Mine of Jiaozuo Coal Group, the law of stress change in a blasting coal body was analyzed by numerical simulation. It is found that cumulative blasting effect leads to the increase of peak stress and enlarges the crack zone range of the coal body. Drilling parameters for cumulative blasting, such as blast hole diameter, blast hole spacing, distance between the blast hole and the adjacent gas drainage hole, and distance from the blast hole to the coal seam roof and floor, were determined by optimization. Field experimental results show that after using these optimized drilling parameters the cumulative blasting not only gets remarkable permeability increasing effect but also ensures blasting safety.

  2. 30 CFR 75.1323 - Blasting circuits.

    Science.gov (United States)

    2010-07-01

    ...) Blasting circuits shall be protected from sources of stray electric current. (b) Detonators made by different manufacturers shall not be combined in the same blasting circuit. (c) Detonator leg wires shall be... used between the blasting cable and detonator circuitry shall— (1) Be undamaged; (2) Be well insulated...

  3. Blast wave parameters at diminished ambient pressure

    Science.gov (United States)

    Silnikov, M. V.; Chernyshov, M. V.; Mikhaylin, A. I.

    2015-04-01

    Relation between blast wave parameters resulted from a condensed high explosive (HE) charge detonation and a surrounding gas (air) pressure has been studied. Blast wave pressure and impulse differences at compression and rarefaction phases, which traditionally determine damage explosive effect, has been analyzed. An initial pressure effect on a post-explosion quasi-static component of the blast load has been investigated. The analysis is based on empirical relations between blast parameters and non-dimensional similarity criteria. The results can be directly applied to flying vehicle (aircraft or spacecraft) blast safety analysis.

  4. Survey of seismic conditions of drilling and blasting operations near overhead electricity power lines

    Science.gov (United States)

    Korshunov, G. I.; Afanasev, P. I.; Bulbasheva, I. A.

    2017-10-01

    The monitoring and survey results of drilling and blasting operations are specified during the development of Afanasyevsky deposit of cement raw materials for a 110 kV electricity power lines structure. Seismic explosion waves and air shock waves were registered in the course of monitoring. The dependency of peak particle velocities on the scaled distance and explosive weight by the delay time was obtained.

  5. SNUGB: a versatile genome browser supporting comparative and functional fungal genomics

    Directory of Open Access Journals (Sweden)

    Kim Seungill

    2008-12-01

    Full Text Available Abstract Background Since the full genome sequences of Saccharomyces cerevisiae were released in 1996, genome sequences of over 90 fungal species have become publicly available. The heterogeneous formats of genome sequences archived in different sequencing centers hampered the integration of the data for efficient and comprehensive comparative analyses. The Comparative Fungal Genomics Platform (CFGP was developed to archive these data via a single standardized format that can support multifaceted and integrated analyses of the data. To facilitate efficient data visualization and utilization within and across species based on the architecture of CFGP and associated databases, a new genome browser was needed. Results The Seoul National University Genome Browser (SNUGB integrates various types of genomic information derived from 98 fungal/oomycete (137 datasets and 34 plant and animal (38 datasets species, graphically presents germane features and properties of each genome, and supports comparison between genomes. The SNUGB provides three different forms of the data presentation interface, including diagram, table, and text, and six different display options to support visualization and utilization of the stored information. Information for individual species can be quickly accessed via a new tool named the taxonomy browser. In addition, SNUGB offers four useful data annotation/analysis functions, including 'BLAST annotation.' The modular design of SNUGB makes its adoption to support other comparative genomic platforms easy and facilitates continuous expansion. Conclusion The SNUGB serves as a powerful platform supporting comparative and functional genomics within the fungal kingdom and also across other kingdoms. All data and functions are available at the web site http://genomebrowser.snu.ac.kr/.

  6. In silico comparative analysis of EST-SSRs in three cotton genomes

    African Journals Online (AJOL)

    reading 6

    2012-08-28

    Aug 28, 2012 ... Furthermore, they are polymerase chain reaction (PCR)-based ..... A and AD genomes. Blast (E-value≤1e-15) analysis was performed to search .... absent in Gh-ESTs; 'trans-porter activity' was also absent in Ga-ESTs (Figure ...

  7. Field of infrasound wave on the earth from blast wave, produced by supersonic flight of a rocket

    International Nuclear Information System (INIS)

    Drobzheva, Ya.V.; Krasnov, V.M.

    2006-01-01

    It was developed a physical model, which allowed calculating a field of infrasound wave on the earth from blast wave, produced by supersonic flight of a rocket. For space launching site Baikonur it is shown that the nearest horizontal distance from launching site of rocket up to which arrive infrasound waves, produced by supersonic flight of a rocket, is 56 km. Amplitude of acoustic impulse decreases in 5 times on distance of 600 km. Duration of acoustic impulse increases from 1.5 to 3 s on the same distance. Values of acoustic field parameters on the earth surface, practically, do not depend from season of launching of rocket. (author)

  8. Genetic analysis and identification of SSR markers associated with rice blast disease in a BC2F1 backcross population.

    Science.gov (United States)

    Hasan, N; Rafii, M Y; Abdul Rahim, H; Nusaibah, S A; Mazlan, N; Abdullah, S

    2017-01-23

    Rice (Oryza sativa L.) blast disease is one of the most destructive rice diseases in the world. The fungal pathogen, Magnaporthe oryzae, is the causal agent of rice blast disease. Development of resistant cultivars is the most preferred method to achieve sustainable rice production. However, the effectiveness of resistant cultivars is hindered by the genetic plasticity of the pathogen genome. Therefore, information on genetic resistance and virulence stability are vital to increase our understanding of the molecular basis of blast disease resistance. The present study set out to elucidate the resistance pattern and identify potential simple sequence repeat markers linked with rice blast disease. A backcross population (BC 2 F 1 ), derived from crossing MR264 and Pongsu Seribu 2 (PS2), was developed using marker-assisted backcross breeding. Twelve microsatellite markers carrying the blast resistance gene clearly demonstrated a polymorphic pattern between both parental lines. Among these, two markers, RM206 and RM5961, located on chromosome 11 exhibited the expected 1:1 testcross ratio in the BC 2 F 1 population. The 195 BC 2 F 1 plants inoculated against M. oryzae pathotype P7.2 showed a significantly different distribution in the backcrossed generation and followed Mendelian segregation based on a single-gene model. This indicates that blast resistance in PS2 is governed by a single dominant gene, which is linked to RM206 and RM5961 on chromosome 11. The findings presented in this study could be useful for future blast resistance studies in rice breeding programs.

  9. Ultra Safe And Secure Blasting System

    Energy Technology Data Exchange (ETDEWEB)

    Hart, M M

    2009-07-27

    The Ultra is a blasting system that is designed for special applications where the risk and consequences of unauthorized demolition or blasting are so great that the use of an extraordinarily safe and secure blasting system is justified. Such a blasting system would be connected and logically welded together through digital code-linking as part of the blasting system set-up and initialization process. The Ultra's security is so robust that it will defeat the people who designed and built the components in any attempt at unauthorized detonation. Anyone attempting to gain unauthorized control of the system by substituting components or tapping into communications lines will be thwarted in their inability to provide encrypted authentication. Authentication occurs through the use of codes that are generated by the system during initialization code-linking and the codes remain unknown to anyone, including the authorized operator. Once code-linked, a closed system has been created. The system requires all components connected as they were during initialization as well as a unique code entered by the operator for function and blasting.

  10. Blast wave interaction with a rigid surface

    International Nuclear Information System (INIS)

    Josey, T.; Whitehouse, D.R.; Ripley, R.C.; Dionne, J.P.

    2004-01-01

    A simple model used to investigate blast wave interactions with a rigid surface is presented. The model uses a constant volume energy source analogue to predict pressure histories at gauges located directly above the charge. A series of two-dimensional axi-symmetric CFD calculations were performed, varying the height of the charge relative to the ground. Pressure histories, along with isopycnic plots are presented to evaluate the effects of placing a charge in close proximity to a rigid surface. When a charge is placed near a solid surface the pressure histories experienced at gauges above the charge indicate the presence of two distinct pressure peaks. The first peak is caused by the primary shock and the second peak is a result of the wave reflections from the rigid surface. As the distance from the charge to the wall is increased the magnitude of the second pressure peak is reduced, provided that the distance between the charge and the gauge is maintained constant. The simple model presented is able to capture significant, predictable flow features. (author)

  11. Modeling of Combined Impact and Blast Loading on Reinforced Concrete Slabs

    Directory of Open Access Journals (Sweden)

    P. Del Linz

    Full Text Available Abstract Explosive devices represent a significant threat to military and civilian structures. Specific design procedures have to be followed to account for this and ensure buildings will have the capacity to resist the imposed pressures. Shrapnel can also be produced during explosions and the resulting impacts can weaken the structure, reducing its capacity to resist the blast pressure wave and potentially causing failures to occur. Experiments were performed by the Defence Science and Technology Agency (DSTA of Singapore to study this combined loading phenomenon. Slabs were placed on the ground and loaded with approximately 9 kg TNT charges at a standoff distance of 2.1 m. Spherical steel ball bearings were used to reproduce the shrapnel loading. Loading and damage characteristics were recorded from the experiments. A finite element analysis (FEA model was then created which could simulate the effect of combined shrapnel impacts and blast pressure waves in reinforced concrete slabs, so that its results could be compared to experimental data from the blast tests. Quarter models of the experimental concrete slabs were built using LS-Dyna. Material models available in the software were employed to represent all the main components, taking into account projectile deformations. The penetration depth and damage areas measured were then compared to the experimental data and an analytical solution to validate the models.

  12. Porcine head response to blast.

    Science.gov (United States)

    Shridharani, Jay K; Wood, Garrett W; Panzer, Matthew B; Capehart, Bruce P; Nyein, Michelle K; Radovitzky, Raul A; Bass, Cameron R 'dale'

    2012-01-01

    Recent studies have shown an increase in the frequency of traumatic brain injuries related to blast exposure. However, the mechanisms that cause blast neurotrauma are unknown. Blast neurotrauma research using computational models has been one method to elucidate that response of the brain in blast, and to identify possible mechanical correlates of injury. However, model validation against experimental data is required to ensure that the model output is representative of in vivo biomechanical response. This study exposes porcine subjects to primary blast overpressures generated using a compressed-gas shock tube. Shock tube blasts were directed to the unprotected head of each animal while the lungs and thorax were protected using ballistic protective vests similar to those employed in theater. The test conditions ranged from 110 to 740 kPa peak incident overpressure with scaled durations from 1.3 to 6.9 ms and correspond approximately with a 50% injury risk for brain bleeding and apnea in a ferret model scaled to porcine exposure. Instrumentation was placed on the porcine head to measure bulk acceleration, pressure at the surface of the head, and pressure inside the cranial cavity. Immediately after the blast, 5 of the 20 animals tested were apneic. Three subjects recovered without intervention within 30 s and the remaining two recovered within 8 min following respiratory assistance and administration of the respiratory stimulant doxapram. Gross examination of the brain revealed no indication of bleeding. Intracranial pressures ranged from 80 to 390 kPa as a result of the blast and were notably lower than the shock tube reflected pressures of 300-2830 kPa, indicating pressure attenuation by the skull up to a factor of 8.4. Peak head accelerations were measured from 385 to 3845 G's and were well correlated with peak incident overpressure (R(2) = 0.90). One SD corridors for the surface pressure, intracranial pressure (ICP), and head acceleration are

  13. Alkaline carbonates in blast furnace process

    Directory of Open Access Journals (Sweden)

    P. Besta

    2014-10-01

    Full Text Available The production of iron in blast furnaces is a complex of physical, chemical and mechanical processes. The input raw materials contain not only metallic components, but also a number of negative elements. The most important negative elements include alkaline carbonates. They can significantly affect the course of the blast furnace process and thus the overall performance of the furnace. As a result of that, it is essential to accurately monitor the alkali content in the blast furnace raw materials. The article analyzes the alkali content in input and output raw materials and their impact on the blast furnace process.

  14. Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae

    OpenAIRE

    Peeters, Charlotte; Meier-Kolthoff, Jan P.; Verheyde, Bart; De Brandt, Evie; Cooper, Vaughn S.; Vandamme, Peter

    2016-01-01

    Partial gyrB gene sequence analysis of 17 isolates from human and environmental sources revealed 13 clusters of strains and identified them as Burkholderia glathei Glade (BGC) bacteria. The taxonomic status of these clusters was examined by whole-genome sequence analysis, determination of the G+C content, whole-cell fatty acid analysis and biochemical characterization. The whole-genome sequence-based phylogeny was assessed using the Genome Blast Distance Phylogeny (GBDP) method and an extende...

  15. Linking blast physics to biological outcomes in mild traumatic brain injury: Narrative review and preliminary report of an open-field blast model.

    Science.gov (United States)

    Song, Hailong; Cui, Jiankun; Simonyi, Agnes; Johnson, Catherine E; Hubler, Graham K; DePalma, Ralph G; Gu, Zezong

    2018-03-15

    Blast exposures are associated with traumatic brain injury (TBI) and blast-induced TBIs are common injuries affecting military personnel. Department of Defense and Veterans Administration (DoD/VA) reports for TBI indicated that the vast majority (82.3%) has been mild TBI (mTBI)/concussion. mTBI and associated posttraumatic stress disorders (PTSD) have been called "the invisible injury" of the current conflicts in Iraq and Afghanistan. These injuries induce varying degrees of neuropathological alterations and, in some cases, chronic cognitive, behavioral and neurological disorders. Appropriate animal models of blast-induced TBI will not only assist the understanding of physical characteristics of the blast, but also help to address the potential mechanisms. This report provides a brief overview of physical principles of blast, injury mechanisms related to blast exposure, current blast animal models, and the neurological behavioral and neuropathological findings related to blast injury in experimental settings. We describe relationships between blast peak pressures and the observed injuries. We also report preliminary use of a highly reproducible and intensity-graded blast murine model carried out in open-field with explosives, and describe physical and pathological findings in this experimental model. Our results indicate close relationships between blast intensities and neuropathology and behavioral deficits, particularly at low level blast intensities relevant to mTBI. Copyright © 2016 Elsevier B.V. All rights reserved.

  16. Blast fracturing of bedrock to enhance recovery of contaminated groundwater

    International Nuclear Information System (INIS)

    Holzman, L.R.; Harvey, E.M.; McKee, R.C.E.; Katsabanis, T.

    1992-01-01

    Petroleum hydrocarbons releasd from a pipeline at a site in southern Ontario had contaminated a fractured dolostone bedrock aquifer. To remediate the site, contaminated groundwater was pumped from the downgradient edge of the hydrocarbon plume and injected into an upgradient area after treatment. Contaminant flow pathways in the fractured bedrock aquifer were found to be complex and erratic. It was anticipated that contaminated groundwater could escape the influence of a line of closely spaced recovery wells. In order to capture the migrating contaminants effectively, improve communication between recovery wells, and optimize pumping efficiencies, a rubble zone was created by drilling and blasting the rock. Using 140 blastholes, the bedrock was fractured to a depth of 4 m over a distance of 200 m. Similarly, an additional 80 blastholes were used to blast fracture 100 m of bedrock to a depth of 4 m in the recharge area to enhance injection of treated water to the aquifer. Various blasthole spacings and explosive loadings and patterns were tested to fracture the rock effectively while minimizing the impact on the nearby pipeline and neighboring residences. Vibrations were carefully monitored using several seismographs. Pump tests conducted before and after the blast indicated the hydraulic connection between the naturally occurring fractures had greatly improved. Monitoring conducted after startup of the pump-treat-and-inject system has confirmed the fracturing provides effective capture and injection of the groundwater. 3 refs., 3 figs., 1 tab

  17. Elastomeric Polymers for Retrofitting of Reinforced Concrete Structures against the Explosive Effects of Blast

    Directory of Open Access Journals (Sweden)

    S. N. Raman

    2012-01-01

    Full Text Available The main distinction of blast load from other types of dynamic loadings is its impulsive nature, where the loads usually act for a very short duration but transmit very high impulsive pressures. This paper presents an overview of the present retrofitting techniques in use to enhance the capacity of structural elements to withstand the effects of blast loads, and introduces an alternative retrofitting approach by utilizing polymer coatings. The authors have demonstrated the positive effects of this approach by conducting a numerical investigation on the behavior of an unretrofitted reinforced concrete panel subjected to the blast load from a 2 kg charge at 1.6 m stand-off distance, and subsequently comparing its performance with several polymer coated panels. The analysis was performed by using an explicit nonlinear finite element (FE code. The results demonstrate the contributions of this technique in terms of panel displacement control and energy dissipation. Considering that the polymer coating can also act as a protective layer in improving the durability of structural materials, this technique can also be optimized favorably to enhance the overall sustainability of structures.

  18. Runout distance and dynamic pressure of pyroclastic density currents: Evidence from 18 May 1980 blast surge of Mount St. Helens

    Science.gov (United States)

    Gardner, J. E.; Andrews, B. J.

    2016-12-01

    Pyroclastic density currents (flows and surges) are one of the most deadly hazards associated with volcanic eruptions. Understanding what controls how far such currents will travel, and how their dynamic pressure evolves, could help mitigate their hazards. The distance a ground hugging, pyroclastic density current travels is partly limited by when it reverses buoyancy and lifts off into the atmosphere. The 1980 blast surge of Mount St. Helens offers an example of a current seen to lift off. Before lofting, it had traveled up to 20 km and leveled more than 600 km3 of thick forest (the blowdown zone). The outer edge of the devastated area - where burned trees that were left standing (the singe zone) - is where the surge is thought to have lifted off. We recently examined deposits in the outer parts of the blowdown and in the singe zone at 32 sites. The important finding is that the laterally moving surge travelled into the singe zone, and hence the change in tree damage does not mark the run out distance of the ground hugging surge. Eyewitness accounts and impacts on trees and vehicles reveal that the surge consisted of a fast, dilute "overcurrent" and a slower "undercurrent", where most of the mass (and heat) was retained. Reasonable estimates for flow density and velocity show that dynamic pressure of the surge (i.e., its ability to topple trees) peaked near the base of the overcurrent. We propose that when the overcurrent began to lift off, the height of peak dynamic pressure rose above the trees and stopped toppling them. The slower undercurrent continued forward, burning trees but it lacked the dynamic pressure needed to topple them. Grain-size variations argue that it slowed from 30 m/s when it entered the singe zone to 3 m/s at the far end. Buoyancy reversal and liftoff are thus not preserved in the deposits where the surge lofted upwards.

  19. BLAST-EXPLORER helps you building datasets for phylogenetic analysis

    Directory of Open Access Journals (Sweden)

    Claverie Jean-Michel

    2010-01-01

    Full Text Available Abstract Background The right sampling of homologous sequences for phylogenetic or molecular evolution analyses is a crucial step, the quality of which can have a significant impact on the final interpretation of the study. There is no single way for constructing datasets suitable for phylogenetic analysis, because this task intimately depends on the scientific question we want to address, Moreover, database mining softwares such as BLAST which are routinely used for searching homologous sequences are not specifically optimized for this task. Results To fill this gap, we designed BLAST-Explorer, an original and friendly web-based application that combines a BLAST search with a suite of tools that allows interactive, phylogenetic-oriented exploration of the BLAST results and flexible selection of homologous sequences among the BLAST hits. Once the selection of the BLAST hits is done using BLAST-Explorer, the corresponding sequence can be imported locally for external analysis or passed to the phylogenetic tree reconstruction pipelines available on the Phylogeny.fr platform. Conclusions BLAST-Explorer provides a simple, intuitive and interactive graphical representation of the BLAST results and allows selection and retrieving of the BLAST hit sequences based a wide range of criterions. Although BLAST-Explorer primarily aims at helping the construction of sequence datasets for further phylogenetic study, it can also be used as a standard BLAST server with enriched output. BLAST-Explorer is available at http://www.phylogeny.fr

  20. Analysis of ways to control the supply of the blast, and their impact on gas-dynamic processes in the blast furnace

    Directory of Open Access Journals (Sweden)

    Віктор Петрович Кравченко

    2016-07-01

    Full Text Available The article presents the analysis of two methods of control over hot blast supply into a blast furnace with constant pressure and constant amount (consumption. The analysis of these two methods was performed with the aim of determining their influence upon changes in gas pressure in the blast furnace top. The blast furnace was considered as a unity of vessels (furnace hearth, the top and gas-dynamic resistance (a column of charge materials. A differential equation was obtained, with regard to the dynamic balance of gas flow at the inlet and outlet of the top; the equation relates the pressure and gas consumption at the top to the pressure and hot blast consumption at the inlet and outlet of the furnace and to the resistance of the column of charge materials. The column of charge materials is considered as n-th number of channels through which gas flow inside the furnace moves and which resist to the flow. By the analysis of this equation at steady state (automatic stabilization of gas pressure in the top, the conditions were obtained to be satisfied with the specified value of gas pressure in the top. This value is equal to a half of the sum of the value of hot blast pressure at the inlet into the furnace and the value of pressure inside the collector of blast furnace gas. This conclusion is verified by the operation practice of blast furnaces in Ukraine. While analyzing the second method of controlling the supply of blast supply-stabilization of consumption (amount of hot blast supplied into the furnace it has been shown that the method could be realized in condition of stabilization of the amount of blast furnace gas, going out of the furnace. As the resistance of the column of charge materials constantly changes it is necessary to change the hot blast pressure in order to ensure the constant amount of blast, supplied into the furnace. It is often connected with possible substantial pressure fluctuations of hot blast at the inlet of the

  1. Experimental Study of the Effect of Water Mist Location On Blast Overpressure Attenuation in A Shock Tube

    Science.gov (United States)

    Mataradze, Edgar; Chikhradze, Nikoloz; Bochorishvili, Nika; Akhvlediani, Irakli; Tatishvili, Dimitri

    2017-12-01

    Explosion protection technologies are based on the formation of a shock wave mitigation barrier between the protection site and the explosion site. Contemporary protective systems use water mist as an extinguishing barrier. To achieve high effectiveness of the protective system, proper selection of water mist characteristics is important. The main factors defining shock wave attenuation in water mist include droplet size distribution, water concentration in the mist, droplet velocity and geometric properties of mist. This paper examines the process of attenuation of shock waves in mist with droplets ranging from 25 to 400 microns under different conditions of water mist location. Experiments were conducted at the Mining Institute with the use of a shock tube to study the processes of explosion suppression by a water mist barrier. The shock tube consists of a blast chamber, a tube, a system for the dosed supply of water, sensors, data recording equipment, and a process control module. Shock wave overpressure reduction coefficient was studied in the shock tube under two different locations of water mist: a) when water mist is created in direct contact with blast chamber and b) the blast chamber and the mist are separated by air space. It is established that in conditions when the air space distance between the blast chamber and the mist is 1 meter, overpressure reduction coefficient is 1.5-1.6 times higher than in conditions when water mist is created in direct contact with blast chamber.

  2. Genome analysis methods: Sorghum bicolor [PGDBj Registered plant list, Marker list, QTL list, Plant DB link and Genome analysis methods[Archive

    Lifescience Database Archive (English)

    Full Text Available Sorghum bicolor Finished 2n=20 760 Mb 2009 Sanger (Clone-based) 10,717,203 reads 7...30 Mb 8.5x Arachne2 v.20060705 3,304 12,873 BLAST, GenomeScan 34,496 (Sbi1.4) JGI; http://www.phytozome.net/sorghum Sbi1 Sbi1.4 10.1038/nature07723 19189423 ...

  3. Prediction of blast vibration level considered propagation characteristics; Denpa tokusei to koryoshita happa shindo level no yosoku

    Energy Technology Data Exchange (ETDEWEB)

    Kunimatsu, S; Jinguji, M [National Institute for Resources and Environment, Tsukuba (Japan); Yamada, M; Hirai, T [Newjec Inc., Osaka (Japan); Durucan, S; Farsangi, M

    1997-10-22

    With an objective to assess environmental influence induced by blast vibration, a study has been carried out on a method to predict vibration levels. The study has discussed a method to calculate vibration levels, in which vibration propagating characteristics are sought on blast vibration generated from an open-cut limestone mine from acceleration waveforms in the vicinity of the blast source and residential housings by using an octave analysis, and waveforms are predicted. The shortest straight line distance from the blast position to a housing is about 150 m, and the height difference is about 30 to 40 meters. The measuring instruments include a vibration level meter used for pollution measurement and a data recorder, with signals lower than 1 Hz and higher than 90 Hz being interrupted. The environmental influence assessment discusses not only the maximum value of the vibration level, but also sizes of values of each band by using a frequency analysis. The result of the discussions revealed that the prediction of the vibration levels is little affected by phase characteristics, and that no problems are caused in the measurement accuracy even if the vibration levels are predicted by using relative decay amount according to a one-third octave analysis for the propagation characteristics. 5 figs., 4 tabs.

  4. Raydet non-electric blast initiation system for efficient and environment-friendly surface blasts

    Energy Technology Data Exchange (ETDEWEB)

    Sarathy, M.O. [IDL Chemicals Ltd., Hyderabad (India). Technical Services Cell

    1995-08-01

    This paper discusses the advantages of using the Raydet shock tube based blast initiation system and reviews research work carried out on release of explosive energy in the drillhole, effect of stemming retention (stemming effectiveness) and advantages of `true bottom hole initiation` of drillholes in surface blasting. Some case studies are presented. 6 refs., 5 figs., 1 tab.

  5. Phylo_dCor: distance correlation as a novel metric for phylogenetic profiling.

    Science.gov (United States)

    Sferra, Gabriella; Fratini, Federica; Ponzi, Marta; Pizzi, Elisabetta

    2017-09-05

    Elaboration of powerful methods to predict functional and/or physical protein-protein interactions from genome sequence is one of the main tasks in the post-genomic era. Phylogenetic profiling allows the prediction of protein-protein interactions at a whole genome level in both Prokaryotes and Eukaryotes. For this reason it is considered one of the most promising methods. Here, we propose an improvement of phylogenetic profiling that enables handling of large genomic datasets and infer global protein-protein interactions. This method uses the distance correlation as a new measure of phylogenetic profile similarity. We constructed robust reference sets and developed Phylo-dCor, a parallelized version of the algorithm for calculating the distance correlation that makes it applicable to large genomic data. Using Saccharomyces cerevisiae and Escherichia coli genome datasets, we showed that Phylo-dCor outperforms phylogenetic profiling methods previously described based on the mutual information and Pearson's correlation as measures of profile similarity. In this work, we constructed and assessed robust reference sets and propose the distance correlation as a measure for comparing phylogenetic profiles. To make it applicable to large genomic data, we developed Phylo-dCor, a parallelized version of the algorithm for calculating the distance correlation. Two R scripts that can be run on a wide range of machines are available upon request.

  6. The second generation of electronic blasting systems

    Energy Technology Data Exchange (ETDEWEB)

    Hammelmann, F.; Petzold, J. [Dynamit Nobel GmbH (Germany)

    2001-07-01

    8 years after the market introduction of the first commercial electronic detonator - DYNATRONIC - the paper describes a new area of electronic blasting systems Made in Germany: i-kon. The results of a joint development between Dynamit Nobel and Orica is a unique universal electronic detonator, which is as simple to use as a standard non-electric detonator. The delay time or delay interval is not factory preprogrammed and the system is not based on a numbered system like conventional detonators. The miner or Blaster decides on site which delay timing he likes to use and is programming the whole blast on site. The new i-kon system allows delay times between 0 and 8000 ms by increments of 1 ms. With the control equipment it is possible to blast up to 1600 detonators in a single blast. The paper describes the construction and functionality of this new electronic blasting system - manufactured and developed by Precision Blasting Systems, a joint venture between Orica and Dynamic Nobel. (orig.)

  7. Genomewide variation in an introgression line of rice-Zizania revealed by whole-genome re-sequencing.

    Directory of Open Access Journals (Sweden)

    Zhen-Hui Wang

    Full Text Available BACKGROUND: Hybridization between genetically diverged organisms is known as an important avenue that drives plant genome evolution. The possible outcomes of hybridization would be the occurrences of genetic instabilities in the resultant hybrids. It remained under-investigated however whether pollination by alien pollens of a closely related but sexually "incompatible" species could evoke genomic changes and to what extent it may result in phenotypic novelties in the derived progenies. METHODOLOGY/PRINCIPAL FINDINGS: In this study, we have re-sequenced the genomes of Oryza sativa ssp. japonica cv. Matsumae and one of its derived introgressant RZ35 that was obtained from an introgressive hybridization between Matsumae and Zizanialatifolia Griseb. in general, 131 millions 90 base pair (bp paired-end reads were generated which covered 13.2 and 21.9 folds of the Matsumae and RZ35 genomes, respectively. Relative to Matsumae, a total of 41,724 homozygous single nucleotide polymorphisms (SNPs and 17,839 homozygous insertions/deletions (indels were identified in RZ35, of which 3,797 SNPs were nonsynonymous mutations. Furthermore, rampant mobilization of transposable elements (TEs was found in the RZ35 genome. The results of pathogen inoculation revealed that RZ35 exhibited enhanced resistance to blast relative to Matsumae. Notably, one nonsynonymous mutation was found in the known blast resistance gene Pid3/Pi25 and real-time quantitative (q RT-PCR analysis revealed constitutive up-regulation of its expression, suggesting both altered function and expression of Pid3/Pi25 may be responsible for the enhanced resistance to rice blast by RZ35. CONCLUSIONS/SIGNIFICANCE: Our results demonstrate that introgressive hybridization by Zizania has provoked genomewide, extensive genomic changes in the rice genome, and some of which have resulted in important phenotypic novelties. These findings suggest that introgressive hybridization by alien pollens of even a

  8. Genome signature analysis of thermal virus metagenomes reveals Archaea and thermophilic signatures

    Directory of Open Access Journals (Sweden)

    Pride David T

    2008-09-01

    Full Text Available Abstract Background Metagenomic analysis provides a rich source of biological information for otherwise intractable viral communities. However, study of viral metagenomes has been hampered by its nearly complete reliance on BLAST algorithms for identification of DNA sequences. We sought to develop algorithms for examination of viral metagenomes to identify the origin of sequences independent of BLAST algorithms. We chose viral metagenomes obtained from two hot springs, Bear Paw and Octopus, in Yellowstone National Park, as they represent simple microbial populations where comparatively large contigs were obtained. Thermal spring metagenomes have high proportions of sequences without significant Genbank homology, which has hampered identification of viruses and their linkage with hosts. To analyze each metagenome, we developed a method to classify DNA fragments using genome signature-based phylogenetic classification (GSPC, where metagenomic fragments are compared to a database of oligonucleotide signatures for all previously sequenced Bacteria, Archaea, and viruses. Results From both Bear Paw and Octopus hot springs, each assembled contig had more similarity to other metagenome contigs than to any sequenced microbial genome based on GSPC analysis, suggesting a genome signature common to each of these extreme environments. While viral metagenomes from Bear Paw and Octopus share some similarity, the genome signatures from each locale are largely unique. GSPC using a microbial database predicts most of the Octopus metagenome has archaeal signatures, while bacterial signatures predominate in Bear Paw; a finding consistent with those of Genbank BLAST. When using a viral database, the majority of the Octopus metagenome is predicted to belong to archaeal virus Families Globuloviridae and Fuselloviridae, while none of the Bear Paw metagenome is predicted to belong to archaeal viruses. As expected, when microbial and viral databases are combined, each of

  9. 30 CFR 75.1316 - Preparation before blasting.

    Science.gov (United States)

    2010-07-01

    ... two working faces are approaching each other, cutting, drilling and blasting shall be done at only one... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Preparation before blasting. 75.1316 Section 75... HEALTH MANDATORY SAFETY STANDARDS-UNDERGROUND COAL MINES Explosives and Blasting § 75.1316 Preparation...

  10. Condition for Contur Blasting use on Openpit Mines

    OpenAIRE

    Krsmanovic, I; Dambov, Risto

    2010-01-01

    For purpose of obtaining a stable final slope in open pit mines practice, the most common approach is the contour blasting method and investigation of possible applications of various primary blasting methods for purpose of gaining the optimal techno-economical effects. This paper presents one of the contour blasting methods, drilling and blasting parameters, construction of explosive charges and method of initiation.

  11. LifePrint: a novel k-tuple distance method for construction of phylogenetic trees

    Directory of Open Access Journals (Sweden)

    Fabián Reyes-Prieto

    2011-01-01

    Full Text Available Fabián Reyes-Prieto1, Adda J García-Chéquer1, Hueman Jaimes-Díaz1, Janet Casique-Almazán1, Juana M Espinosa-Lara1, Rosaura Palma-Orozco2, Alfonso Méndez-Tenorio1, Rogelio Maldonado-Rodríguez1, Kenneth L Beattie31Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, 2Superior School of Computer Sciences, National Polytechnic Institute, Mexico City, Mexico; 3Amerigenics Inc, Crossville, Tennessee, USAPurpose: Here we describe LifePrint, a sequence alignment-independent k-tuple distance method to estimate relatedness between complete genomes.Methods: We designed a representative sample of all possible DNA tuples of length 9 (9-tuples. The final sample comprises 1878 tuples (called the LifePrint set of 9-tuples; LPS9 that are distinct from each other by at least two internal and noncontiguous nucleotide differences. For validation of our k-tuple distance method, we analyzed several real and simulated viroid genomes. Using different distance metrics, we scrutinized diverse viroid genomes to estimate the k-tuple distances between these genomic sequences. Then we used the estimated genomic k-tuple distances to construct phylogenetic trees using the neighbor-joining algorithm. A comparison of the accuracy of LPS9 and the previously reported 5-tuple method was made using symmetric differences between the trees estimated from each method and a simulated “true” phylogenetic tree.Results: The identified optimal search scheme for LPS9 allows only up to two nucleotide differences between each 9-tuple and the scrutinized genome. Similarity search results of simulated viroid genomes indicate that, in most cases, LPS9 is able to detect single-base substitutions between genomes efficiently. Analysis of simulated genomic variants with a high proportion of base substitutions indicates that LPS9 is able to discern relationships between genomic variants with up to 40% of nucleotide

  12. CO2 pellet blasting studies

    International Nuclear Information System (INIS)

    Archibald, K.E.

    1997-01-01

    Initial tests with CO 2 pellet blasting as a decontamination technique were completed in 1993 at the Idaho Chemical Processing Plant (ICPP) at the Idaho National Engineering Laboratory (INEL). During 1996, a number of additional CO 2 pellet blasting studies with Alpheus Cleaning Technologies, Oak Ridge National Laboratory, and Pennsylvania State University were conducted. After the testing with Alpheus was complete, an SDI-5 shaved CO 2 blasting unit was purchased by the ICPP to test and determine its capabilities before using in ICPP decontamination efforts. Results of the 1996 testing will be presented in this report

  13. Simulating geometrically complex blast scenarios

    Directory of Open Access Journals (Sweden)

    Ian G. Cullis

    2016-04-01

    Full Text Available The effects of blast waves generated by energetic and non-energetic sources are of continuing interest to the ballistics research community. Modern conflicts are increasingly characterised by asymmetric urban warfare, with improvised explosive devices (IEDs often playing a dominant role on the one hand and an armed forces requirement for minimal collateral effects from their weapons on the other. These problems are characterised by disparate length- and time-scales and may also be governed by complex physics. There is thus an increasing need to be able to rapidly assess and accurately predict the effects of energetic blast in topologically complex scenarios. To this end, this paper presents a new QinetiQ-developed advanced computational package called EAGLE-Blast, which is capable of accurately resolving the generation, propagation and interaction of blast waves around geometrically complex shapes such as vehicles and buildings. After a brief description of the numerical methodology, various blast scenario simulations are described and the results compared with experimental data to demonstrate the validation of the scheme and its ability to describe these complex scenarios accurately and efficiently. The paper concludes with a brief discussion on the use of the code in supporting the development of algorithms for fast running engineering models.

  14. Attenuation of blast pressure behind ballistic protective vests.

    Science.gov (United States)

    Wood, Garrett W; Panzer, Matthew B; Shridharani, Jay K; Matthews, Kyle A; Capehart, Bruce P; Myers, Barry S; Bass, Cameron R

    2013-02-01

    Clinical studies increasingly report brain injury and not pulmonary injury following blast exposures, despite the increased frequency of exposure to explosive devices. The goal of this study was to determine the effect of personal body armour use on the potential for primary blast injury and to determine the risk of brain and pulmonary injury following a blast and its impact on the clinical care of patients with a history of blast exposure. A shock tube was used to generate blast overpressures on soft ballistic protective vests (NIJ Level-2) and hard protective vests (NIJ Level-4) while overpressure was recorded behind the vest. Both types of vest were found to significantly decrease pulmonary injury risk following a blast for a wide range of conditions. At the highest tested blast overpressure, the soft vest decreased the behind armour overpressure by a factor of 14.2, and the hard vest decreased behind armour overpressure by a factor of 56.8. Addition of body armour increased the 50th percentile pulmonary death tolerance of both vests to higher levels than the 50th percentile for brain injury. These results suggest that ballistic protective body armour vests, especially hard body armour plates, provide substantial chest protection in primary blasts and explain the increased frequency of head injuries, without the presence of pulmonary injuries, in protected subjects reporting a history of blast exposure. These results suggest increased clinical suspicion for mild to severe brain injury is warranted in persons wearing body armour exposed to a blast with or without pulmonary injury.

  15. A review of microsatellite markers and their applications in rice breeding programs to improve blast disease resistance.

    Science.gov (United States)

    Miah, Gous; Rafii, Mohd Y; Ismail, Mohd R; Puteh, Adam B; Rahim, Harun A; Islam, Kh Nurul; Latif, Mohammad Abdul

    2013-11-14

    Over the last few decades, the use of molecular markers has played an increasing role in rice breeding and genetics. Of the different types of molecular markers, microsatellites have been utilized most extensively, because they can be readily amplified by PCR and the large amount of allelic variation at each locus. Microsatellites are also known as simple sequence repeats (SSR), and they are typically composed of 1-6 nucleotide repeats. These markers are abundant, distributed throughout the genome and are highly polymorphic compared with other genetic markers, as well as being species-specific and co-dominant. For these reasons, they have become increasingly important genetic markers in rice breeding programs. The evolution of new biotypes of pests and diseases as well as the pressures of climate change pose serious challenges to rice breeders, who would like to increase rice production by introducing resistance to multiple biotic and abiotic stresses. Recent advances in rice genomics have now made it possible to identify and map a number of genes through linkage to existing DNA markers. Among the more noteworthy examples of genes that have been tightly linked to molecular markers in rice are those that confer resistance or tolerance to blast. Therefore, in combination with conventional breeding approaches, marker-assisted selection (MAS) can be used to monitor the presence or lack of these genes in breeding populations. For example, marker-assisted backcross breeding has been used to integrate important genes with significant biological effects into a number of commonly grown rice varieties. The use of cost-effective, finely mapped microsatellite markers and MAS strategies should provide opportunities for breeders to develop high-yield, blast resistance rice cultivars. The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS in rice breeding

  16. A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance

    Directory of Open Access Journals (Sweden)

    Mohammad Abdul Latif

    2013-11-01

    Full Text Available Over the last few decades, the use of molecular markers has played an increasing role in rice breeding and genetics. Of the different types of molecular markers, microsatellites have been utilized most extensively, because they can be readily amplified by PCR and the large amount of allelic variation at each locus. Microsatellites are also known as simple sequence repeats (SSR, and they are typically composed of 1–6 nucleotide repeats. These markers are abundant, distributed throughout the genome and are highly polymorphic compared with other genetic markers, as well as being species-specific and co-dominant. For these reasons, they have become increasingly important genetic markers in rice breeding programs. The evolution of new biotypes of pests and diseases as well as the pressures of climate change pose serious challenges to rice breeders, who would like to increase rice production by introducing resistance to multiple biotic and abiotic stresses. Recent advances in rice genomics have now made it possible to identify and map a number of genes through linkage to existing DNA markers. Among the more noteworthy examples of genes that have been tightly linked to molecular markers in rice are those that confer resistance or tolerance to blast. Therefore, in combination with conventional breeding approaches, marker-assisted selection (MAS can be used to monitor the presence or lack of these genes in breeding populations. For example, marker-assisted backcross breeding has been used to integrate important genes with significant biological effects into a number of commonly grown rice varieties. The use of cost-effective, finely mapped microsatellite markers and MAS strategies should provide opportunities for breeders to develop high-yield, blast resistance rice cultivars. The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS

  17. prfectBLAST: a platform-independent portable front end for the command terminal BLAST+ stand-alone suite.

    Science.gov (United States)

    Santiago-Sotelo, Perfecto; Ramirez-Prado, Jorge Humberto

    2012-11-01

    prfectBLAST is a multiplatform graphical user interface (GUI) for the stand-alone BLAST+ suite of applications. It allows researchers to do nucleotide or amino acid sequence similarity searches against public (or user-customized) databases that are locally stored. It does not require any dependencies or installation and can be used from a portable flash drive. prfectBLAST is implemented in Java version 6 (SUN) and runs on all platforms that support Java and for which National Center for Biotechnology Information has made available stand-alone BLAST executables, including MS Windows, Mac OS X, and Linux. It is free and open source software, made available under the GNU General Public License version 3 (GPLv3) and can be downloaded at www.cicy.mx/sitios/jramirez or http://code.google.com/p/prfectblast/.

  18. Algorithms for sorting unsigned linear genomes by the DCJ operations.

    Science.gov (United States)

    Jiang, Haitao; Zhu, Binhai; Zhu, Daming

    2011-02-01

    The double cut and join operation (abbreviated as DCJ) has been extensively used for genomic rearrangement. Although the DCJ distance between signed genomes with both linear and circular (uni- and multi-) chromosomes is well studied, the only known result for the NP-complete unsigned DCJ distance problem is an approximation algorithm for unsigned linear unichromosomal genomes. In this article, we study the problem of computing the DCJ distance on two unsigned linear multichromosomal genomes (abbreviated as UDCJ). We devise a 1.5-approximation algorithm for UDCJ by exploiting the distance formula for signed genomes. In addition, we show that UDCJ admits a weak kernel of size 2k and hence an FPT algorithm running in O(2(2k)n) time.

  19. Inheritance patterns and identification of microsatellite markers linked to the rice blast resistance in BC2F1 population of rice breeding

    Directory of Open Access Journals (Sweden)

    Gous Miah

    2015-03-01

    Full Text Available The BC2F1 population was derived from a cross between rice variety, MR219 (susceptible to blast and Pongsu Seribu 1 (resistant to blast. The objectives of this research were to know the inheritance pattern of blast resistance and to identify the linked markers associated with blast resistance in BC2F1 population. Sixteen microsatellite markers were found as polymorphic between the parents related to blast resistant genes (Pi-genes. Among the selected blast resistant linked markers, two markers RM6836 and RM8225 showed expected testcross ratio (1:1 for single-gene model in the BC2F1 population with the association between resistant and susceptible progeny. A total of 333-BC2F1 plants were challenged with the most virulent pathotype P7.2 of Magnaporthe oryzae. Chi-square (χ2 analysis for phenotypic segregation in single-gene model showed goodness of fit (P = 0.4463 to the expected segregation ratio (1:1. In marker segregation analysis, two polymorphic markers (RM6836 and RM8225 clearly showed goodness of fit to the expected segregation testcross ratio (1:1 for the single-gene model. The marker RM8225 and RM6836 showed significant R2 values higher than 10 for the trait of the blast lesions degree (BLD. The positions of RM6836 and RM8225 markers on rice chromosome 6 and the distance between these two markers is 0.2 cM. We conclude that single dominant gene control the blast resistance in Pongsu Seribu 1 located on chromosome 6, which is linked to RM8225 and RM6836 microsatellite markers. This information could be useful in marker-assisted selection for blast resistance in rice breeding involving Pongsu Seribu 1.

  20. The spectrum of genomic signatures: from dinucleotides to chaos game representation.

    Science.gov (United States)

    Wang, Yingwei; Hill, Kathleen; Singh, Shiva; Kari, Lila

    2005-02-14

    In the post genomic era, access to complete genome sequence data for numerous diverse species has opened multiple avenues for examining and comparing primary DNA sequence organization of entire genomes. Previously, the concept of a genomic signature was introduced with the observation of species-type specific Dinucleotide Relative Abundance Profiles (DRAPs); dinucleotides were identified as the subsequences with the greatest bias in representation in a majority of genomes. Herein, we demonstrate that DRAP is one particular genomic signature contained within a broader spectrum of signatures. Within this spectrum, an alternative genomic signature, Chaos Game Representation (CGR), provides a unique visualization of patterns in sequence organization. A genomic signature is associated with a particular integer order or subsequence length that represents a measure of the resolution or granularity in the analysis of primary DNA sequence organization. We quantitatively explore the organizational information provided by genomic signatures of different orders through different distance measures, including a novel Image Distance. The Image Distance and other existing distance measures are evaluated by comparing the phylogenetic trees they generate for 26 complete mitochondrial genomes from a diversity of species. The phylogenetic tree generated by the Image Distance is compatible with the known relatedness of species. Quantitative evaluation of the spectrum of genomic signatures may be used to ultimately gain insight into the determinants and biological relevance of the genome signatures.

  1. Blasting in hot zone - a case study

    Energy Technology Data Exchange (ETDEWEB)

    Nabiullah, B.M.P.; Pingua, J.; Dhar, B.B. [Central Mining Research Institute, Dhanbad (India)

    1997-12-31

    A significant quantity of coking coal reserves in the country are under fire particularly in Jharia coalfield. To control the fire and prevent loss of coal, an opencast mining method is adopted. The main problem with these opencast mines is drilling in hot strata and selection of suitable explosives and blasting in the fire zone. Trial blasts were conducted at two open cast mines. The problem was tackled by quenching the hot blast holes with water. Temperature of blast holes were recorded soon after drilling, after quenching with water and just before charging with explosives. The rise in temperature of charged explosives with time was also recorded until blasting. The thermal behaviour of commercially available explosives (including slurry, emulsion, ANFO and detonating cord) was investigated in laboratory and field simulated conditions. Emulsion, slurry compositions and detonating cord were found safe to use in hot holes up to 120{degree}C for duration of two hours. This paper describes the blasting practices adopted in the fire zones. 4 refs., 6 figs., 8 tabs.

  2. Estimating true evolutionary distances under the DCJ model.

    Science.gov (United States)

    Lin, Yu; Moret, Bernard M E

    2008-07-01

    Modern techniques can yield the ordering and strandedness of genes on each chromosome of a genome; such data already exists for hundreds of organisms. The evolutionary mechanisms through which the set of the genes of an organism is altered and reordered are of great interest to systematists, evolutionary biologists, comparative genomicists and biomedical researchers. Perhaps the most basic concept in this area is that of evolutionary distance between two genomes: under a given model of genomic evolution, how many events most likely took place to account for the difference between the two genomes? We present a method to estimate the true evolutionary distance between two genomes under the 'double-cut-and-join' (DCJ) model of genome rearrangement, a model under which a single multichromosomal operation accounts for all genomic rearrangement events: inversion, transposition, translocation, block interchange and chromosomal fusion and fission. Our method relies on a simple structural characterization of a genome pair and is both analytically and computationally tractable. We provide analytical results to describe the asymptotic behavior of genomes under the DCJ model, as well as experimental results on a wide variety of genome structures to exemplify the very high accuracy (and low variance) of our estimator. Our results provide a tool for accurate phylogenetic reconstruction from multichromosomal gene rearrangement data as well as a theoretical basis for refinements of the DCJ model to account for biological constraints. All of our software is available in source form under GPL at http://lcbb.epfl.ch.

  3. 29 CFR 1926.906 - Initiation of explosive charges-electric blasting.

    Science.gov (United States)

    2010-07-01

    ...) After firing an electric blast from a blasting machine, the leading wires shall be immediately... 29 Labor 8 2010-07-01 2010-07-01 false Initiation of explosive charges-electric blasting. 1926.906... Use of Explosives § 1926.906 Initiation of explosive charges—electric blasting. (a) Electric blasting...

  4. Numerical simulation of muzzle blast

    NARCIS (Netherlands)

    Tyler-Street, M.

    2014-01-01

    Structural design methods for naval ships include environmental, operational and military load cases. One of the operational loads acting on a typical naval vessel is the muzzle blast from a gun. Simulating the muzzle blast load acting on a ship structure with CFD and ALE methods leads to large

  5. Predictive control of thermal state of blast furnace

    Science.gov (United States)

    Barbasova, T. A.; Filimonova, A. A.

    2018-05-01

    The work describes the structure of the model for predictive control of the thermal state of a blast furnace. The proposed model contains the following input parameters: coke rate; theoretical combustion temperature, comprising: natural gas consumption, blasting temperature, humidity, oxygen, blast furnace cooling water; blast furnace gas utilization rate. The output parameter is the cast iron temperature. The results for determining the cast iron temperature were obtained following the identification using the Hammerstein-Wiener model. The result of solving the cast iron temperature stabilization problem was provided for the calculated values of process parameters of the target area of the respective blast furnace operation mode.

  6. Water-Depth-Based Prediction Formula for the Blasting Vibration Velocity of Lighthouse Caused by Underwater Drilling Blasting

    OpenAIRE

    Gu, Wenbin; Wang, Zhenxiong; Liu, Jianqing; Xu, Jinglin; Liu, Xin; Cao, Tao

    2017-01-01

    Lighthouses are the most important hydraulic structures that should be protected during underwater drilling blasting. Thus, the effect of blasting vibration on lighthouse should be studied. On the basis of the dimensional analysis, we deduced a revised formula for water depth based on Sodev’s empirical formula and established the linear fitting model. During the underwater reef project in the main channel of Shipu Harbor in the Ningbo–Zhoushan Port, the blasting vibration data of the lighthou...

  7. KONAGAbase: a genomic and transcriptomic database for the diamondback moth, Plutella xylostella.

    Science.gov (United States)

    Jouraku, Akiya; Yamamoto, Kimiko; Kuwazaki, Seigo; Urio, Masahiro; Suetsugu, Yoshitaka; Narukawa, Junko; Miyamoto, Kazuhisa; Kurita, Kanako; Kanamori, Hiroyuki; Katayose, Yuichi; Matsumoto, Takashi; Noda, Hiroaki

    2013-07-09

    The diamondback moth (DBM), Plutella xylostella, is one of the most harmful insect pests for crucifer crops worldwide. DBM has rapidly evolved high resistance to most conventional insecticides such as pyrethroids, organophosphates, fipronil, spinosad, Bacillus thuringiensis, and diamides. Therefore, it is important to develop genomic and transcriptomic DBM resources for analysis of genes related to insecticide resistance, both to clarify the mechanism of resistance of DBM and to facilitate the development of insecticides with a novel mode of action for more effective and environmentally less harmful insecticide rotation. To contribute to this goal, we developed KONAGAbase, a genomic and transcriptomic database for DBM (KONAGA is the Japanese word for DBM). KONAGAbase provides (1) transcriptomic sequences of 37,340 ESTs/mRNAs and 147,370 RNA-seq contigs which were clustered and assembled into 84,570 unigenes (30,695 contigs, 50,548 pseudo singletons, and 3,327 singletons); and (2) genomic sequences of 88,530 WGS contigs with 246,244 degenerate contigs and 106,455 singletons from which 6,310 de novo identified repeat sequences and 34,890 predicted gene-coding sequences were extracted. The unigenes and predicted gene-coding sequences were clustered and 32,800 representative sequences were extracted as a comprehensive putative gene set. These sequences were annotated with BLAST descriptions, Gene Ontology (GO) terms, and Pfam descriptions, respectively. KONAGAbase contains rich graphical user interface (GUI)-based web interfaces for easy and efficient searching, browsing, and downloading sequences and annotation data. Five useful search interfaces consisting of BLAST search, keyword search, BLAST result-based search, GO tree-based search, and genome browser are provided. KONAGAbase is publicly available from our website (http://dbm.dna.affrc.go.jp/px/) through standard web browsers. KONAGAbase provides DBM comprehensive transcriptomic and draft genomic sequences with

  8. LTC vacuum blasting machine (concrete): Baseline report

    International Nuclear Information System (INIS)

    1997-01-01

    The LTC shot blast technology was tested and is being evaluated at Florida International University (FIU) as a baseline technology. In conjunction with FIU's evaluation of efficiency and cost, this report covers the evaluation conducted for safety and health issues. It is a commercially available technology and has been used for various projects at locations throughout the country. The LTC 1073 Vacuum Blasting Machine uses a high-capacity, direct-pressure blasting system which incorporates a continuous feed for the blast media. The blast media cleans the surface within the contained brush area of the blast. It incorporates a vacuum system which removes dust and debris from the surface as it is blasted. The safety and health evaluation during the testing demonstration focused on two main areas of exposure: dust and noise. Dust exposure during maintenance activities was minimal, but due to mechanical difficulties dust monitoring could not be conducted during operation. Noise exposure was significant. Further testing for each of these exposures is recommended because of the outdoor environment where the testing demonstration took place. This may cause the results to be inaccurate. It is feasible that the dust and noise levels will be higher in an enclosed environment. In addition, other safety and health issues found were ergonomics, heat stress, tripping hazards, electrical hazards, lockout/tagout, and arm-hand vibration

  9. Proceedings of the eighteenth annual conference on explosives and blasting technique

    International Nuclear Information System (INIS)

    Anon.

    1993-01-01

    This edition of the Proceedings of the Annual Conference on Explosives and Blasting Techniques is the eighteenth in a series published by the International Society of Explosives Engineers. The papers cover a wide variety of explosives and blasting techniques, including: rock mechanics, rock drilling, perimeter control handling and documenting blasting complaints, blast vibration frequencies, blasting techniques for surface and underground coal mines, explosives for permafrost blasting, lightning detection, use of slow motion video to analyze blasts, tunneling, and close-in blasting control. Papers have been processed individually for inclusion on the data base

  10. Tagging of blast resistance gene(s) to DNA markers and marker-assisted selection (MAS) in rice improvement

    International Nuclear Information System (INIS)

    Zhuang, J.Y.; Lu, J.; Qian, H.R.; Lin, H.X.; Zheng, K.L.

    1998-01-01

    This paper reports progress made on the tagging of blast resistance gene(s) to DNA markers and on the initiation of marker-assisted selection (MAS) for blast resistance in rice improvement. A pair of near isogenic lines, K8OR and K79S, were developed using a Chinese landrace Hong-jiao-zhan as the resistance donor. Ten putatively positive markers were identified by screening 177 mapped DNA markers. Using the F 2 population of 143 plants and the derived F 3 lines, three Restriction Fragment Length Polymorphism (RFLP) markers (RG81, RG869 and RZ397) on chromosome 12 of rice were identified to be closely linked to the blast resistance gene Pi-12(t). The genetic distance between Pi-12(t) and the closest marker RG869 was 5.1 cM. By employing the bulk segregant analysis (BSA) procedure, six of 199 arbitrary primers were found to produce positive Randomly Amplified Polymorphic DNA (RAPD) bands. Tight linkage between Pi-12(t) and three RAPD bands, each from a different primer, was confirmed after amplification of DNA of all F 2 individuals. Two fragments were cloned and sequenced, and two sequence characterised amplified re-ion (SCAR) markers were established. In two other F 3 populations, Xian-feng I/Tetep and Xian-feng, 1/Hong-jiao-zhan, the blast resistance was found to be controlled by interactions of two or more genes. One resistance gene was located in the vicinity of RG81 in both populations. Work to identify other gene(s) is currently under way. Marker assisted selection for blast resistance was initiated. Crosses were made between elite varieties and blast resistance donors to develop populations for DNA marker-assisted selection of blast resistance. In addition, 48 varieties widely used in current rice breeding programs were provided by rice breeders. DNA marker-based polymorphism among, these varieties and resistance donors were analysed to produce a database for future MAS program. (author)

  11. Mapping the space of genomic signatures.

    Directory of Open Access Journals (Sweden)

    Lila Kari

    Full Text Available We propose a computational method to measure and visualize interrelationships among any number of DNA sequences allowing, for example, the examination of hundreds or thousands of complete mitochondrial genomes. An "image distance" is computed for each pair of graphical representations of DNA sequences, and the distances are visualized as a Molecular Distance Map: Each point on the map represents a DNA sequence, and the spatial proximity between any two points reflects the degree of structural similarity between the corresponding sequences. The graphical representation of DNA sequences utilized, Chaos Game Representation (CGR, is genome- and species-specific and can thus act as a genomic signature. Consequently, Molecular Distance Maps could inform species identification, taxonomic classifications and, to a certain extent, evolutionary history. The image distance employed, Structural Dissimilarity Index (DSSIM, implicitly compares the occurrences of oligomers of length up to k (herein k = 9 in DNA sequences. We computed DSSIM distances for more than 5 million pairs of complete mitochondrial genomes, and used Multi-Dimensional Scaling (MDS to obtain Molecular Distance Maps that visually display the sequence relatedness in various subsets, at different taxonomic levels. This general-purpose method does not require DNA sequence alignment and can thus be used to compare similar or vastly different DNA sequences, genomic or computer-generated, of the same or different lengths. We illustrate potential uses of this approach by applying it to several taxonomic subsets: phylum Vertebrata, (superkingdom Protista, classes Amphibia-Insecta-Mammalia, class Amphibia, and order Primates. This analysis of an extensive dataset confirms that the oligomer composition of full mtDNA sequences can be a source of taxonomic information. This method also correctly finds the mtDNA sequences most closely related to that of the anatomically modern human (the Neanderthal

  12. New techniques for improved performance in surface blasting operation and optimisation of blast design parameters

    Energy Technology Data Exchange (ETDEWEB)

    Roy, P.P. [Central Mining Research Institute, Dhanbad (India). Blasting Dept.

    1999-02-01

    Experimental blasts were conducted for optimisation of blasting parameters using separate technologies involving non-electric initiation systems, air decking accessories in conjunction with different explosive products like emulsion (cartridge and site-mixed), slurries (cartridge and site-mixed) and ANFO. The cost associated with each such technology was then compared with the conventional methods of drilling and blasting operations. The results of cost analyses are given. Theoretical and practical aspects of such technologies and their best possible usage in order to establish the desired fragmentation, muck profile, wall control and ultimately the accepted level of costs are mentioned in subsequent sections. 16 refs., 17 figs., 8 plates, 11 tabs.

  13. BLAST-based structural annotation of protein residues using Protein Data Bank.

    Science.gov (United States)

    Singh, Harinder; Raghava, Gajendra P S

    2016-01-25

    In the era of next-generation sequencing where thousands of genomes have been already sequenced; size of protein databases is growing with exponential rate. Structural annotation of these proteins is one of the biggest challenges for the computational biologist. Although, it is easy to perform BLAST search against Protein Data Bank (PDB) but it is difficult for a biologist to annotate protein residues from BLAST search. A web-server StarPDB has been developed for structural annotation of a protein based on its similarity with known protein structures. It uses standard BLAST software for performing similarity search of a query protein against protein structures in PDB. This server integrates wide range modules for assigning different types of annotation that includes, Secondary-structure, Accessible surface area, Tight-turns, DNA-RNA and Ligand modules. Secondary structure module allows users to predict regular secondary structure states to each residue in a protein. Accessible surface area predict the exposed or buried residues in a protein. Tight-turns module is designed to predict tight turns like beta-turns in a protein. DNA-RNA module developed for predicting DNA and RNA interacting residues in a protein. Similarly, Ligand module of server allows one to predicted ligands, metal and nucleotides ligand interacting residues in a protein. In summary, this manuscript presents a web server for comprehensive annotation of a protein based on similarity search. It integrates number of visualization tools that facilitate users to understand structure and function of protein residues. This web server is available freely for scientific community from URL http://crdd.osdd.net/raghava/starpdb .

  14. Blasting at a Superfund chemical waste site

    International Nuclear Information System (INIS)

    Burns, D.R.

    1991-01-01

    During the summer of 1989, Maine Drilling and Blasting of Gardiner, Maine was contracted by Cayer Corporation of Harvard, Massachusetts to drill and blast an interceptor trench at the Nyanza Chemical Superfund Site in Ashland, Massachusetts. The interceptor trench was to be 1,365 feet long and to be blasted out of granite. The trench was to be 12 feet wide at the bottom with 1/1 slopes, the deepest cut being 30 feet deep. A French drain 12 feet wide by 15 to 35 feet deep was blasted below the main trench on a 2% slope from its center to each end. A French drain is an excavation where the rock is blasted but not dug. The trench would be used as a perimeter road with any ground water flow going through the French drain flowing to both ends of the trench. Being a Superfund project turned a simple blasting project into a regulatory nightmare. The US Environmental Protection Agency performed all the chemical related functions on site. The US Army Corps of Engineers was overseeing all related excavation and construction on site, as was the Massachusetts Department of Environmental Quality Engineering, the local Hazardous Wastes Council, and the local Fire Department. All parties had some input with the blasting and all issues had to be addressed. The paper outlines the project, how it was designed and completed. Also included is an outline of the blast plan to be submitted for approval, an outline of the Safety/Hazardous Waste training and a description of all the problems which arose during the project by various regulatory agencies

  15. Genome size variation in the genus Avena.

    Science.gov (United States)

    Yan, Honghai; Martin, Sara L; Bekele, Wubishet A; Latta, Robert G; Diederichsen, Axel; Peng, Yuanying; Tinker, Nicholas A

    2016-03-01

    Genome size is an indicator of evolutionary distance and a metric for genome characterization. Here, we report accurate estimates of genome size in 99 accessions from 26 species of Avena. We demonstrate that the average genome size of C genome diploid species (2C = 10.26 pg) is 15% larger than that of A genome species (2C = 8.95 pg), and that this difference likely accounts for a progression of size among tetraploid species, where AB genome configuration had similar genome sizes (average 2C = 25.74 pg). Genome size was mostly consistent within species and in general agreement with current information about evolutionary distance among species. Results also suggest that most of the polyploid species in Avena have experienced genome downsizing in relation to their diploid progenitors. Genome size measurements could provide additional quality control for species identification in germplasm collections, especially in cases where diploid and polyploid species have similar morphology.

  16. Blasting as a method for abandoned mine land reclamation

    International Nuclear Information System (INIS)

    Workman, J.L.; Fletcher, L.R.

    1991-01-01

    Blasting methods have been proposed for reclaiming abandoned underground coal mine sites having unstable conditions. The objective of blasting is twofold: the permanent stabilization of an area by the collapse of underground workings to prevent any future subsidence, and the use of blasting to close existing sinkholes. This paper presents the results of two research projects funded by the Bureau of Mines Abandoned Mine Land Research Program to investigate the feasibility of blasting to assist in the reclamation of shallow abandoned coal mine sites. Blasting tests were conducted at Beulah, North Dakota and at Scobey, Montana, involving different configurations. The first test was a 10-acre site where blasting was used to collapse regular room and pillar panels for which good mine layout information was available. The second test involved a one acre site containing very irregular workings for which there was little available information. Finally, blasting techniques were used to close 13 individual vertical openings. The depths to the coal seams were 60 feet or less at all sites. When blasting for Abandoned Mine Land Reclamation, material must be cast downward into the abandoned developments or laterally into the sinkhole. Designs based on cratering concepts and spherical charges worked well. The blasting techniques successfully collapsed and stabilized the test areas. Cost of reclamation for the two test sites are presented. Data from blast vibration monitoring are presented because control of vibrations is of concern when mitigation efforts are conducted near homes

  17. Blast densification trials for oilsands tailings

    Energy Technology Data Exchange (ETDEWEB)

    Port, A. [Klohn Crippen Berger Ltd., Vancouver, BC (Canada); Martens, S. [Klohn Crippen Berger Ltd., Calgary, AB (Canada); Eaton, T. [Shell Canada Ltd., Calgary, AB (Canada)

    2010-07-01

    The Shell Canada Muskeg River Mine External Tailings Facility (ETF) is an upstream constructed tailings facility located near Fort McMurray, Alberta. Raises have incrementally stepped out over the beach since construction of the starter dam and deposition within standing water has left some parts of the beach in a loose state. In order to assess the effectiveness of blast densification, a blast densification trial program that was conducted in 2006 at the ETF. The primary purpose of the test program was to determine the effectiveness of blast densification in tailings containing layers and zones of bitumen. The paper described the site characterization and explosive compaction trial program, with particular reference to test layout; drilling methodology; and blasting and timing sequence. The paper also described the instrumentation, including the seismographs; high pressure electric piezometers; low pressure electric piezometers; vibrating wire piezometers; inclinometers; settlement gauges; and surveys. Trial observations and post-trial observations were also presented. It was concluded that controlled blasting techniques could be used to safely induce liquefaction in localized areas within the tailings deposit, with a resulting increase in the tailings density. 5 refs., 1 tab., 14 figs.

  18. Full-scale testing of leakage of blast waves inside a partially vented room exposed to external air blast loading

    Science.gov (United States)

    Codina, R.; Ambrosini, D.

    2018-03-01

    For the last few decades, the effects of blast loading on structures have been studied by many researchers around the world. Explosions can be caused by events such as industrial accidents, military conflicts or terrorist attacks. Urban centers have been prone to various threats including car bombs, suicide attacks, and improvised explosive devices. Partially vented constructions subjected to external blast loading represent an important topic in protective engineering. The assessment of blast survivability inside structures and the development of design provisions with respect to internal elements require the study of the propagation and leakage of blast waves inside buildings. In this paper, full-scale tests are performed to study the effects of the leakage of blast waves inside a partially vented room that is subjected to different external blast loadings. The results obtained may be useful for proving the validity of different methods of calculation, both empirical and numerical. Moreover, the experimental results are compared with those computed using the empirical curves of the US Defense report/manual UFC 3-340. Finally, results of the dynamic response of the front masonry wall are presented in terms of accelerations and an iso-damage diagram.

  19. Environmental problems associated with blasting in mines: public apprehensions of damage due to blast vibrations - case studies

    Energy Technology Data Exchange (ETDEWEB)

    Padhi, S.N. [DGMS, Bhubaneswar (India)

    1994-12-31

    Blast vibrations may be felt in intensities as small as 1/100 of that required to cause any damage to structures. Therefore, the public response and thus complaints regarding damages are often imaginary. The paper deals with three case studies, involving alleged damage from blasting in surface and underground coal mines where public litigations and agitations resulted due to such apprehensions. The paper is written in simple technical language as the situations warranted that the blast vibration studies should be understood by the general public. 7 tabs.

  20. Massive injection of coal and superoxygenated blast into the blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Toxopeus, H.L.; Danloy, G.; Franssen, R.; Havelange, O. [Corus, IJmuiden (Netherlands)

    2002-07-01

    The aim of the present project was to demonstrate the industrial feasibility of a massive injection of coal, {+-}270 kg/tHM, combined with a high O{sub 2} enrichment of the blast. The coke rate would thus be reduced to well below 250 kg/tHM. A reference level of 200-220 kg coal/tHM was successfully accomplished. However, the technical condition of the blast furnace hearths overruled all ambitions, the anticipated trial scheme had to be abandoned and no further trials were performed. A very short trial was aborted shortly after reaching an injection level of around 265 coal/tHM, due to excessive generation of very fine sludge originating from incomplete combustion. This forced the operators to investigate the merits of combustion more in depth. At the aimed low coke-rate detailed information about the gas distribution is of utmost importance. Therefore, in conjunction with the industrial tests, CRM designed a gas tracing method. Measurement of the transfer time between the injection point (a tuyere) and the sampling points (on an above-burden probe) would allow deduction of the radial gas distribution. CRM made the design and the start-up of an installation built by Hoogovens on blast furnace 7 of IJmuiden. Since then, repeated measurements have shown that the gas transfer time profiles are consistent with the data measured at the blast furnace top and at the wall. The modifications of the moveable armour position are reflected better and faster on the gas distribution as measured by helium tracing than on the skin flow temperatures.

  1. Blast noise classification with common sound level meter metrics.

    Science.gov (United States)

    Cvengros, Robert M; Valente, Dan; Nykaza, Edward T; Vipperman, Jeffrey S

    2012-08-01

    A common set of signal features measurable by a basic sound level meter are analyzed, and the quality of information carried in subsets of these features are examined for their ability to discriminate military blast and non-blast sounds. The analysis is based on over 120 000 human classified signals compiled from seven different datasets. The study implements linear and Gaussian radial basis function (RBF) support vector machines (SVM) to classify blast sounds. Using the orthogonal centroid dimension reduction technique, intuition is developed about the distribution of blast and non-blast feature vectors in high dimensional space. Recursive feature elimination (SVM-RFE) is then used to eliminate features containing redundant information and rank features according to their ability to separate blasts from non-blasts. Finally, the accuracy of the linear and RBF SVM classifiers is listed for each of the experiments in the dataset, and the weights are given for the linear SVM classifier.

  2. Bomb blast imaging: bringing order to chaos.

    Science.gov (United States)

    Dick, E A; Ballard, M; Alwan-Walker, H; Kashef, E; Batrick, N; Hettiaratchy, S; Moran, C G

    2018-06-01

    Blast injuries are complex, severe, and outside of our everyday clinical practice, but every radiologist needs to understand them. By their nature, bomb blasts are unpredictable and affect multiple victims, yet require an immediate, coordinated, and whole-hearted response from all members of the clinical team, including all radiology staff. This article will help you gain the requisite expertise in blast imaging including recognising primary, secondary, and tertiary blast injuries. It will also help you understand the fundamental role that imaging plays during mass casualty attacks and how to avoid radiology becoming a bottleneck to the forward flow of severely injured patients as they are triaged and treated. Copyright © 2018. Published by Elsevier Ltd.

  3. On firework blasts and qualitative parameter dependency.

    Science.gov (United States)

    Zohdi, T I

    2016-01-01

    In this paper, a mathematical model is developed to qualitatively simulate the progressive time-evolution of a blast from a simple firework. Estimates are made for the blast radius that one can expect for a given amount of detonation energy and pyrotechnic display material. The model balances the released energy from the initial blast pulse with the subsequent kinetic energy and then computes the trajectory of the material under the influence of the drag from the surrounding air, gravity and possible buoyancy. Under certain simplifying assumptions, the model can be solved for analytically. The solution serves as a guide to identifying key parameters that control the evolving blast envelope. Three-dimensional examples are given.

  4. Systematic discovery of unannotated genes in 11 yeast species using a database of orthologous genomic segments

    LENUS (Irish Health Repository)

    OhEigeartaigh, Sean S

    2011-07-26

    Abstract Background In standard BLAST searches, no information other than the sequences of the query and the database entries is considered. However, in situations where two genes from different species have only borderline similarity in a BLAST search, the discovery that the genes are located within a region of conserved gene order (synteny) can provide additional evidence that they are orthologs. Thus, for interpreting borderline search results, it would be useful to know whether the syntenic context of a database hit is similar to that of the query. This principle has often been used in investigations of particular genes or genomic regions, but to our knowledge it has never been implemented systematically. Results We made use of the synteny information contained in the Yeast Gene Order Browser database for 11 yeast species to carry out a systematic search for protein-coding genes that were overlooked in the original annotations of one or more yeast genomes but which are syntenic with their orthologs. Such genes tend to have been overlooked because they are short, highly divergent, or contain introns. The key features of our software - called SearchDOGS - are that the database entries are classified into sets of genomic segments that are already known to be orthologous, and that very weak BLAST hits are retained for further analysis if their genomic location is similar to that of the query. Using SearchDOGS we identified 595 additional protein-coding genes among the 11 yeast species, including two new genes in Saccharomyces cerevisiae. We found additional genes for the mating pheromone a-factor in six species including Kluyveromyces lactis. Conclusions SearchDOGS has proven highly successful for identifying overlooked genes in the yeast genomes. We anticipate that our approach can be adapted for study of further groups of species, such as bacterial genomes. More generally, the concept of doing sequence similarity searches against databases to which external

  5. Barcode server: a visualization-based genome analysis system.

    Directory of Open Access Journals (Sweden)

    Fenglou Mao

    Full Text Available We have previously developed a computational method for representing a genome as a barcode image, which makes various genomic features visually apparent. We have demonstrated that this visual capability has made some challenging genome analysis problems relatively easy to solve. We have applied this capability to a number of challenging problems, including (a identification of horizontally transferred genes, (b identification of genomic islands with special properties and (c binning of metagenomic sequences, and achieved highly encouraging results. These application results inspired us to develop this barcode-based genome analysis server for public service, which supports the following capabilities: (a calculation of the k-mer based barcode image for a provided DNA sequence; (b detection of sequence fragments in a given genome with distinct barcodes from those of the majority of the genome, (c clustering of provided DNA sequences into groups having similar barcodes; and (d homology-based search using Blast against a genome database for any selected genomic regions deemed to have interesting barcodes. The barcode server provides a job management capability, allowing processing of a large number of analysis jobs for barcode-based comparative genome analyses. The barcode server is accessible at http://csbl1.bmb.uga.edu/Barcode.

  6. Drilling-and-blasting method of demolition

    Directory of Open Access Journals (Sweden)

    Sinitsyn Denis

    2018-01-01

    Full Text Available This article analyzes the experience and gives the examples of dismantling and demolition of the construction structures of the buildings and facilities using the drilling-and-blasting method. The drilling-and-blasting method is widely used in construction and reconstruction. The demolition means may be classified according to impact on a material of structures to be demolished and to forces application, where, by virtue of an impact energy type, we choose the blasting method. This method is used during the complete demolition or fragmentation of concrete, reinforced concrete, masonry structures, of old buildings and facilities demolition to their base or in the intended direction. Blasting method may be used as well during the steel and reinforced concrete structures demolition to the smaller easy-to-move parts. Reviewed are the organizational-process activities, which are performed during the various structures dismantling. Given are the areas of application for the various methods of structures demolition. Given is the example of demolition of “Sevemaya” boiler house brick chimney at the territory of Murmansk DSK using the blast in confined spaces of the operating company. Subject of research: methods of construction structures demolition in alarm situations and acts of God. Objects: determination of the most efficient demolition methods in the present conditions of construction operations development. Materials and methods: the developed activities on the construction structures dismantling are given. Results: the most efficient methods and ways of construction structures demolition are defined. Conclusions: it is required for improvement of methods and ways of the structures drilling-and-blasting demolition.

  7. Proceedings of the twenty-seventh annual conference on explosives and blasting techniques

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2001-07-01

    Various aspects of explosives and blasting techniques are covered. Those of particular interest to the coal industry buffer blasting versus cast blasting, post-blast cast profile shape prediction, fragmentation model to estimate ROM size distribution of soft rocks, blasting accidents, blast vibrations, ANFO explosives and carbon monoxide poisoning.

  8. Blast mitigation experimental and numerical studies

    CERN Document Server

    2013-01-01

    Presents experimental methods of material and structural response to dynamic blast loads Includes computational analysis of material and structural response to dynamic blast loads Offers mitigation measures for structures in various environments Relates lab experiments to larger field tests Features more than 150 illustrations

  9. Experimental Study and Engineering Practice of Pressured Water Coupling Blasting

    Directory of Open Access Journals (Sweden)

    J. X. Yang

    2017-01-01

    Full Text Available Overburden strata movement in large space stope is the major reason that induces the appearance of strong mining pressure. Presplitting blasting for hard coal rocks is crucial for the prevention and control of strong pressure in stope. In this study, pressured water coupling blasting technique was proposed. The process and effect of blasting were analyzed by orthogonal test and field practice. Results showed that the presence of pressure-bearing water and explosive cartridges in the drill are the main influence factors of the blasting effect of cement test block. The high load-transmitting performance of pore water and energy accumulation in explosive cartridges were analyzed. Noxious substances produced during the blasting process were properly controlled because of the moistening, cooling, and diluting effect of pore water. Not only the goal of safe and static rock fragmentation by high-explosive detonation but also a combination of superdynamic blast loading and static loading effect of the pressured water was achieved. Then the practice of blasting control of hard coal rocks in Datong coal mine was analyzed to determine reasonable parameters of pressured water coupling blasting. A good presplitting blasting control effect was achieved for the hard coal rocks.

  10. Effect of blasting on output increase of bucket wheel excavators

    Energy Technology Data Exchange (ETDEWEB)

    Musil, P.

    1987-12-01

    In brown coal surface mines, consolidated sediments become a problem as mining operations advance into greater depth below the original terrain. Owing to higher digging resistance, the output of bucket wheel excavators drops. This problem may be solved by blasting technology and using drilling machines with higher digging force. This paper describes the blasting operations at the Nastup Mines in Tusmice, Czechoslovakia. About 60% of blasting explosives used is a simple mixture of ammonium nitrate and fuel (ANFO), the rest falls on classic blasting gelatines and blasting explosives plasticized by slurry. It is found that blasting improves output by 30% while electric energy consumption is reduced.

  11. Effectiveness of eye armor during blast loading.

    Science.gov (United States)

    Bailoor, Shantanu; Bhardwaj, Rajneesh; Nguyen, Thao D

    2015-11-01

    Ocular trauma is one of the most common types of combat injuries resulting from the interaction of military personnel with improvised explosive devices. Ocular blast injury mechanisms are complex, and trauma may occur through various injury mechanisms. However, primary blast injuries (PBI) are an important cause of ocular trauma that may go unnoticed and result in significant damage to internal ocular tissues and visual impairment. Further, the effectiveness of commonly employed eye armor, designed for ballistic and laser protection, in lessening the severity of adverse blast overpressures (BOP) is unknown. In this paper, we employed a three-dimensional (3D) fluid-structure interaction computational model for assessing effectiveness of the eye armor during blast loading on human eyes and validated results against free field blast measurements by Bentz and Grimm (2013). Numerical simulations show that the blast waves focused on the ocular region because of reflections from surrounding facial features and resulted in considerable increase in BOP. We evaluated the effectiveness of spectacles and goggles in mitigating the pressure loading using the computational model. Our results corroborate experimental measurements showing that the goggles were more effective than spectacles in mitigating BOP loading on the eye. Numerical results confirmed that the goggles significantly reduced blast wave penetration in the space between the armor and the eyes and provided larger clearance space for blast wave expansion after penetration than the spectacles. The spectacles as well as the goggles were more effective in reducing reflected BOP at higher charge mass because of the larger decrease in dynamic pressures after the impact. The goggles provided greater benefit of reducing the peak pressure than the spectacles for lower charge mass. However, the goggles resulted in moderate, sustained elevated pressure loading on the eye, that became 50-100% larger than the pressure loading

  12. 22 CFR 121.11 - Military demolition blocks and blasting caps.

    Science.gov (United States)

    2010-04-01

    ... 22 Foreign Relations 1 2010-04-01 2010-04-01 false Military demolition blocks and blasting caps... blasting caps. Military demolition blocks and blasting caps referred to in Category IV(a) do not include the following articles: (a) Electric squibs. (b) No. 6 and No. 8 blasting caps, including electric...

  13. Investigations of primary blast-induced traumatic brain injury

    Science.gov (United States)

    Sawyer, T. W.; Josey, T.; Wang, Y.; Villanueva, M.; Ritzel, D. V.; Nelson, P.; Lee, J. J.

    2018-01-01

    The development of an advanced blast simulator (ABS) has enabled the reproducible generation of single-pulse shock waves that simulate free-field blast with high fidelity. Studies with rodents in the ABS demonstrated the necessity of head restraint during head-only exposures. When the head was not restrained, violent global head motion was induced by pressures that would not produce similar movement of a target the size and mass of a human head. This scaling artefact produced changes in brain function that were reminiscent of traumatic brain injury (TBI) due to impact-acceleration effects. Restraint of the rodent head eliminated these, but still produced subtle changes in brain biochemistry, showing that blast-induced pressure waves do cause brain deficits. Further experiments were carried out with rat brain cell aggregate cultures that enabled the conduct of studies without the gross movement encountered when using rodents. The suspension nature of this model was also exploited to minimize the boundary effects that complicate the interpretation of primary blast studies using surface cultures. Using this system, brain tissue was found not only to be sensitive to pressure changes, but also able to discriminate between the highly defined single-pulse shock waves produced by underwater blast and the complex pressure history exposures experienced by aggregates encased within a sphere and subjected to simulated air blast. The nature of blast-induced primary TBI requires a multidisciplinary research approach that addresses the fidelity of the blast insult, its accurate measurement and characterization, as well as the limitations of the biological models used.

  14. Windows .NET Network Distributed Basic Local Alignment Search Toolkit (W.ND-BLAST

    Directory of Open Access Journals (Sweden)

    Oliver Melvin J

    2005-04-01

    Full Text Available Abstract Background BLAST is one of the most common and useful tools for Genetic Research. This paper describes a software application we have termed Windows .NET Distributed Basic Local Alignment Search Toolkit (W.ND-BLAST, which enhances the BLAST utility by improving usability, fault recovery, and scalability in a Windows desktop environment. Our goal was to develop an easy to use, fault tolerant, high-throughput BLAST solution that incorporates a comprehensive BLAST result viewer with curation and annotation functionality. Results W.ND-BLAST is a comprehensive Windows-based software toolkit that targets researchers, including those with minimal computer skills, and provides the ability increase the performance of BLAST by distributing BLAST queries to any number of Windows based machines across local area networks (LAN. W.ND-BLAST provides intuitive Graphic User Interfaces (GUI for BLAST database creation, BLAST execution, BLAST output evaluation and BLAST result exportation. This software also provides several layers of fault tolerance and fault recovery to prevent loss of data if nodes or master machines fail. This paper lays out the functionality of W.ND-BLAST. W.ND-BLAST displays close to 100% performance efficiency when distributing tasks to 12 remote computers of the same performance class. A high throughput BLAST job which took 662.68 minutes (11 hours on one average machine was completed in 44.97 minutes when distributed to 17 nodes, which included lower performance class machines. Finally, there is a comprehensive high-throughput BLAST Output Viewer (BOV and Annotation Engine components, which provides comprehensive exportation of BLAST hits to text files, annotated fasta files, tables, or association files. Conclusion W.ND-BLAST provides an interactive tool that allows scientists to easily utilizing their available computing resources for high throughput and comprehensive sequence analyses. The install package for W.ND-BLAST is

  15. Towards understanding the first genome sequence of a crenarchaeon by genome annotation using clusters of orthologous groups of proteins (COGs).

    Science.gov (United States)

    Natale, D A; Shankavaram, U T; Galperin, M Y; Wolf, Y I; Aravind, L; Koonin, E V

    2000-01-01

    Standard archival sequence databases have not been designed as tools for genome annotation and are far from being optimal for this purpose. We used the database of Clusters of Orthologous Groups of proteins (COGs) to reannotate the genomes of two archaea, Aeropyrum pernix, the first member of the Crenarchaea to be sequenced, and Pyrococcus abyssi. A. pernix and P. abyssi proteins were assigned to COGs using the COGNITOR program; the results were verified on a case-by-case basis and augmented by additional database searches using the PSI-BLAST and TBLASTN programs. Functions were predicted for over 300 proteins from A. pernix, which could not be assigned a function using conventional methods with a conservative sequence similarity threshold, an approximately 50% increase compared to the original annotation. A. pernix shares most of the conserved core of proteins that were previously identified in the Euryarchaeota. Cluster analysis or distance matrix tree construction based on the co-occurrence of genomes in COGs showed that A. pernix forms a distinct group within the archaea, although grouping with the two species of Pyrococci, indicative of similar repertoires of conserved genes, was observed. No indication of a specific relationship between Crenarchaeota and eukaryotes was obtained in these analyses. Several proteins that are conserved in Euryarchaeota and most bacteria are unexpectedly missing in A. pernix, including the entire set of de novo purine biosynthesis enzymes, the GTPase FtsZ (a key component of the bacterial and euryarchaeal cell-division machinery), and the tRNA-specific pseudouridine synthase, previously considered universal. A. pernix is represented in 48 COGs that do not contain any euryarchaeal members. Many of these proteins are TCA cycle and electron transport chain enzymes, reflecting the aerobic lifestyle of A. pernix. Special-purpose databases organized on the basis of phylogenetic analysis and carefully curated with respect to known and

  16. Oil injection into the blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Dongsheng Liao; Mannila, P.; Haerkki, J.

    1997-12-31

    Fuel injection techniques have been extensively used in the commercial blast furnaces, a number of publications concerning the fuels injection have been reported. This present report only summarizes the study achievements of oil injection due to the research need the of authors, it includes the following parts: First, the background and the reasons reducing coke rate of oil injection are analyzed. Reducing coke rate and decreasing the ironmaking costs are the main deriving forces, the contents of C, H and ash are direct reasons reducing coke rate. It was also found that oil injection had great effects on the state of blast furnace, it made operation stable, center gas flow develop fully, pressure drop increase, descent speed of burden materials decrease and generation of thermal stagnation phenomena, the quality of iron was improved. Based on these effects, as an ideal mean, oil injection was often used to adjust the state of blast furnace. Secondly, combustion behavior of oil in the raceway and tuyere are discussed. The distribution of gas content was greatly changed, the location of CO, H{sub 2} generation was near the tuyere; the temperature peak shifts from near the raceway boundary to the tuyere. Oxygen concentration and blast velocity were two important factors, it was found that increasing excess oxygen ratio 0.9 to 1.3, the combustion time of oil decreases 0.5 msec, an increase of the blast velocity results in increasing the flame length. In addition, the nozzle position and oil rate had large effects on the combustion of oil. Based on these results, the limit of oil injection is also discussed, soot formation is the main reason limiting to further increase oil injection rate, it was viewed that there were three types of soot which were generated under blast furnace operating conditions. The reason generating soot is the incomplete conversion of the fuel. Finally, three methods improving combustion of oil in the raceway are given: Improvement of oil

  17. Efficient Algorithms for Analyzing Segmental Duplications, Deletions, and Inversions in Genomes

    Science.gov (United States)

    Kahn, Crystal L.; Mozes, Shay; Raphael, Benjamin J.

    Segmental duplications, or low-copy repeats, are common in mammalian genomes. In the human genome, most segmental duplications are mosaics consisting of pieces of multiple other segmental duplications. This complex genomic organization complicates analysis of the evolutionary history of these sequences. Earlier, we introduced a genomic distance, called duplication distance, that computes the most parsimonious way to build a target string by repeatedly copying substrings of a source string. We also showed how to use this distance to describe the formation of segmental duplications according to a two-step model that has been proposed to explain human segmental duplications. Here we describe polynomial-time exact algorithms for several extensions of duplication distance including models that allow certain types of substring deletions and inversions. These extensions will permit more biologically realistic analyses of segmental duplications in genomes.

  18. Soft Computing Approach to Evaluate and Predict Blast-Induced Ground Vibration

    Science.gov (United States)

    Khandelwal, Manoj

    2010-05-01

    Drilling and blasting is still one of the major economical operations to excavate a rock mass. The consumption of explosive has been increased many folds in recent years. These explosives are mainly used for the exploitation of minerals in mining industry or the removal of undesirable rockmass for community development. The amount of chemical energy converted into mechanical energy to fragment and displace the rockmass is minimal. Only 20 to 30% of this explosive energy is utilized for the actual fragmentation and displacement of rockmass and rest of the energy is wasted in undesirable ill effects, like, ground vibration, air over pressure, fly rock, back break, noise, etc. Ground vibration induced due to blasting is very crucial and critical as compared to other ill effects due to involvement of public residing in the close vicinity of mining sites, regulating and ground vibration standards setting agencies together with mine owners and environmentalists and ecologists. Also, with the emphasis shifting towards eco-friendly, sustainable and geo-environmental activities, the field of ground vibration have now become an important and imperative parameter for safe and smooth running of any mining and civil project. The ground vibration is a wave motion, spreading outward from the blast like ripples spreading outwards due to impact of a stone dropped into a pond of water. As the vibration passes through the surface structures, it induces vibrations in those structures also. Sometimes, due to high ground vibration level, dwellings may get damaged and there is always confrontation between mine management and the people residing in the surroundings of the mine area. There is number of vibration predictors available suggested by different researchers. All the predictors estimate the PPV based on mainly two parameters (maximum charge used per delay and distance between blast face to monitoring point). However, few predictors considered attenuation/damping factor too. For

  19. The use of blast furnace slag

    Directory of Open Access Journals (Sweden)

    V. Václavík

    2012-10-01

    Full Text Available The paper presents the results of experimental research that dealt with the substitution of finely ground blast furnace slag for Portland cement in the course of simple concrete manufacturing. Physical and mechanical properties of experimental concrete mixtures based on finely ground blast furnace slag were observed.

  20. 30 CFR 56.6312 - Secondary blasting.

    Science.gov (United States)

    2010-07-01

    ... Mineral Resources MINE SAFETY AND HEALTH ADMINISTRATION, DEPARTMENT OF LABOR METAL AND NONMETAL MINE SAFETY AND HEALTH SAFETY AND HEALTH STANDARDS-SURFACE METAL AND NONMETAL MINES Explosives Use § 56.6312 Secondary blasting. Secondary blasts fired at the same time in the same work area shall be initiated from...

  1. Safety management system during rock blasting at FRFCF construction site

    International Nuclear Information System (INIS)

    Vijayakumaran, C.; Kandasamy, S.; Satpathy, K.K.

    2016-01-01

    Blasting is an important activity during rock excavation to reach required depth for obtaining stability of the civil structure. For the construction of various Plant Buildings of Fast Reactor Fuel Cycle Facility (FRFCF), IGCAR at Kalpakkam, based on the geological survey it is required to reach a depth of 21.4 meters from existing ground level. This paper details about the procedures and precaution adopted during the rock blasting activities at FRFCF site. The volume of rock removed by blasting was 3 lakh cubic meters. The total number of blasting carried out was 304 using 105.73 tons of blasting material. The entire blasting work could be completed within 174 days without any incident. (author)

  2. Application of Carbon Composite Bricks for Blast Furnace Hearth

    Science.gov (United States)

    Zuo, Haibin; Wang, Cong; Zhang, Jianliang; Zhao, Yongan; Jiao, Kexin

    Traditional refractory materials for blast furnace hearth lining are mainly composed of carbon bricks and the ceramic cup. However, these materials can't meet the demands for long service life design of blast furnaces. In this paper, a new refractory called carbon composite brick (CCB) was introduced, which combined the advantages of carbon bricks and the ceramic cup. In this case, the resistance of the CCB against corrosion was equal to the ceramic cup and the thermal conductivity of the CCB was equal to carbon bricks. From the results of more than 20 blast furnaces, the CCB could be well used in small blast furnaces and large blast furnaces. In the bad condition of low grade burden and high smelting intensity, the CCB gave full play to the role of cooling system, and effectively resisted the erosion of hot metal to improve the service life of blast furnaces.

  3. A computational model of blast loading on the human eye.

    Science.gov (United States)

    Bhardwaj, Rajneesh; Ziegler, Kimberly; Seo, Jung Hee; Ramesh, K T; Nguyen, Thao D

    2014-01-01

    Ocular injuries from blast have increased in recent wars, but the injury mechanism associated with the primary blast wave is unknown. We employ a three-dimensional fluid-structure interaction computational model to understand the stresses and deformations incurred by the globe due to blast overpressure. Our numerical results demonstrate that the blast wave reflections off the facial features around the eye increase the pressure loading on and around the eye. The blast wave produces asymmetric loading on the eye, which causes globe distortion. The deformation response of the globe under blast loading was evaluated, and regions of high stresses and strains inside the globe were identified. Our numerical results show that the blast loading results in globe distortion and large deviatoric stresses in the sclera. These large deviatoric stresses may be indicator for the risk of interfacial failure between the tissues of the sclera and the orbit.

  4. EXPERIMENTAL STUDY ON THE STABILITY OF SURROUNDING ROCK IN TUNNEL BLASTING CONSTRUCTION

    Directory of Open Access Journals (Sweden)

    Hongxian Fu

    2018-04-01

    Full Text Available In this study, criteria and blasting technologies are introduced in order to control the stability of surrounding rock of tunnel built using drill-and-blast safety. The paper is composed of three parts, namely, a blast vibration propagation law in roof surrounding rock in close proximity to tunnel face, two formulae to calculate particle critical vibration velocity of shotcrete and key structural element at the roof of tunnel, and innovative technologies of tunnel blasting. The blast vibration propagation law is the base to control the stability of surrounding rock during tunnel blasting. Based on Morhr-Coulomb criterion and the dynamic analysis, two formulae to calculate the critical particle vibration velocity are proposed. Based on a series of trial blasts using electronic detonators, two innovative blasting technologies are derived. One is the blast holes detonated one by one by using electronic detonator, and another is the blast holes detonated by combining initiation system of electronic detonators and nonel detonators. The use of electronic detonators in tunnel blasting not only leads to a smaller blast vibration but also to a smaller extent of the EDZ (excavation damaged zone.

  5. Adaptive GDDA-BLAST: fast and efficient algorithm for protein sequence embedding.

    Directory of Open Access Journals (Sweden)

    Yoojin Hong

    2010-10-01

    Full Text Available A major computational challenge in the genomic era is annotating structure/function to the vast quantities of sequence information that is now available. This problem is illustrated by the fact that most proteins lack comprehensive annotations, even when experimental evidence exists. We previously theorized that embedded-alignment profiles (simply "alignment profiles" hereafter provide a quantitative method that is capable of relating the structural and functional properties of proteins, as well as their evolutionary relationships. A key feature of alignment profiles lies in the interoperability of data format (e.g., alignment information, physio-chemical information, genomic information, etc.. Indeed, we have demonstrated that the Position Specific Scoring Matrices (PSSMs are an informative M-dimension that is scored by quantitatively measuring the embedded or unmodified sequence alignments. Moreover, the information obtained from these alignments is informative, and remains so even in the "twilight zone" of sequence similarity (<25% identity. Although our previous embedding strategy was powerful, it suffered from contaminating alignments (embedded AND unmodified and high computational costs. Herein, we describe the logic and algorithmic process for a heuristic embedding strategy named "Adaptive GDDA-BLAST." Adaptive GDDA-BLAST is, on average, up to 19 times faster than, but has similar sensitivity to our previous method. Further, data are provided to demonstrate the benefits of embedded-alignment measurements in terms of detecting structural homology in highly divergent protein sequences and isolating secondary structural elements of transmembrane and ankyrin-repeat domains. Together, these advances allow further exploration of the embedded alignment data space within sufficiently large data sets to eventually induce relevant statistical inferences. We show that sequence embedding could serve as one of the vehicles for measurement of low

  6. Reefgenomics.Org - a repository for marine genomics data

    KAUST Repository

    Liew, Yi Jin

    2016-11-01

    Over the last decade, technological advancements have substantially decreased the cost and time of obtaining large amounts of sequencing data. Paired with the exponentially increased computing power, individual labs are now able to sequence genomes or transcriptomes to investigate biological questions of interest. This has led to a significant increase in available sequence data. Although the bulk of data published in articles are stored in public sequence databases, very often, only raw sequencing data are available; miscellaneous data such as assembled transcriptomes, genome annotations etc. are not easily obtainable through the same means. Here, we introduce our website (http://reefgenomics.org) that aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, we provide (where applicable) a genome browser to explore available genomic features, and a BLAST interface to search through the hosted sequences. Through the interface, multiple datasets can be queried simultaneously, allowing for the retrieval of matching sequences from organisms of interest. The minimalistic, no-frills interface reduces visual clutter, making it convenient for end-users to search and explore processed sequence data.

  7. Reefgenomics.Org - a repository for marine genomics data

    KAUST Repository

    Liew, Yi Jin; Aranda, Manuel; Voolstra, Christian R.

    2016-01-01

    Over the last decade, technological advancements have substantially decreased the cost and time of obtaining large amounts of sequencing data. Paired with the exponentially increased computing power, individual labs are now able to sequence genomes or transcriptomes to investigate biological questions of interest. This has led to a significant increase in available sequence data. Although the bulk of data published in articles are stored in public sequence databases, very often, only raw sequencing data are available; miscellaneous data such as assembled transcriptomes, genome annotations etc. are not easily obtainable through the same means. Here, we introduce our website (http://reefgenomics.org) that aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, we provide (where applicable) a genome browser to explore available genomic features, and a BLAST interface to search through the hosted sequences. Through the interface, multiple datasets can be queried simultaneously, allowing for the retrieval of matching sequences from organisms of interest. The minimalistic, no-frills interface reduces visual clutter, making it convenient for end-users to search and explore processed sequence data.

  8. Traumatic brain injury produced by exposure to blasts, a critical problem in current wars: biomarkers, clinical studies, and animal models

    Science.gov (United States)

    Dixon, C. Edward

    2011-06-01

    Traumatic brain injury (TBI) resulting from exposure to blast energy released by Improvised Explosive Devices (IEDs) has been recognized as the "signature injury" of Operation Iraqi Freedom and Operation Enduring Freedom. Repeated exposure to mild blasts may produce subtle deficits that are difficult to detect and quantify. Several techniques have been used to detect subtle brain dysfunction including neuropsychological assessments, computerized function testing and neuroimaging. Another approach is based on measurement of biologic substances (e.g. proteins) that are released into the body after a TBI. Recent studies measuring biomarkers in CSF and serum from patients with severe TBI have demonstrated the diagnostic, prognostic, and monitoring potential. Advancement of the field will require 1) biochemical mining for new biomarker candidates, 2) clinical validation of utility, 3) technical advances for more sensitive, portable detectors, 4) novel statistical approach to evaluate multiple biomarkers, and 5) commercialization. Animal models have been developed to simulate elements of blast-relevant TBI including gas-driven shock tubes to generate pressure waves similar to those produced by explosives. These models can reproduce hallmark clinical neuropathological responses such as neuronal degeneration and inflammation, as well as behavioral impairments. An important application of these models is to screen novel therapies and conduct proteomic, genomic, and lipodomic studies to mine for new biomarker candidates specific to blast relevant TBI.

  9. Cross-family translational genomics of abiotic stress-responsive genes between Arabidopsis and Medicago truncatula.

    Directory of Open Access Journals (Sweden)

    Daejin Hyung

    Full Text Available Cross-species translation of genomic information may play a pivotal role in applying biological knowledge gained from relatively simple model system to other less studied, but related, genomes. The information of abiotic stress (ABS-responsive genes in Arabidopsis was identified and translated into the legume model system, Medicago truncatula. Various data resources, such as TAIR/AtGI DB, expression profiles and literatures, were used to build a genome-wide list of ABS genes. tBlastX/BlastP similarity search tools and manual inspection of alignments were used to identify orthologous genes between the two genomes. A total of 1,377 genes were finally collected and classified into 18 functional criteria of gene ontology (GO. The data analysis according to the expression cues showed that there was substantial level of interaction among three major types (i.e., drought, salinity and cold stress of abiotic stresses. In an attempt to translate the ABS genes between these two species, genomic locations for each gene were mapped using an in-house-developed comparative analysis platform. The comparative analysis revealed that fragmental colinearity, represented by only 37 synteny blocks, existed between Arabidopsis and M. truncatula. Based on the combination of E-value and alignment remarks, estimated translation rate was 60.2% for this cross-family translation. As a prelude of the functional comparative genomic approaches, in-silico gene network/interactome analyses were conducted to predict key components in the ABS responses, and one of the sub-networks was integrated with corresponding comparative map. The results demonstrated that core members of the sub-network were well aligned with previously reported ABS regulatory networks. Taken together, the results indicate that network-based integrative approaches of comparative and functional genomics are important to interpret and translate genomic information for complex traits such as abiotic stresses.

  10. Comprehensive Numerical Modeling of the Blast Furnace Ironmaking Process

    Science.gov (United States)

    Zhou, Chenn; Tang, Guangwu; Wang, Jichao; Fu, Dong; Okosun, Tyamo; Silaen, Armin; Wu, Bin

    2016-05-01

    Blast furnaces are counter-current chemical reactors, widely utilized in the ironmaking industry. Hot reduction gases injected from lower regions of the furnace ascend, reacting with the descending burden. Through this reaction process, iron ore is reduced into liquid iron that is tapped from the furnace hearth. Due to the extremely harsh environment inside the blast furnace, it is difficult to measure or observe internal phenomena during operation. Through the collaboration between steel companies and the Center for Innovation through Visualization and Simulation, multiple computational fluid dynamics (CFD) models have been developed to simulate the complex multiphase reacting flow in the three regions of the furnace, the shaft, the raceway, and the hearth. The models have been used effectively to troubleshoot and optimize blast furnace operations. In addition, the CFD models have been integrated with virtual reality. An interactive virtual blast furnace has been developed for training purpose. This paper summarizes the developments and applications of blast furnace CFD models and the virtual blast furnace.

  11. Survey of rice blast race identity for blast resistance gene identification in the USA and Puerto Rico

    Science.gov (United States)

    Rice blast disease is a significant threat to stable rice production in the USA and worldwide. The major resistance gene (Pi-ta) located within a cluster of resistance genes on rice chromosome 12 has been demonstrated to confer resistance to the rice blast disease. Katy, a rice cultivar released in ...

  12. Computational modeling of blast induced whole-body injury: a review.

    Science.gov (United States)

    Chanda, Arnab; Callaway, Christian

    2018-02-01

    Blast injuries affect millions of lives across the globe due to its traumatic after effects on the brain and the whole body. To date, military grade armour materials are designed to mitigate ballistic and shrapnel attacks but are less effective in resisting blast impacts. In order to improve blast absorption characteristics of armours, the first key step is thoroughly understands the effects of blasts on the human body itself. In the last decade, a plethora of experimental and computational work has been carried out to investigate the mechanics and pathophysiology of Traumatic Brain Injury (TBI). However, very few attempts have been made so far to study the effect of blasts on the various other parts of the body such as the sensory organs (eyes and ears), nervous system, thorax, extremities, internal organs (such as the lungs) and the skeletal system. While an experimental evaluation of blast effects on such physiological systems is difficult, developing finite element (FE) models could allow the recreation of realistic blast scenarios on full scale human models and simulate the effects. The current article reviews the state-of-the-art in computational research in blast induced whole-body injury modelling, which would not only help in identifying the areas in which further research is required, but would also be indispensable for understanding body location specific armour design criteria for improved blast injury mitigation.

  13. Ice blasting device for washing pump

    International Nuclear Information System (INIS)

    Hirose, Yasuo.

    1992-01-01

    In a nuclear power plant, when the inside of a pump casing such as a recycling pump is scrubbed, since operator's safety should be ensured, it requires a large-scaled operation. Then, a cover is attached to a flange of the pump casing, in which a driving portion is disposed passing through the cover vertically movably and rotatably, an arm is disposed bendably to the top end of the arm, and a blast nozzle is disposed to the top end of the arm for jetting ice particles, with a camera being disposed to the blast nozzle. The inside of the casing can be scrubbed safely and rapidly by an ice blast method by remote operation while monitoring the state of scrubbing for the inside of the casing by a camera. Further, since the flange of the pump casing for installing the ice blast device is covered by the cover, mists are not scattered to the outside. In addition, mists may be sucked and removed by an exhaustion duct. (N.H.)

  14. Main: Nucleotide Analysis [KOME

    Lifescience Database Archive (English)

    Full Text Available Nucleotide Analysis Japonica genome blast search result Result of blastn search against jap...onica genome sequence kome_japonica_genome_blast_search_result.zip kome_japonica_genome_blast_search_result ...

  15. ORGANISATIONAL-TECHNOLOGICAL CHARACTERISTICS OF BLASTING WORKS ON THE GRIČ TUNNEL

    Directory of Open Access Journals (Sweden)

    Zvonimir Deković

    2005-12-01

    Full Text Available The paper describes organisational-technological characteristics of blasting works during the excavation of the Grič Tunnel. The significance of blasting works during the excavation of the tunnel is shown through adjustment of blasting parameters taking into consideration the dynamics of the works, cost-effectiveness and influence of geological circumstances. Successfulness of blasting directly influences the subsequent tunnel excavation cycle both in terms of duration as well as eventually in terms of influence on the entire tunnel investment. Comparison of changes of basic blasting parameters during tunnel excavation ensured optimal excavation progress with minimal price per meter of tunnel progress.

  16. PSAT: A web tool to compare genomic neighborhoods of multiple prokaryotic genomes

    Directory of Open Access Journals (Sweden)

    Wasnick Michael

    2008-03-01

    Full Text Available Abstract Background The conservation of gene order among prokaryotic genomes can provide valuable insight into gene function, protein interactions, or events by which genomes have evolved. Although some tools are available for visualizing and comparing the order of genes between genomes of study, few support an efficient and organized analysis between large numbers of genomes. The Prokaryotic Sequence homology Analysis Tool (PSAT is a web tool for comparing gene neighborhoods among multiple prokaryotic genomes. Results PSAT utilizes a database that is preloaded with gene annotation, BLAST hit results, and gene-clustering scores designed to help identify regions of conserved gene order. Researchers use the PSAT web interface to find a gene of interest in a reference genome and efficiently retrieve the sequence homologs found in other bacterial genomes. The tool generates a graphic of the genomic neighborhood surrounding the selected gene and the corresponding regions for its homologs in each comparison genome. Homologs in each region are color coded to assist users with analyzing gene order among various genomes. In contrast to common comparative analysis methods that filter sequence homolog data based on alignment score cutoffs, PSAT leverages gene context information for homologs, including those with weak alignment scores, enabling a more sensitive analysis. Features for constraining or ordering results are designed to help researchers browse results from large numbers of comparison genomes in an organized manner. PSAT has been demonstrated to be useful for helping to identify gene orthologs and potential functional gene clusters, and detecting genome modifications that may result in loss of function. Conclusion PSAT allows researchers to investigate the order of genes within local genomic neighborhoods of multiple genomes. A PSAT web server for public use is available for performing analyses on a growing set of reference genomes through any

  17. Determination of Destress Blasting Effectiveness Using Seismic Source Parameters

    Science.gov (United States)

    Wojtecki, Łukasz; Mendecki, Maciej J.; Zuberek, Wacaław M.

    2017-12-01

    Underground mining of coal seams in the Upper Silesian Coal Basin is currently performed under difficult geological and mining conditions. The mining depth, dislocations (faults and folds) and mining remnants are responsible for rockburst hazard in the highest degree. This hazard can be minimized by using active rockburst prevention, where destress blastings play an important role. Destress blastings in coal seams aim to destress the local stress concentrations. These blastings are usually performed from the longwall face to decrease the stress level ahead of the longwall. An accurate estimation of active rockburst prevention effectiveness is important during mining under disadvantageous geological and mining conditions, which affect the risk of rockburst. Seismic source parameters characterize the focus of tremor, which may be useful in estimating the destress blasting effects. Investigated destress blastings were performed in coal seam no. 507 during its longwall mining in one of the coal mines in the Upper Silesian Coal Basin under difficult geological and mining conditions. The seismic source parameters of the provoked tremors were calculated. The presented preliminary investigations enable a rapid estimation of the destress blasting effectiveness using seismic source parameters, but further analysis in other geological and mining conditions with other blasting parameters is required.

  18. Evaluation of blast-induced vibration effects on structures 1

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Jong Rim; Jeon, Gyu Shick; Lee, Dae Soo; Joo, Kwang Ho; Lee, Woong Keon [Korea Electrotechnology Research Inst., Changwon (Korea, Republic of); Ryu, Chang Ha; Chung, So Keul; Lee, Kyung Won; Shin, Hee Soon; Chun, Sun Woo; Park, Yeon Jun; Synn, Joong Ho; Choi, Byung Hee [Korea Inst. of Geology Mining and Materials, Taejon (Korea, Republic of)

    1995-12-31

    Due to the difficulties of obtaining construction site for new plants, following ones are inevitably being built in the site adjacent to existing power plants. Therefore considerable thought has been recently given to the dynamic loading generated by blasting works near the plants to maintain the safety of structures and facilities in power plants. Our own standard for safety level of blast vibration is not prepared yet, and foreign standards have been generally employed without theoretical and experimental verification. Safety-related structures of power plants and facilities have to be protected against the effects of possible hazards due to blast vibration. Earthquakes have been considered a major dynamic design loading as a requirement of plant design, but the effects of blast-induced vibration are not. In order to ensure the safety, rational safe criterion should be established and blast design should be satisfy it, which requires the development of a model for prediction of vibration level through more systematic measurement and analysis. The main objectives of the study are : to provide background data for establishing the rational safe vibration limits, to develop models for prediction of blast vibration level, to establish safe blast design criterion, and to accumulate techniques for field measurements, data acquisition and analysis (author). 80 refs., 347 figs.

  19. A Numerical Study on the Screening of Blast-Induced Waves for Reducing Ground Vibration

    Science.gov (United States)

    Park, Dohyun; Jeon, Byungkyu; Jeon, Seokwon

    2009-06-01

    Blasting is often a necessary part of mining and construction operations, and is the most cost-effective way to break rock, but blasting generates both noise and ground vibration. In urban areas, noise and vibration have an environmental impact, and cause structural damage to nearby structures. Various wave-screening methods have been used for many years to reduce blast-induced ground vibration. However, these methods have not been quantitatively studied for their reduction effect of ground vibration. The present study focused on the quantitative assessment of the effectiveness in vibration reduction of line-drilling as a screening method using a numerical method. Two numerical methods were used to analyze the reduction effect toward ground vibration, namely, the “distinct element method” and the “non-linear hydrocode.” The distinct element method, by particle flow code in two dimensions (PFC 2D), was used for two-dimensional parametric analyses, and some cases of two-dimensional analyses were analyzed three-dimensionally using AUTODYN 3D, the program of the non-linear hydrocode. To analyze the screening effectiveness of line-drilling, parametric analyses were carried out under various conditions, with the spacing, diameter of drill holes, distance between the blasthole and line-drilling, and the number of rows of drill holes, including their arrangement, used as parameters. The screening effectiveness was assessed via a comparison of the vibration amplitude between cases both with and without screening. Also, the frequency distribution of ground motion of the two cases was investigated through fast Fourier transform (FFT), with the differences also examined. From our study, it was concluded that line-drilling as a screening method of blast-induced waves was considerably effective under certain design conditions. The design details for field application have also been proposed.

  20. An ANN-based approach to predict blast-induced ground vibration of Gol-E-Gohar iron ore mine, Iran

    Directory of Open Access Journals (Sweden)

    Mahdi Saadat

    2014-02-01

    Full Text Available Blast-induced ground vibration is one of the inevitable outcomes of blasting in mining projects and may cause substantial damage to rock mass as well as nearby structures and human beings. In this paper, an attempt has been made to present an application of artificial neural network (ANN to predict the blast-induced ground vibration of the Gol-E-Gohar (GEG iron mine, Iran. A four-layer feed-forward back propagation multi-layer perceptron (MLP was used and trained with Levenberg–Marquardt algorithm. To construct ANN models, the maximum charge per delay, distance from blasting face to monitoring point, stemming and hole depth were taken as inputs, whereas peak particle velocity (PPV was considered as an output parameter. A database consisting of 69 data sets recorded at strategic and vulnerable locations of GEG iron mine was used to train and test the generalization capability of ANN models. Coefficient of determination (R2 and mean square error (MSE were chosen as the indicators of the performance of the networks. A network with architecture 4-11-5-1 and R2 of 0.957 and MSE of 0.000722 was found to be optimum. To demonstrate the supremacy of ANN approach, the same 69 data sets were used for the prediction of PPV with four common empirical models as well as multiple linear regression (MLR analysis. The results revealed that the proposed ANN approach performs better than empirical and MLR models.

  1. A study in cost analysis of aggregate production as depending on drilling and blasting design

    Science.gov (United States)

    Bilim, Niyazi; Çelik, Arif; Kekeç, Bilgehan

    2017-10-01

    Since aggregate production has vital importance for many engineering projects-such as construction, highway and plant-mixed concrete production-this study was undertaken to determine how the costs for such production are affected by the design of drilling and blasting processes used. Aggregates are used in the production of concrete and asphalt, which are critical resources for the construction sector. The ongoing population increase and the growth of living standards around the world drive the increasing demand for these products. As demand grows, competition has naturally arisen among producers in the industry. Competition in the market has directly affected prices, which leads to the need for new measures and cost analysis on production costs. The cost calculation is one of the most important parameters in mining activities. Aggregate production operations include drilling, blasting, secondary crushing (if necessary), loading, hauling and crushing-screening, and each of these factors affects cost. In this study, drilling and blasting design parameters (such as hole diameter, hole depth, hole distance and burden) were investigated and evaluated for their effect on the total cost of quarrying these products, based on a particular quarry selected for this research. As the result of evaluation, the parameters actually driving costs have been identified, and their effects on the cost have been determined. In addition, some suggestions are presented regarding production design which may lead to avoiding increased production costs.

  2. A multiscale approach to blast neurotrauma modeling:Part II: Methodology for inducing blast injury to in vitro models

    Directory of Open Access Journals (Sweden)

    Gwen B. Effgen

    2012-02-01

    Full Text Available Due to the prominent role of improvised explosive devices (IEDs in wounding patterns of U.S. war-fighters in Iraq and Afghanistan, blast injury has risen to a new level of importance and is recognized to be a major cause of injuries to the brain. However, an injury risk-function for microscopic, macroscopic, behavioral, and neurological deficits has yet to be defined. While operational blast injuries can be very complex and thus difficult to analyze, a simplified blast injury model would facilitate studies correlating biological outcomes with blast biomechanics to define tolerance criteria. Blast-induced traumatic brain injury (bTBI results from the translation of a shock wave in air, such as that produced by an IED, into a pressure wave within the skull-brain complex. Our blast injury methodology recapitulates this phenomenon in vitro, allowing for control of the injury biomechanics via a compressed-gas shock tube used in conjunction with a custom-designed, fluid-filled receiver that contains the living culture. The receiver converts the air shock wave into a fast-rising pressure transient with minimal reflections, mimicking the intracranial pressure history in blast. We have developed an organotypic hippocampal slice culture model that exhibits cell death when exposed to a 530  17.7 kPa peak overpressure with a 1.026 ± 0.017 ms duration and 190 ± 10.7 kPa-ms impulse in-air. We have also injured a simplified in vitro model of the blood-brain barrier, which exhibits disrupted integrity immediately following exposure to 581  10.0 kPa peak overpressure with a 1.067 ms ± 0.006 ms duration and 222 ± 6.9 kPa-ms impulse in-air. To better prevent and treat bTBI, both the initiating biomechanics and the ensuing pathobiology must be understood in greater detail. A well-characterized, in vitro model of bTBI, in conjunction with animal models, will be a powerful tool for developing strategies to mitigate the risks of bTBI.

  3. Numerical analysis of blast flow-field of baffle type muzzle brake

    Energy Technology Data Exchange (ETDEWEB)

    Kim, D.H. [Graduate School, Chungnam National University, Taejon (Korea); Ko, S. [Chungnam National University, Taejon (Korea)

    1998-11-01

    A three-dimensional unsteady, inviscid blast flow-field of a baffle type muzzle brake has been simulated by solving the Euler equation. The blast flow-field includes the effect of the free air blast, precursor blast flow and the propellant blast gas flow. Chimera grid scheme was used to generate 9 multi-block volume grids for the complex geometry. The evolution of the blast flow-field is presented by showing the contours of pressure, density and Mach number for certain time step. The comparison of the calculated and measured peak pressures on the surfaces of the muzzle brake is also presented. (author). 4 refs., 5 figs., 1 tab.

  4. Modeling and simulation of explosion effectiveness as a function of blast and crowd characteristics

    Science.gov (United States)

    Usmani, Zeeshan-Ul-Hassan

    Suicide bombing has become one of the most lethal and favorite modus operandi of terrorist organizations around the world. On average, there is a suicide bombing attack every six days somewhere in the world. While various attempts have been made to assess the impact of explosions on structures and military personnel, little has been done on modeling the impact of a blast wave on a crowd in civilian settings. The assessment of an explosion's effect on a crowd can lead to better management of disasters, triage of patients, locating blast victims under the debris, development of protective gear, and safe distance recommendations to reduce the casualties. The overall goal of this work is to predict the magnitude of injuries and lethality on humans from a blast-wave with various explosive and crowd characteristics, and to compare, contrast, and analyze the performance of explosive and injury models against the real-life data of suicide bombing incidents. This thesis introduces BlastSim---a physics based stationary multi-agent simulation platform to model and simulate a suicide bombing event. The agents are constrained by the physical characteristics and mechanics of the blast wave. The BlastSim is programmed to test, analyze, and validate the results of different model combinations under various conditions with different sets of parameters, such as the crowd and explosive characteristics, blockage and human shields, fragmentation and the bomber's position, in 2-dimensional and 3-dimensional environments. The suicide bombing event can be re-created for forensic analysis. The proposed model combinations show a significant performance---the Harold Brode explosive model with Catherine Lee injury model using the blockage stands out consistently to be the best with an overall cumulative accuracy of 87.6%. When comparing against actual data, overall, prediction accuracy can be increased by 71% using this model combination. The J. Clutter with Reflection explosive model using

  5. Blast-Resistant Improvement of Sandwich Armor Structure with Aluminum Foam Composite

    OpenAIRE

    Yang, Shu; Qi, Chang

    2013-01-01

    Sandwich armor structures with aluminum foam can be utilized to protect a military vehicle from harmful blast load such as a landmine explosion. In this paper, a system-level dynamic finite element model is developed to simulate the blast event and to evaluate the blast-resistant performance of the sandwich armor structure. It is found that a sandwich armor structure with only aluminum foam is capable of mitigating crew injuries under a moderate blast load. However, a severe blast load causes...

  6. Control of City Shallow Buried Tunnel Blasting Hazard to Surface Buildings

    Directory of Open Access Journals (Sweden)

    Yang Deqiang

    2015-01-01

    Full Text Available Combining with the blasting test of an under-construction tunnel, this paper optimizes the overall blasting construction scheme. The optimized blasting scheme is used in the site construction test and the peak particle vibration velocity is strictly controlled under working conditions through blasting vibration monitoring to ensure the safety of surrounding buildings and structures in the construction process. The corresponding control measures are proposed to reduce the blasting vibration which brings certain guiding significance to the following construction project.

  7. A Blast Wave Model With Viscous Corrections

    International Nuclear Information System (INIS)

    Yang, Z; Fries, R J

    2017-01-01

    Hadronic observables in the final stage of heavy ion collision can be described well by fluid dynamics or blast wave parameterizations. We improve existing blast wave models by adding shear viscous corrections to the particle distributions in the Navier-Stokes approximation. The specific shear viscosity η/s of a hadron gas at the freeze-out temperature is a new parameter in this model. We extract the blast wave parameters with viscous corrections from experimental data which leads to constraints on the specific shear viscosity at kinetic freeze-out. Preliminary results show η/s is rather small. (paper)

  8. Behavior of coke in large blast furnaces

    Energy Technology Data Exchange (ETDEWEB)

    Nakamura, N

    1978-01-01

    Three blast furnaces were quenched in operation and the contents were examined; the temperature distribution was also measured, using Tempil pellets. The furnaces examined included a low productivity one, which was examined to see what was wrong. Changes in the quality of coke as it descends in the furnace, and coke behavior in the raceway and hearth are reported. The functions required of coke, and the effects of poor coke quality, are explained, together with the coke quality required in large blast furnaces. A theoretical study of the role of coke in large blast furnaces is included.

  9. A Blast Wave Model With Viscous Corrections

    Science.gov (United States)

    Yang, Z.; Fries, R. J.

    2017-04-01

    Hadronic observables in the final stage of heavy ion collision can be described well by fluid dynamics or blast wave parameterizations. We improve existing blast wave models by adding shear viscous corrections to the particle distributions in the Navier-Stokes approximation. The specific shear viscosity η/s of a hadron gas at the freeze-out temperature is a new parameter in this model. We extract the blast wave parameters with viscous corrections from experimental data which leads to constraints on the specific shear viscosity at kinetic freeze-out. Preliminary results show η/s is rather small.

  10. Collapse of rocks by blasting. Razrusheniye gornykh porod Vzryvom

    Energy Technology Data Exchange (ETDEWEB)

    Sukhanov, A F; Kutuzov, B N

    1983-01-01

    Information is provided about drilling boreholes and wells, explosives and the means for initiating them, storage, transporting and calculation of the explosive materials. Physical essence of the destructive, scientific and air effect of the blast are presented, principles of arrangement and calculation of the charges, reasons for malfunctions and methods of eliminating them, measures for protecting the surrounding objects from harmful effect of the industrial blast. Questions are examined of planning, organization and safety of the blasting operations. The second edition (first edition 1967) has been revised with regard for changes that occurred in the field of blasting operations.

  11. Vibration tests on pile-group foundations using large-scale blast excitation

    International Nuclear Information System (INIS)

    Tanaka, Hideo; Hijikata, Katsuichirou; Hashimoto, Takayuki; Fujiwara, Kazushige; Kontani, Osamu; Miyamoto, Yuji; Suzuki, Atsushi

    2005-01-01

    Extensive vibration tests have been performed on pile-supported structures at a large-scale mining site. Ground motions induced by large-scale blasting operations were used as excitation forces for vibration tests. The main objective of this research is to investigate the dynamic behavior of pile-supported structures, in particular, pile-group effects. Two test structures were constructed in an excavated 4 m deep pit. One structure had 25 steel tubular piles and the other had 4 piles. The super-structures were exactly the same. The test pit was backfilled with sand of appropriate grain size distributions in order to obtain good compaction, especially between the 25 piles. Accelerations were measured at the structures, in the test pit and in the adjacent free field, and pile strains were measured. The vibration tests were performed six times with different levels of input motions. The maximum horizontal acceleration recorded at the adjacent ground surface varied from 57 cm/s 2 to 1683 cm/s 2 according to the distances between the test site and the blast areas. Maximum strains were 13,400 micro-strains were recorded at the pile top of the 4-pile structure, which means that these piles were subjected to yielding

  12. SPOCS: Software for Predicting and Visualizing Orthology/Paralogy Relationships Among Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Curtis, Darren S.; Phillips, Aaron R.; Callister, Stephen J.; Conlan, Sean; McCue, Lee Ann

    2013-10-15

    At the rate that prokaryotic genomes can now be generated, comparative genomics studies require a flexible method for quickly and accurately predicting orthologs among the rapidly changing set of genomes available. SPOCS implements a graph-based ortholog prediction method to generate a simple tab-delimited table of orthologs and in addition, html files that provide a visualization of the predicted ortholog/paralog relationships to which gene/protein expression metadata may be overlaid. AVAILABILITY AND IMPLEMENTATION: A SPOCS web application is freely available at http://cbb.pnnl.gov/portal/tools/spocs.html. Source code for Linux systems is also freely available under an open source license at http://cbb.pnnl.gov/portal/software/spocs.html; the Boost C++ libraries and BLAST are required.

  13. NeisseriaBase: a specialised Neisseria genomic resource and analysis platform.

    Science.gov (United States)

    Zheng, Wenning; Mutha, Naresh V R; Heydari, Hamed; Dutta, Avirup; Siow, Cheuk Chuen; Jakubovics, Nicholas S; Wee, Wei Yee; Tan, Shi Yang; Ang, Mia Yang; Wong, Guat Jah; Choo, Siew Woh

    2016-01-01

    Background. The gram-negative Neisseria is associated with two of the most potent human epidemic diseases: meningococcal meningitis and gonorrhoea. In both cases, disease is caused by bacteria colonizing human mucosal membrane surfaces. Overall, the genus shows great diversity and genetic variation mainly due to its ability to acquire and incorporate genetic material from a diverse range of sources through horizontal gene transfer. Although a number of databases exist for the Neisseria genomes, they are mostly focused on the pathogenic species. In this present study we present the freely available NeisseriaBase, a database dedicated to the genus Neisseria encompassing the complete and draft genomes of 15 pathogenic and commensal Neisseria species. Methods. The genomic data were retrieved from National Center for Biotechnology Information (NCBI) and annotated using the RAST server which were then stored into the MySQL database. The protein-coding genes were further analyzed to obtain information such as calculation of GC content (%), predicted hydrophobicity and molecular weight (Da) using in-house Perl scripts. The web application was developed following the secure four-tier web application architecture: (1) client workstation, (2) web server, (3) application server, and (4) database server. The web interface was constructed using PHP, JavaScript, jQuery, AJAX and CSS, utilizing the model-view-controller (MVC) framework. The in-house developed bioinformatics tools implemented in NeisseraBase were developed using Python, Perl, BioPerl and R languages. Results. Currently, NeisseriaBase houses 603,500 Coding Sequences (CDSs), 16,071 RNAs and 13,119 tRNA genes from 227 Neisseria genomes. The database is equipped with interactive web interfaces. Incorporation of the JBrowse genome browser in the database enables fast and smooth browsing of Neisseria genomes. NeisseriaBase includes the standard BLAST program to facilitate homology searching, and for Virulence Factor

  14. NeisseriaBase: a specialised Neisseria genomic resource and analysis platform

    Directory of Open Access Journals (Sweden)

    Wenning Zheng

    2016-03-01

    Full Text Available Background. The gram-negative Neisseria is associated with two of the most potent human epidemic diseases: meningococcal meningitis and gonorrhoea. In both cases, disease is caused by bacteria colonizing human mucosal membrane surfaces. Overall, the genus shows great diversity and genetic variation mainly due to its ability to acquire and incorporate genetic material from a diverse range of sources through horizontal gene transfer. Although a number of databases exist for the Neisseria genomes, they are mostly focused on the pathogenic species. In this present study we present the freely available NeisseriaBase, a database dedicated to the genus Neisseria encompassing the complete and draft genomes of 15 pathogenic and commensal Neisseria species. Methods. The genomic data were retrieved from National Center for Biotechnology Information (NCBI and annotated using the RAST server which were then stored into the MySQL database. The protein-coding genes were further analyzed to obtain information such as calculation of GC content (%, predicted hydrophobicity and molecular weight (Da using in-house Perl scripts. The web application was developed following the secure four-tier web application architecture: (1 client workstation, (2 web server, (3 application server, and (4 database server. The web interface was constructed using PHP, JavaScript, jQuery, AJAX and CSS, utilizing the model-view-controller (MVC framework. The in-house developed bioinformatics tools implemented in NeisseraBase were developed using Python, Perl, BioPerl and R languages. Results. Currently, NeisseriaBase houses 603,500 Coding Sequences (CDSs, 16,071 RNAs and 13,119 tRNA genes from 227 Neisseria genomes. The database is equipped with interactive web interfaces. Incorporation of the JBrowse genome browser in the database enables fast and smooth browsing of Neisseria genomes. NeisseriaBase includes the standard BLAST program to facilitate homology searching, and for Virulence

  15. Seismic safety in conducting large-scale blasts

    Science.gov (United States)

    Mashukov, I. V.; Chaplygin, V. V.; Domanov, V. P.; Semin, A. A.; Klimkin, M. A.

    2017-09-01

    In mining enterprises to prepare hard rocks for excavation a drilling and blasting method is used. With the approach of mining operations to settlements the negative effect of large-scale blasts increases. To assess the level of seismic impact of large-scale blasts the scientific staff of Siberian State Industrial University carried out expertise for coal mines and iron ore enterprises. Determination of the magnitude of surface seismic vibrations caused by mass explosions was performed using seismic receivers, an analog-digital converter with recording on a laptop. The registration results of surface seismic vibrations during production of more than 280 large-scale blasts at 17 mining enterprises in 22 settlements are presented. The maximum velocity values of the Earth’s surface vibrations are determined. The safety evaluation of seismic effect was carried out according to the permissible value of vibration velocity. For cases with exceedance of permissible values recommendations were developed to reduce the level of seismic impact.

  16. Fungal genome resources at NCBI

    Science.gov (United States)

    Robbertse, B.; Tatusova, T.

    2011-01-01

    The National Center for Biotechnology Information (NCBI) is well known for the nucleotide sequence archive, GenBank and sequence analysis tool BLAST. However, NCBI integrates many types of biomolecular data from variety of sources and makes it available to the scientific community as interactive web resources as well as organized releases of bulk data. These tools are available to explore and compare fungal genomes. Searching all databases with Fungi [organism] at http://www.ncbi.nlm.nih.gov/ is the quickest way to find resources of interest with fungal entries. Some tools though are resources specific and can be indirectly accessed from a particular database in the Entrez system. These include graphical viewers and comparative analysis tools such as TaxPlot, TaxMap and UniGene DDD (found via UniGene Homepage). Gene and BioProject pages also serve as portals to external data such as community annotation websites, BioGrid and UniProt. There are many different ways of accessing genomic data at NCBI. Depending on the focus and goal of research projects or the level of interest, a user would select a particular route for accessing genomic databases and resources. This review article describes methods of accessing fungal genome data and provides examples that illustrate the use of analysis tools. PMID:22737589

  17. Proceedings of the seventeenth annual conference on explosives and blasting technique. Volume 1

    International Nuclear Information System (INIS)

    Anon.

    1991-01-01

    Papers from this conference dealt with the following topics: surface and underground mine blasting, control of blast effects in sensitive areas, blasthole deviation, regulatory impact when blasting at Superfund sites, computer-aided blast design and monitoring, tunneling techniques, shaft excavations, video camera analysis of blasting operations, soil densification, cost optimization, mine blasting accidents, non-electric initiation systems, and delay detonators. Papers have been indexed separately for inclusion on the data base

  18. High-speed measurement of firearm primer blast waves

    OpenAIRE

    Courtney, Michael; Daviscourt, Joshua; Eng, Jonathan; Courtney, Amy

    2012-01-01

    This article describes a method and results for direct high-speed measurements of firearm primer blast waves employing a high-speed pressure transducer located at the muzzle to record the blast pressure wave produced by primer ignition. Key findings are: 1) Most of the lead styphnate based primer models tested show 5.2-11.3% standard deviation in the magnitudes of their peak pressure. 2) In contrast, lead-free diazodinitrophenol (DDNP) based primers had standard deviations of the peak blast p...

  19. Assessment of Blasting Operations Effects During Highway Tunnel Construction

    Directory of Open Access Journals (Sweden)

    Valašková Veronika

    2015-12-01

    Full Text Available Blasting operations are one of the fundamental parts of daily civil engineering. Drilling and blasting still remain the only possible ways of tunnelling in very adverse geological conditions. However, this method is a source of various disadvantages, the main one being tremors propagating through the geological environment which not only affect buildings, but also disturb the comfort of living in the vicinity of the source. Designing this procedure is mostly done using standardized empirical relations. This article shows the possibility of using a FEM technique in predicting blast effects. This approach is demonstrated in a simple case study on the impact of blasting operations on steel pipes.

  20. The Air Blast Wave from a Nuclear Explosion

    Science.gov (United States)

    Reines, Frederick

    The sudden, large scale release of energy in the explosion of a nuclear bomb in air gives rise, in addition to nuclear emanations such as neutrons and gamma rays, to an extremely hot, rapidly expanding mass of air.** The rapidly expanding air mass has an initial temperature in the vicinity of a few hundred thousand degrees and for this reason it glows in its early stages with an intensity of many suns. It is important that the energy density in this initial "ball of fire" is of the order of 3 × 103 times that found in a detonating piece of TNT and hence that the initial stages of the large scale air motion produced by a nuclear explosion has no counterpart in an ordinary. H. E. explosion. Further, the relatively low temperatures ˜2,000°C associated with the initial stages of an H. E. detonation implies that the thermal radiation which it emits is a relatively insignificant fraction of the total energy involves. This point is made more striking when it is remembered that the thermal energy emitted by a hot object varies directly with the temperature in the Rayleigh Jeans region appropriate to the present discussion. The expansion of the air mass heated by the nuclear reaction produces, in qualitatively the same manner as in an H.E. explosion or the bursting of a high pressure balloon, an intense sharp pressure pulse, a shock wave, in the atmosphere. As the pressure pulse spreads outward it weakens due to the combined effects of divergence and the thermodynamically irreversible nature of the shock wave. The air comprising such a pressure pulse or blast wave moves first radially outward and then back towards the center as the blast wave passes. Since a permanent outward displacement of an infinite mass of air would require unlimited energy, the net outward displacement of the air distant from an explosion must approach zero with increasing distance. As the distance from the explosion is diminished the net outward displacement due to irreversible shock heating of

  1. Bomb blast mass casualty incidents: initial triage and management of injuries.

    Science.gov (United States)

    Goh, S H

    2009-01-01

    Bomb blast injuries are no longer confined to battlefields. With the ever present threat of terrorism, we should always be prepared for bomb blasts. Bomb blast injuries tend to affect air-containing organs more, as the blast wave tends to exert a shearing force on air-tissue interfaces. Commonly-injured organs include the tympanic membranes, the sinuses, the lungs and the bowel. Of these, blast lung injury is the most challenging to treat. The clinical picture is a mix of acute respiratory distress syndrome and air embolism, and the institution of positive pressure ventilation in the presence of low venous pressures could cause systemic arterial air embolism. The presence of a tympanic membrane perforation is not a reliable indicator of the presence of a blast injury in the other air-containing organs elsewhere. Radiological imaging of the head, chest and abdomen help with the early identification of blast lung injury, head injury, abdominal injury, eye and sinus injuries, as well as any penetration by foreign bodies. In addition, it must be borne in mind that bomb blasts could also be used to disperse radiological and chemical agents.

  2. The fate of injectant coal in blast furnaces: The origin of extractable materials of high molecular mass in blast furnace carryover dusts

    Energy Technology Data Exchange (ETDEWEB)

    Dong, S.N.; Wu, L.; Paterson, N.; Herod, A.A.; Dugwell, D.R.; Kandiyoti, R. [University of London Imperial College of Science & Technology, London (United Kingdom). Dept. of Chemical Engineering

    2005-07-01

    The aim of the work was to investigate the fate of injectant coal in blast furnaces and the origin of extractable materials in blast furnace carryover dusts. Two sets of samples including injectant coal and the corresponding carryover dusts from a full sized blast furnace and a pilot scale rig have been examined. The samples were extracted using 1-methyl-2-pyrrolidinone (NMP) solvent and the extracts studied by size exclusion chromatography (SEC). The blast furnace carryover dust extracts contained high molecular weight carbonaceous material, of apparent mass corresponding to 10{sup 7}-10{sup 8} u, by polystyrene calibration. In contrast, the feed coke and char prepared in a wire mesh reactor under high temperature conditions did not give any extractable material. Meanwhile, controlled combustion experiments in a high-pressure wire mesh reactor suggest that the extent of combustion of injectant coal in the blast furnace tuyeres and raceways is limited by time of exposure and very low oxygen concentration. It is thus likely that the extractable, soot-like material in the blast furnace dust originated in tars is released by the injectant coal. Our results suggest that the unburned tars were thermally altered during the upward path within the furnace, giving rise to the formation of heavy molecular weight (soot-like) materials.

  3. Blast casting requires fresh assessment of methods

    Energy Technology Data Exchange (ETDEWEB)

    Pilshaw, S.R.

    1987-08-01

    The article discusses the reasons why conventional blasting operations, mainly that of explosive products, drilling and initiation methods are inefficient, and suggests new methods and materials to overcome the problems of the conventional operations. The author suggests that the use of bulk ANFO for casting, instead of high energy and density explosives with high velocity detonation is more effective in producing heave action results. Similarly the drilling of smaller blast holes than is conventional allows better loading distribution of explosives in the rock mass. The author also suggests that casting would be more efficient if the shot rows were loaded differently to produce a variable burden blasting pattern.

  4. Control of blast overpressure and vibrations at the Underground Research Laboratory

    International Nuclear Information System (INIS)

    Kuzyk, G.W.; Onagi, D.P.; Mohanty, B.

    1991-01-01

    AECL Research (AECL) has constructed an Underground Research Laboratory (URL) as a facility for research and development in the Canadian Nuclear Fuel Waste Management Program. The objectives of the program are to develop and evaluate the technology to ensure safe, permanent disposal of Canada's nuclear fuel waste. Several multidisciplinary experiments and engineering demonstrations are planned for the URL over the next ten years. In 1989, AECL excavated a test room for the Buffer/Container Experiment at the 240 Level. The blasts were designed to limit vibration and overpressure damage because the excavation was located close to existing furnishings and services that were very susceptible to blast-induced vibration and overpressure. An experimental room, which contained sensitive instrumentation, was located within 30 m of the initial blasts. A concrete floor slab, timber curtains and a bulkhead were installed to protect furnishings and services from fly-rock and overpressure. Five of the initial blasts were monitored. This paper describes the results of the monitoring program and the effectiveness of the blast design, floor slab and timber curtains and bulkhead in reducing blast overpressure and vibrations at the blast site. It is shown that greater than a 20-fold reduction in both blast vibrations and air overpressures can be achieved with specific combinations of blast design, installation of timber curtains and construction of a concrete floor slab

  5. Primary blast-induced traumatic brain injury: lessons from lithotripsy

    Science.gov (United States)

    Nakagawa, A.; Ohtani, K.; Armonda, R.; Tomita, H.; Sakuma, A.; Mugikura, S.; Takayama, K.; Kushimoto, S.; Tominaga, T.

    2017-11-01

    Traumatic injury caused by explosive or blast events is traditionally divided into four mechanisms: primary, secondary, tertiary, and quaternary blast injury. The mechanisms of blast-induced traumatic brain injury (bTBI) are biomechanically distinct and can be modeled in both in vivo and in vitro systems. The primary bTBI injury mechanism is associated with the response of brain tissue to the initial blast wave. Among the four mechanisms of bTBI, there is a remarkable lack of information regarding the mechanism of primary bTBI. On the other hand, 30 years of research on the medical application of shock waves (SWs) has given us insight into the mechanisms of tissue and cellular damage in bTBI, including both air-mediated and underwater SW sources. From a basic physics perspective, the typical blast wave consists of a lead SW followed by shock-accelerated flow. The resultant tissue injury includes several features observed in primary bTBI, such as hemorrhage, edema, pseudo-aneurysm formation, vasoconstriction, and induction of apoptosis. These are well-described pathological findings within the SW literature. Acoustic impedance mismatch, penetration of tissue by shock/bubble interaction, geometry of the skull, shear stress, tensile stress, and subsequent cavitation formation are all important factors in determining the extent of SW-induced tissue and cellular injury. In addition, neuropsychiatric aspects of blast events need to be taken into account, as evidenced by reports of comorbidity and of some similar symptoms between physical injury resulting in bTBI and the psychiatric sequelae of post-traumatic stress. Research into blast injury biophysics is important to elucidate specific pathophysiologic mechanisms of blast injury, which enable accurate differential diagnosis, as well as development of effective treatments. Herein we describe the requirements for an adequate experimental setup when investigating blast-induced tissue and cellular injury; review SW physics

  6. Evaluation of Blast Resistance of Fiber Reinforced Composite Specimens under Contact Blast Load

    Science.gov (United States)

    Janota, O.; Foglar, M.

    2017-09-01

    This paper presents results of experimental programme which took place in 2014, 2015 and 2016. Experiments were focused on the resistance of full scale concrete panels subjected to contact blast loading. Specimens were loaded by contact blast by plastic explosive. All specimens were reinforced concrete slabs made of fiber concrete. Basalt mesh and textile sheets were added to some of the experiments for creating more heterogeneous material to achieve better resistance of the specimens. Evaluation of experiments was mainly focused on the damaged area on the contact side and soffit of the specimens. Dependency of the final damage of concrete panels on the weight of explosive and concrete strength was assessed.

  7. Evaluating the efficacy of a structure-derived amino acid substitution matrix in detecting protein homologs by BLAST and PSI-BLAST

    Directory of Open Access Journals (Sweden)

    Nalin CW Goonesekere

    2009-06-01

    Full Text Available Nalin CW GoonesekereDepartment of Chemistry and Biochemistry, University of Northern iowa, Cedar Falls, IA, USAAbstract: The large numbers of protein sequences generated by whole genome sequencing projects require rapid and accurate methods of annotation. The detection of homology through computational sequence analysis is a powerful tool in determining the complex evolutionary and functional relationships that exist between proteins. Homology search algorithms employ amino acid substitution matrices to detect similarity between proteins sequences. The substitution matrices in common use today are constructed using sequences aligned without reference to protein structure. Here we present amino acid substitution matrices constructed from the alignment of a large number of protein domain structures from the structural classification of proteins (SCOP database. We show that when incorporated into the homology search algorithms BLAST and PSI-blaST, the structure-based substitution matrices enhance the efficacy of detecting remote homologs. Keywords: computational biology, protein homology, amino acid substitution matrix, protein structure

  8. Blasting Damage Predictions by Numerical Modeling in Siahbishe Pumped Storage Powerhouse

    Science.gov (United States)

    Eslami, Majid; Goshtasbi, Kamran

    2018-04-01

    One of the popular methods of underground and surface excavations is the use of blasting. Throughout this method of excavation, the loading resulted from blasting can be affected by different geo-mechanical and structural parameters of rock mass. Several factors affect turbulence in underground structures some of which are explosion, vibration, and stress impulses caused by the neighbouring blasting products. In investigating the blasting mechanism one should address the processes which expand with time and cause seismic events. To protect the adjoining structures against any probable deconstruction or damage, it is very important to model the blasting process prior to any actual operation. Efforts have been taken in the present study to demonstrate the potentiality of numerical methods in predicting the specified parameters in order to prevent any probable destruction. For this purpose the blasting process was modeled, according to its natural implementation, in one of the tunnels of Siahbishe dam by the 3DEC and AUTODYN 3D codes. 3DEC was used for modeling the blasting environment as well as the blast holes and AUTODYN 3D for modeling the explosion process in the blast hole. In this process the output of AUTODYN 3D, which is a result of modeling the blast hole and is in the form of stress waves, is entered into 3DEC. For analyzing the amount of destruction made by the blasting operation, the key parameter of Peak Particle Velocity was used. In the end, the numerical modeling results have been compared with the data recorded by the seismographs planted through the tunnel. As the results indicated 3DEC and AUTODYN 3D proved appropriate for analyzing such an issue. Therefore, by means of these two softwares one can analyze explosion processes prior to their implementation and make close estimation of the damage resulting from these processes.

  9. Scale testing of a partially confined blast chamber

    CSIR Research Space (South Africa)

    Grundling, W

    2012-10-01

    Full Text Available in pressure readings. A scale model of the blast chamber, Emily, was constructed with the addition of a pendulum plate hanging concentrically covering 65% of the open area. PURPOSE OF SCALED BLAST CHAMBER The purpose of this particular test is to evaluate... PHASE Illustrated in Figure 3 and 4 are the results obtained during testing of the scaled blast chamber. In both cases the pressure dissipates over time, showing pulsating behaviour as the shockwaves reflect off the chamber walls. By looking...

  10. Complete genome sequence of Menghai rhabdovirus, a novel mosquito-borne rhabdovirus from China.

    Science.gov (United States)

    Sun, Qiang; Zhao, Qiumin; An, Xiaoping; Guo, Xiaofang; Zuo, Shuqing; Zhang, Xianglilan; Pei, Guangqian; Liu, Wenli; Cheng, Shi; Wang, Yunfei; Shu, Peng; Mi, Zhiqiang; Huang, Yong; Zhang, Zhiyi; Tong, Yigang; Zhou, Hongning; Zhang, Jiusong

    2017-04-01

    Menghai rhabdovirus (MRV) was isolated from Aedes albopictus in Menghai county of Yunnan Province, China, in August 2010. Whole-genome sequencing of MRV was performed using an Ion PGM™ Sequencer. We found that MRV is a single-stranded, negative-sense RNA virus. The complete genome of MRV has 10,744 nt, with short inverted repeat termini, encoding five typical rhabdovirus proteins (N, P, M, G, and L) and an additional small hypothetical protein. Nucleotide BLAST analysis using the BLASTn method showed that the genome sequence most similar to that of MRV is that of Arboretum virus (NC_025393.1), with a Max score of 322, query coverage of 14%, and 66% identity. Genomic and phylogenetic analyses both demonstrated that MRV should be considered a member of a novel species of the family Rhabdoviridae.

  11. Reefgenomics.Org - a repository for marine genomics data.

    Science.gov (United States)

    Liew, Yi Jin; Aranda, Manuel; Voolstra, Christian R

    2016-01-01

    Over the last decade, technological advancements have substantially decreased the cost and time of obtaining large amounts of sequencing data. Paired with the exponentially increased computing power, individual labs are now able to sequence genomes or transcriptomes to investigate biological questions of interest. This has led to a significant increase in available sequence data. Although the bulk of data published in articles are stored in public sequence databases, very often, only raw sequencing data are available; miscellaneous data such as assembled transcriptomes, genome annotations etc. are not easily obtainable through the same means. Here, we introduce our website (http://reefgenomics.org) that aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, we provide (where applicable) a genome browser to explore available genomic features, and a BLAST interface to search through the hosted sequences. Through the interface, multiple datasets can be queried simultaneously, allowing for the retrieval of matching sequences from organisms of interest. The minimalistic, no-frills interface reduces visual clutter, making it convenient for end-users to search and explore processed sequence data. DATABASE URL: http://reefgenomics.org. © The Author(s) 2016. Published by Oxford University Press.

  12. Controlled blasting experiments in a small drift at the CANMET experimental mine

    Energy Technology Data Exchange (ETDEWEB)

    Lizotte, Y.C.

    1994-03-01

    Experiments on controlled blasting conducted at the CANMET Experimental Mine to develop suitable controlled blasting techniques for small development headings are described. The methods selected for study must maintain the drill-blast-muck cycle achieved each work shift. The experiments also examine blast damage mechanisms to formulate criteria for dilution minimization with blast designs in stopes. The drift faces are 2.4 m square, with 34 to 43 holes drilled 2.4 m deep. Cartridged water gels, emulsions, and semi-gelatin dynamite were used in the cuts and as primers, ANFO as the main explosive, and semi- gelatin dynamite in 19 mm diameter cartridges was used in perimeter holes. The results of the first set of experiments show the efficiency of controlled blasting techniques to reduce blast damage. 60 refs., 71 figs., 9 tabs.

  13. 29 CFR 1926.904 - Storage of explosives and blasting agents.

    Science.gov (United States)

    2010-07-01

    ..., electric blasting caps, detonating primers, and primed cartridges shall not be stored in the same magazine... feet of explosives and detonator storage magazine. (d) No explosives or blasting agents shall be... 29 Labor 8 2010-07-01 2010-07-01 false Storage of explosives and blasting agents. 1926.904 Section...

  14. Blasting Impact by the Construction of an Underground Research Tunnel in KAERI

    International Nuclear Information System (INIS)

    Kwon, S.; Cho, W. J.

    2005-12-01

    The underground research tunnel, which is under construction in KAERI for the validation of HLW disposal system, is excavated by drill and blasting method using high-explosives. In order not to disturb the operation at the research facilities such as HANARO reactor, it is critical to develop a blasting design , which will not influence on the facilities, even though several tens of explosives are detonated almost simultaneously. To develop a reasonable blasting design, a test blasting at the site should be performed. A preliminary analysis for predicting the expected vibration and noise by the blasting for the construction of the underground research tunnel was performed using a typical empirical equation. From the study, a blasting design could be developed not to influence on the major research facilities in KAERI. For the validation of the blasting design, a test blasting was carried out at the site and the parameters of vibration equation could be determined using the measured data during the test blasting. Using the equation, it was possible to predict the vibration at different locations at KAERI and to conclude that the blasting design would meet the design criteria at the major facilities in KAERI. The study would verify the applicability of blasting method for the construction of a research tunnel in a rock mass and that would help the design and construction of large scale underground research laboratory, which might be carried out in the future. It is also meaningful to accumulate technical experience for enhancing the reliability and effectiveness of the design and construction of the HLW disposal repository, which will be constructed in deep underground by drill and blasting technique

  15. Blast resistance behaviour of steel frame structrures

    NARCIS (Netherlands)

    Mediavilla Varas, J.; Soetens, F.

    2010-01-01

    The effect of a blast explosion on a typical steel frame building is investigated by means of computer simulations. The simulations help to identify possible hot spots that may lead to local or global failure. Since the blast energy is transferred to the structure by means of the façade, it is

  16. Blast resistance behaviour of steel frame structures

    NARCIS (Netherlands)

    Varas, J.M.; Soetens, F.

    2010-01-01

    The effect of a blast explosion on a typical steel frame building is investigated by means of computer simulations. The simulations help to identify possible hot spots that may lead to local or global failure. The blast energy is transferred to the structure by means of the façade. In particular

  17. Storage stability of flour-blasted brown rice

    Science.gov (United States)

    Brown rice was blasted with rice flour rather than sand in a sand blaster to make microscopic nicks and cuts so that water can easily penetrate into the brown rice endosperm and cook the rice in a shorter time. The flour-blasted American Basmati brown rice, long grain brown rice, and parboiled long...

  18. Tagging microsatellite marker to a blast resistance gene in the irrigated rice cultivar Cica-8

    Directory of Open Access Journals (Sweden)

    Thiago Martins Pinheiro

    2012-09-01

    Full Text Available The rice cultivar Cica-8 exhibit differential reaction to several pathotypes of Magnaporthe oryzae. The objective of the present investigation was to determine the number of alleles involved in the expression of resistance to leaf blast and identify microsatellite markers linked to these alleles. A cross between cultivar Metica-1 and Cica-8 susceptible and resistant, respectively, to pathotype IB-1 (Py1049 was made to obtain F1, F2, BC1:1 and BC1:2 progenies. Greenhouse tests for leaf blast reaction showed that resistance is controlled by a monogenic dominant gene. For testing microsatellite markers, DNA of both resistant and susceptible parents and F1 and F2 populations was extracted. As expected for single dominant gene the F2 populations segregated at a ratio of 3:1. Of the 11 microsatellite markers tested, one marker RM 7102 was found to be closely linked to the resistant allele at a distance of 2.7 cM, in the cultivar Cica-8 to pathotype IB-1.

  19. Control buildings for blast resistance

    Energy Technology Data Exchange (ETDEWEB)

    Brown, G.A.

    1982-08-01

    Offers advice on interior design for blast-resistant control buildings. Suggests that for the comfort and safety of occupants, special attention must be paid to internal finishes and color schemes. Considers external treatment (e.g. panels, cladding fixings, thermal insulation), air intakes and exhausts, internal finishes (e.g. stud lining method), and internal walls and partitions. Presents diagrams showing construction method for a control building; elimination of ''cold bridge'' at eaves level; staggering door openings to minimize blast effects; and flexure of concrete walls without affecting the inner lining.

  20. A simple grid implementation with Berkeley Open Infrastructure for Network Computing using BLAST as a model

    Directory of Open Access Journals (Sweden)

    Watthanai Pinthong

    2016-07-01

    Full Text Available Development of high-throughput technologies, such as Next-generation sequencing, allows thousands of experiments to be performed simultaneously while reducing resource requirement. Consequently, a massive amount of experiment data is now rapidly generated. Nevertheless, the data are not readily usable or meaningful until they are further analysed and interpreted. Due to the size of the data, a high performance computer (HPC is required for the analysis and interpretation. However, the HPC is expensive and difficult to access. Other means were developed to allow researchers to acquire the power of HPC without a need to purchase and maintain one such as cloud computing services and grid computing system. In this study, we implemented grid computing in a computer training center environment using Berkeley Open Infrastructure for Network Computing (BOINC as a job distributor and data manager combining all desktop computers to virtualize the HPC. Fifty desktop computers were used for setting up a grid system during the off-hours. In order to test the performance of the grid system, we adapted the Basic Local Alignment Search Tools (BLAST to the BOINC system. Sequencing results from Illumina platform were aligned to the human genome database by BLAST on the grid system. The result and processing time were compared to those from a single desktop computer and HPC. The estimated durations of BLAST analysis for 4 million sequence reads on a desktop PC, HPC and the grid system were 568, 24 and 5 days, respectively. Thus, the grid implementation of BLAST by BOINC is an efficient alternative to the HPC for sequence alignment. The grid implementation by BOINC also helped tap unused computing resources during the off-hours and could be easily modified for other available bioinformatics software.

  1. Deciphering the distance to antibiotic resistance for the pneumococcus using genome sequencing data

    NARCIS (Netherlands)

    Mobegi, Fredrick M; Cremers, Amelieke J H; de Jonge, Marien I; Bentley, Stephen D; van Hijum, Sacha A F T; Zomer, Aldert|info:eu-repo/dai/nl/304642754

    2017-01-01

    Advances in genome sequencing technologies and genome-wide association studies (GWAS) have provided unprecedented insights into the molecular basis of microbial phenotypes and enabled the identification of the underlying genetic variants in real populations. However, utilization of genome sequencing

  2. Blast mines: physics, injury mechanisms and vehicle protection.

    Science.gov (United States)

    Ramasamy, A; Hill, A M; Hepper, A E; Bull, A M J; Clasper, J C

    2009-12-01

    Since World War II, more vehicles have been lost to land mines than all other threats combined. Anti-vehicular (AV) mines are capable of disabling a heavy vehicle, or completely destroying a lighter vehicle. The most common form of AV mine is the blast mine, which uses a large amount of explosive to directly damage the target. In a conventional military setting, landmines are used as a defensive force-multiplier and to restrict the movements of the opposing force. They are relatively cheap to purchase and easy to acquire, hence landmines are also potent weapons in the insurgents' armamentarium. The stand-offnature of its design has allowed insurgents to cause significant injuries to security forces in current conflicts with little personal risk. As a result, AV mines and improvised explosive devices (IEDs) have become the most common cause of death and injury to Coalition and local security forces operating in Iraq and Afghanistan. Detonation of an AV mine causes an explosive, exothermic reaction which results in the formation of a shockwave followed by a rapid expansion of gases. The shockwave is mainly reflected by the soillair interface and fractures the soil cap overthe mine. The detonation products then vent through the voids in the soil, resulting in a hollow inverse cone which consists of the detonation gases surrounded by the soil ejecta. It is the combination of the detonation products and soil ejecta that interact with the target vehicle and cause injury to the vehicle occupants. A number of different strategies are required to mitigate the blast effects of an explosion. Primary blast effects can be reduced by increasing the standoff distance between the seat of the explosion and the crew compartment. Enhancement of armour on the base of the vehicle, as well as improvements in personal protection can prevent penetration of fragments. Mitigating tertiary effects can be achieved by altering the vehicle geometry and structure, increasing vehicle mass, as

  3. Close in blasting and rock support at the Bhumibol Powerhouse, Thailand

    International Nuclear Information System (INIS)

    Murray, L.

    1997-01-01

    Blasting-related aspects of constructing a pump turbine unit addition to the Bhumibol hydroelectric power plant in Northwest Thailand as part of a retrofit pump storage scheme was described. The work was of particular interest because blasting frequently had to be carried out within one metre of the operating powerhouse for excavation and demolition of 50,000 cubic metre of rock and 5,000 cubic metre of reinforced concrete. Site conditions, work methods, and results of blast vibration monitoring and blast designs were summarized. Although there were severe constraints on the allowable peak particle velocities at the powerhouse electrical equipment, modern time delay blasting techniques were safely used to produce excellent results in a tightly controlled environment. The powerhouse was fully operational during the entire entire blasting phase of the construction project. 5 refs., 4 tabs., 8 figs

  4. Proceedings of the seventh annual symposium on explosives and blasting research

    International Nuclear Information System (INIS)

    Anon.

    1991-01-01

    Papers from this symposium dealt with the following topics: advanced primer designs, seismic effects of blasting, systems for velocity of detonation measurement and pressure measurement, toxic fumes from explosions, blast performance, blasting for rock fragmentation, computer-aided blast design, characteristics of liquid oxygen explosives, and correlations of performance of explosives with ground vibration, partitioning of energy, and firing time scatter effects. Papers have been indexed separately for inclusion on the data base

  5. The Plant Genome Integrative Explorer Resource: PlantGenIE.org.

    Science.gov (United States)

    Sundell, David; Mannapperuma, Chanaka; Netotea, Sergiu; Delhomme, Nicolas; Lin, Yao-Cheng; Sjödin, Andreas; Van de Peer, Yves; Jansson, Stefan; Hvidsten, Torgeir R; Street, Nathaniel R

    2015-12-01

    Accessing and exploring large-scale genomics data sets remains a significant challenge to researchers without specialist bioinformatics training. We present the integrated PlantGenIE.org platform for exploration of Populus, conifer and Arabidopsis genomics data, which includes expression networks and associated visualization tools. Standard features of a model organism database are provided, including genome browsers, gene list annotation, Blast homology searches and gene information pages. Community annotation updating is supported via integration of WebApollo. We have produced an RNA-sequencing (RNA-Seq) expression atlas for Populus tremula and have integrated these data within the expression tools. An updated version of the ComPlEx resource for performing comparative plant expression analyses of gene coexpression network conservation between species has also been integrated. The PlantGenIE.org platform provides intuitive access to large-scale and genome-wide genomics data from model forest tree species, facilitating both community contributions to annotation improvement and tools supporting use of the included data resources to inform biological insight. © 2015 The Authors. New Phytologist © 2015 New Phytologist Trust.

  6. Development of a Continuous Drill and Blast Tunneling Concept, Phase II

    Science.gov (United States)

    1974-05-01

    A spiral drilling pattern is described which offers high efficiency drill and blast tunnelling via frequent small blasts rather than occasional large blasts. Design work is presented for a machine which would stay at the face to provide essentially c...

  7. Alkali-activated blast furnace slag-zeolite cements and concretes

    International Nuclear Information System (INIS)

    Rakhimov, R.; Rakhimova, N.

    2012-01-01

    The aim of this work has been the study of alkali-activated slag-zeolite cements and concretes based on them. Various compositions have been tested and some characteristics such as the compressive strength have been measured versus zeolite additions. A table lists the specific surface area and particle size distributions of different cements. The conclusions of the study are the following. First, alkali-activated slag cements and concretes based on them are effective for immobilization of radioactive wastes and the production of building structures, designed for high radiation load. Secondly, zeolite-containing mineral additions are able to increase the immobilization capacity and radiation resistance of alkali-activated blast furnace slag cements and concretes. Thirdly, the efficiency of different zeolite-containing additions - 10% to increase alkali-activated blast furnace slag-zeolite cement strength was established. It is with alkaline components of water-glass, sodium carbonate, sodium sulphate. Fourth, the effective way of introducing zeolite additions in alkali-activated blast furnace slag-zeolite cement is inter-grinding of the slag and addition. Increase in strength of alkali-activated blast furnace slag-zeolite cement stone is 40% higher than that of the stone of a mixture of separately milled components. Fifth, Alkali-activated blast furnace slag-zeolite cements with zeolite-containing additions with a compressive strength of 10.1 to 140 MPa; alkali-activated blast furnace slag-zeolite cements mortars with compressive strength from 35.2 to 97.7 MPa; alkali-activated blast furnace slag-zeolite cements concretes with compressive strength up to 84.5 MPa and frost resistant up to 800 cycles were obtained

  8. Control technology for crystalline silica exposures in construction: wet abrasive blasting.

    Science.gov (United States)

    Golla, Vijay; Heitbrink, William

    2004-03-01

    This study was designed to document the effect that wet abrasive blasting has on reducing worker exposure to crystalline silica, which has been associated with silicosis and premature death. In this study, worker exposure to respirable crystalline silica was monitored during wet abrasive blasting on the exterior walls of a parking garage to remove surface concrete and expose the underlying aggregate. In this process a wet sand mix comprised of 80% dry sand and 20% water was used. Sampling and analysis revealed that the geometric mean respirable quartz concentration was 0.2 mg/m(3) for workers conducting abrasive blasting and 0.06 mg/m(3) for helpers. When abrasive blasting was conducted in areas that apparently had reduced natural ventilation, dust exposures appeared to increase. When compared with other published data, this case study suggests that wet abrasive blasting causes less exposure to crystalline silica than dry abrasive blasting.

  9. The BLAST experiment

    NARCIS (Netherlands)

    Hasell, D.; Botto, T.; van den Brand, J.F.J.

    2009-01-01

    The Bates large acceptance spectrometer toroid (BLAST) experiment was operated at the MIT-Bates Linear Accelerator Center from 2003 until 2005. The detector and experimental program were designed to study, in a systematic manner, the spin-dependent electromagnetic interaction in few-nucleon systems.

  10. Genomic taxonomy of vibrios

    Directory of Open Access Journals (Sweden)

    Iida Tetsuya

    2009-10-01

    Full Text Available Abstract Background Vibrio taxonomy has been based on a polyphasic approach. In this study, we retrieve useful taxonomic information (i.e. data that can be used to distinguish different taxonomic levels, such as species and genera from 32 genome sequences of different vibrio species. We use a variety of tools to explore the taxonomic relationship between the sequenced genomes, including Multilocus Sequence Analysis (MLSA, supertrees, Average Amino Acid Identity (AAI, genomic signatures, and Genome BLAST atlases. Our aim is to analyse the usefulness of these tools for species identification in vibrios. Results We have generated four new genome sequences of three Vibrio species, i.e., V. alginolyticus 40B, V. harveyi-like 1DA3, and V. mimicus strains VM573 and VM603, and present a broad analyses of these genomes along with other sequenced Vibrio species. The genome atlas and pangenome plots provide a tantalizing image of the genomic differences that occur between closely related sister species, e.g. V. cholerae and V. mimicus. The vibrio pangenome contains around 26504 genes. The V. cholerae core genome and pangenome consist of 1520 and 6923 genes, respectively. Pangenomes might allow different strains of V. cholerae to occupy different niches. MLSA and supertree analyses resulted in a similar phylogenetic picture, with a clear distinction of four groups (Vibrio core group, V. cholerae-V. mimicus, Aliivibrio spp., and Photobacterium spp.. A Vibrio species is defined as a group of strains that share > 95% DNA identity in MLSA and supertree analysis, > 96% AAI, ≤ 10 genome signature dissimilarity, and > 61% proteome identity. Strains of the same species and species of the same genus will form monophyletic groups on the basis of MLSA and supertree. Conclusion The combination of different analytical and bioinformatics tools will enable the most accurate species identification through genomic computational analysis. This endeavour will culminate in

  11. Blasting agent package

    Energy Technology Data Exchange (ETDEWEB)

    Fox, R.

    1971-03-17

    A protected preassembled package for blasting agents susceptible to desensitization by water consists of, in combination: (1) an inner rigid and self-supporting tube, the upper end of which is suited to be connected, or attached, to the discharge end of a loading hose for a blasting agent and the lower end of which is open; and (2) a flexible tubular liner made of water-resistant film, having a diameter greater than that of the inner tube and a length at least equal to the desired depth of its insertion into the borehole, the liner being sleeved over the length of the inner tube, the upper end of the liner being attached to the inner tube and the lower end of the liner being closed so as to prevent substantial discharge of the explosive mixture therefrom when the latter is pumped into it. (24 claims)

  12. Spectrum of abdominal organ injury in a primary blast type

    Directory of Open Access Journals (Sweden)

    Amin Abid

    2009-12-01

    Full Text Available Abstract Introduction Abdominal organ injury in a primary blast type is always challenging for diagnosis. Air containing abdominal viscera is most vulnerable to effects of primary blast injury. In any patient exposed to a primary blast wave who presents with an acute abdomen, an abdominal organ injury is to be kept in a clinical suspicion. Aim Study various abdominal organ injuries occurring in a primary type of blast injury. Material and methods: All those who had exploratory laparotomy for abdominal organ injuries after a primary blast injury for a period of 10 years from January 1998 - January 2008 were included in this retrospective study. Results Total 154 patients had laparotomy for abdominal organ injuries with a primary blast type of injury. Small intestine was damaged in 48 patients (31.1% followed by spleen in 22.7% cases. 54 patients (35.06% had more than one organ injured. Liver laceration was present in 30 patients (19.48%. Multiple small gut perforations were present in 37 patients (77.08%. Negative laparotomy was found in 5 patients (3.24% whereas 3 (1.94% had re-exploration. Mortality was present in 6 patients (3.89%. Conclusions Primary blast injury causes varied abdominal organ injuries. Single or multiple organ damage can be there. Small intestine is commonest viscera injured. Laparotomy gives final diagnosis.

  13. 30 CFR 57.6605 - Isolation of blasting circuits.

    Science.gov (United States)

    2010-07-01

    ... NONMETAL MINE SAFETY AND HEALTH SAFETY AND HEALTH STANDARDS-UNDERGROUND METAL AND NONMETAL MINES Explosives Extraneous Electricity-Surface and Underground § 57.6605 Isolation of blasting circuits. Lead wires and blasting lines shall be isolated and insulated from power conductors, pipelines, and railroad tracks, and...

  14. Clustering Table of the genome insert site of Drosophila GAL4 enhancer trap lines (Cluster List) - GETDB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ster List) Data detail Data name Clustering Table of the genome insert site of Drosophila GAL4 enhancer trap...se Site Policy | Contact Us Clustering Table of the genome insert site of Drosophila GAL4 enhancer trap lines (Cluster List) - GETDB | LSDB Archive ... ...stering Table of the genome insert site of Drosophila GAL4 enhancer trap lines (Clu...switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us GETDB Clu

  15. The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes.

    Science.gov (United States)

    Angly, Florent E; Willner, Dana; Prieto-Davó, Alejandra; Edwards, Robert A; Schmieder, Robert; Vega-Thurber, Rebecca; Antonopoulos, Dionysios A; Barott, Katie; Cottrell, Matthew T; Desnues, Christelle; Dinsdale, Elizabeth A; Furlan, Mike; Haynes, Matthew; Henn, Matthew R; Hu, Yongfei; Kirchman, David L; McDole, Tracey; McPherson, John D; Meyer, Folker; Miller, R Michael; Mundt, Egbert; Naviaux, Robert K; Rodriguez-Mueller, Beltran; Stevens, Rick; Wegley, Linda; Zhang, Lixin; Zhu, Baoli; Rohwer, Forest

    2009-12-01

    Metagenomic studies characterize both the composition and diversity of uncultured viral and microbial communities. BLAST-based comparisons have typically been used for such analyses; however, sampling biases, high percentages of unknown sequences, and the use of arbitrary thresholds to find significant similarities can decrease the accuracy and validity of estimates. Here, we present Genome relative Abundance and Average Size (GAAS), a complete software package that provides improved estimates of community composition and average genome length for metagenomes in both textual and graphical formats. GAAS implements a novel methodology to control for sampling bias via length normalization, to adjust for multiple BLAST similarities by similarity weighting, and to select significant similarities using relative alignment lengths. In benchmark tests, the GAAS method was robust to both high percentages of unknown sequences and to variations in metagenomic sequence read lengths. Re-analysis of the Sargasso Sea virome using GAAS indicated that standard methodologies for metagenomic analysis may dramatically underestimate the abundance and importance of organisms with small genomes in environmental systems. Using GAAS, we conducted a meta-analysis of microbial and viral average genome lengths in over 150 metagenomes from four biomes to determine whether genome lengths vary consistently between and within biomes, and between microbial and viral communities from the same environment. Significant differences between biomes and within aquatic sub-biomes (oceans, hypersaline systems, freshwater, and microbialites) suggested that average genome length is a fundamental property of environments driven by factors at the sub-biome level. The behavior of paired viral and microbial metagenomes from the same environment indicated that microbial and viral average genome sizes are independent of each other, but indicative of community responses to stressors and environmental conditions.

  16. Combinatorial aspects of genome rearrangements and haplotype networks

    OpenAIRE

    Labarre , Anthony

    2008-01-01

    The dissertation covers two problems motivated by computational biology: genome rearrangements, and haplotype networks. Genome rearrangement problems are a particular case of edit distance problems, where one seeks to transform two given objects into one another using as few operations as possible, with the additional constraint that the set of allowed operations is fixed beforehand; we are also interested in computing the corresponding distances between those objects, i.e. merely computing t...

  17. Blasting activity of the mining industry in the United States

    Energy Technology Data Exchange (ETDEWEB)

    Richards, P.G. [Lamont-Doherty Earth Observatory, Palisades, NY (United States)

    1994-12-31

    About 2 megatons of chemcial explosives are used annually in the U.S., principally in mining for coal and metal ores. Most of this explosive is used in surface mines rather than underground mines. On a typical work day there are about 30 explosions greater than 50 tons, including one shot greater than 200 tons. Shots in underground mines are typically much smaller, because of safety considerations. Almost all chemical explosions above 1 ton in the U.S. are ripple-fired and almost all above 10 tons are also shallow. Almost all are intended to break rock or to remove overburden, and are therefore very inefficient, relative to contained single shots, in generating seismic signals at regional ore teleseismic distances. These attributes make explosions used in industry quite different from the Non-Proliferation Experiment. There is very little correlation between the total amount of explosive used in a ripple-fired blast, and the seismic magnitude. Statistics on blasting magnitudes are of interest in the context of monitoring network. There is a blast reported with regional (or duration) magnitude 3.5 or above, in the U.S., a few tens of times a year; but it would appear that the teleseismic magnitude (m{sub b}) of such events are significantly lower than 3.5. Only about 10 to 30 chemical explosions per year in the U.S. are detected teleseismically with m{sub b}>3. Methods of routinely discriminating most chemical explosions from other seismic sources use spectra of regional phases at frequencies up to about 30 Hz, which is significantly higher than frequencies needed for recording teleseismic signals. The best discriminants appear to be the high-frequency spectral ratio of waves with P-wave energy (e.g. Pn or Pg) to waves with S-wave energy (Sn or Lg); and the use of spectrograms, which can be particularly useful in identifying ripple-firing.

  18. Characterization of viscoelastic materials for low-magnitude blast mitigation

    Science.gov (United States)

    Bartyczak, S.; Mock, W.

    2014-05-01

    Recent research indicates that exposure to low amplitude blast waves, such as IED detonation or multiple firings of a weapon, causes damage to brain tissue resulting in Traumatic Brain Injury (TBI) and Post Traumatic Stress Disorder (PTSD). Current combat helmets are not sufficiently protecting warfighters from this danger and the effects are debilitating, costly, and long-lasting. The objective of the present work is to evaluate the blast mitigating behavior of current helmet materials and new materials designed for blast mitigation using a test fixture recently developed at the Naval Surface Warfare Center Dahlgren Division for use with an existing gas gun. The 40-mm-bore gas gun was used as a shock tube to generate blast waves (ranging from 0.5 to 2 bar) in the test fixture mounted on the gun muzzle. A fast opening valve was used to release helium gas from the breech which formed into a blast wave and impacted instrumented targets in the test fixture. Blast attenuation of selected materials was determined through the measurement of stress data in front of and behind the target. Materials evaluated in this research include polyurethane foam from currently fielded US Army and Marine Corps helmets, polyurea 1000, and three hardnesses of Sorbothane (48, 58, and 70 durometer, Shore 00). Polyurea 1000 and 6061-T6 aluminum were used to calibrate the stress gauges.

  19. Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data

    Directory of Open Access Journals (Sweden)

    Xing-Xing Shen

    2016-12-01

    Full Text Available Understanding the phylogenetic relationships among the yeasts of the subphylum Saccharomycotina is a prerequisite for understanding the evolution of their metabolisms and ecological lifestyles. In the last two decades, the use of rDNA and multilocus data sets has greatly advanced our understanding of the yeast phylogeny, but many deep relationships remain unsupported. In contrast, phylogenomic analyses have involved relatively few taxa and lineages that were often selected with limited considerations for covering the breadth of yeast biodiversity. Here we used genome sequence data from 86 publicly available yeast genomes representing nine of the 11 known major lineages and 10 nonyeast fungal outgroups to generate a 1233-gene, 96-taxon data matrix. Species phylogenies reconstructed using two different methods (concatenation and coalescence and two data matrices (amino acids or the first two codon positions yielded identical and highly supported relationships between the nine major lineages. Aside from the lineage comprised by the family Pichiaceae, all other lineages were monophyletic. Most interrelationships among yeast species were robust across the two methods and data matrices. However, eight of the 93 internodes conflicted between analyses or data sets, including the placements of: the clade defined by species that have reassigned the CUG codon to encode serine, instead of leucine; the clade defined by a whole genome duplication; and the species Ascoidea rubescens. These phylogenomic analyses provide a robust roadmap for future comparative work across the yeast subphylum in the disciplines of taxonomy, molecular genetics, evolutionary biology, ecology, and biotechnology. To further this end, we have also provided a BLAST server to query the 86 Saccharomycotina genomes, which can be found at http://y1000plus.org/blast.

  20. Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data

    Science.gov (United States)

    Shen, Xing-Xing; Zhou, Xiaofan; Kominek, Jacek; Kurtzman, Cletus P.; Hittinger, Chris Todd; Rokas, Antonis

    2016-01-01

    Understanding the phylogenetic relationships among the yeasts of the subphylum Saccharomycotina is a prerequisite for understanding the evolution of their metabolisms and ecological lifestyles. In the last two decades, the use of rDNA and multilocus data sets has greatly advanced our understanding of the yeast phylogeny, but many deep relationships remain unsupported. In contrast, phylogenomic analyses have involved relatively few taxa and lineages that were often selected with limited considerations for covering the breadth of yeast biodiversity. Here we used genome sequence data from 86 publicly available yeast genomes representing nine of the 11 known major lineages and 10 nonyeast fungal outgroups to generate a 1233-gene, 96-taxon data matrix. Species phylogenies reconstructed using two different methods (concatenation and coalescence) and two data matrices (amino acids or the first two codon positions) yielded identical and highly supported relationships between the nine major lineages. Aside from the lineage comprised by the family Pichiaceae, all other lineages were monophyletic. Most interrelationships among yeast species were robust across the two methods and data matrices. However, eight of the 93 internodes conflicted between analyses or data sets, including the placements of: the clade defined by species that have reassigned the CUG codon to encode serine, instead of leucine; the clade defined by a whole genome duplication; and the species Ascoidea rubescens. These phylogenomic analyses provide a robust roadmap for future comparative work across the yeast subphylum in the disciplines of taxonomy, molecular genetics, evolutionary biology, ecology, and biotechnology. To further this end, we have also provided a BLAST server to query the 86 Saccharomycotina genomes, which can be found at http://y1000plus.org/blast. PMID:27672114

  1. CHOgenome.org 2.0: Genome resources and website updates.

    Science.gov (United States)

    Kremkow, Benjamin G; Baik, Jong Youn; MacDonald, Madolyn L; Lee, Kelvin H

    2015-07-01

    Chinese hamster ovary (CHO) cells are a major host cell line for the production of therapeutic proteins, and CHO cell and Chinese hamster (CH) genomes have recently been sequenced using next-generation sequencing methods. CHOgenome.org was launched in 2011 (version 1.0) to serve as a database repository and to provide bioinformatics tools for the CHO community. CHOgenome.org (version 1.0) maintained GenBank CHO-K1 genome data, identified CHO-omics literature, and provided a CHO-specific BLAST service. Recent major updates to CHOgenome.org (version 2.0) include new sequence and annotation databases for both CHO and CH genomes, a more user-friendly website, and new research tools, including a proteome browser and a genome viewer. CHO cell-line specific sequences and annotations facilitate cell line development opportunities, several of which are discussed. Moving forward, CHOgenome.org will host the increasing amount of CHO-omics data and continue to make useful bioinformatics tools available to the CHO community. Copyright © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  2. Directed blasts and blast-generated pyroclastic density currents: a comparison of the Bezymianny 1956, Mount St Helens 1980, and Soufrière Hills, Montserrat 1997 eruptions and deposits

    Science.gov (United States)

    Belousov, Alexander; Voight, Barry; Belousova, Marina

    2007-01-01

    damage sustained at MSH until modern 3D numerical modeling is accomplished, but argue that much of the damage observed in directed blasts can be reasonably interpreted to have been caused by high dynamic pressures and clast impact loading by an inclined collapsing fountain and stratified PDC. This view is reinforced by recent modeling cited for SHV. In distal and peripheral regions, solids concentration, maximum particle size, current speed, and dynamic pressure are diminished, resulting in lesser damage and enhanced influence by local topography on the PDC. Despite the different scales of the blasts (devastated areas were respectively 500, 600, and >10 km2 for BZ, MSH, and SHV), and some complexity involving retrogressive slide blocks and clusters of explosions, their pyroclastic deposits demonstrate strong similarity. Juvenile material composes >50% of the deposits, implying for the blasts a dominantly magmatic mechanism although hydrothermal explosions also occurred. The character of the magma fragmented by explosions (highly viscous, phenocryst-rich, variable microlite content) determined the bimodal distributions of juvenile clast density and vesicularity. Thickness of the deposits fluctuates in proximal areas but in general decreases with distance from the crater, and laterally from the axial region. The proximal stratigraphy of the blast deposits comprises four layers named A, B, C, D from bottom to top. Layer A is represented by very poorly sorted debris with admixtures of vegetation and soil, with a strongly erosive ground contact; its appearance varies at different sites due to different ground conditions at the time of the blasts. The layer reflects intense turbulent boundary shear between the basal part of the energetic head of the PDC and the substrate. Layer B exhibits relatively well-sorted fines depleted debris with some charred plant fragments; its deposition occurred by rapid suspension sedimentation in rapidly waning, high-concentration conditions

  3. Numerical Study on Blast Wave Propagation Driven by Unsteady Ionization Plasma

    International Nuclear Information System (INIS)

    Ogino, Yousuke; Sawada, Keisuke; Ohnishi, Naofumi

    2008-01-01

    Understanding the dynamics of laser-produced plasma is essential for increasing the available thrust and energy conversion efficiency from a pulsed laser to a blast wave in a gas-driven laser-propulsion system. The performance of a gas-driven laser-propulsion system depends heavily on the laser-driven blast wave dynamics as well as on the ionizing and/or recombining plasma state that sustains the blast wave. In this study, we therefore develop a numerical simulation code for a laser-driven blast wave coupled with time-dependent rate equations to explore the formation of unsteady ionizing plasma produced by laser irradiation. We will also examine the various properties of blast waves and unsteady ionizing plasma for different laser input energies

  4. Minimization of Blast furnace Fuel Rate by Optimizing Burden and Gas Distribution

    Energy Technology Data Exchange (ETDEWEB)

    Dr. Chenn Zhou

    2012-08-15

    The goal of the research is to improve the competitive edge of steel mills by using the advanced CFD technology to optimize the gas and burden distributions inside a blast furnace for achieving the best gas utilization. A state-of-the-art 3-D CFD model has been developed for simulating the gas distribution inside a blast furnace at given burden conditions, burden distribution and blast parameters. The comprehensive 3-D CFD model has been validated by plant measurement data from an actual blast furnace. Validation of the sub-models is also achieved. The user friendly software package named Blast Furnace Shaft Simulator (BFSS) has been developed to simulate the blast furnace shaft process. The research has significant benefits to the steel industry with high productivity, low energy consumption, and improved environment.

  5. 30 CFR 75.1310 - Explosives and blasting equipment.

    Science.gov (United States)

    2010-07-01

    ... for use so long as the present approval is maintained. (e) Electric detonators shall be compatible... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Explosives and blasting equipment. 75.1310... SAFETY AND HEALTH MANDATORY SAFETY STANDARDS-UNDERGROUND COAL MINES Explosives and Blasting § 75.1310...

  6. Protecting the lower extremity against a/p blast mines

    CSIR Research Space (South Africa)

    van Dyk, T

    2006-09-01

    Full Text Available the Lower Extremity against a/p Blast Mines J T van Dyk DEFENCE, PEACE, SAFETY AND SECURITY LANDWARDS SCIENCES COMPETENCY AREA Slide 2 © CSIR 2006 www.csir.co.za Contents • R&D overview • Effect of a/p blast mines • Basic... explosive principles – Shock effect (brisance) – Blast effect • Test methods • Protection concepts • Test results Slide 3 © CSIR 2006 www.csir.co.za Goals: Compare LEAP study results with field injuries Investigate energy...

  7. Effect of Surface Blasting on Subway Tunnels- A Parametric Study

    Directory of Open Access Journals (Sweden)

    Hossein Entezari Zarch

    2017-01-01

    Full Text Available During wars and crises, the underground tunnels are used as a safe space. Therefore, the stability and safety of them under a blast is of particular importance. In this paper, the Finite Difference Method has been used to study the influence of the change in geotechnical parameters and depth on surface blasting on subway tunnels. Results showed that increasing the internal friction angle, modulus of elasticity and cohesion of the soil reduced the effects of blast loads on the vertical displacement and bending moment in the center of tunnel crown. Furthermore, the results showed that increasing the depth of the tunnel reduced the effects of blast loading. Comparing all parameters collectively showed that the increase in the modulus of elasticity of the soil and depth of the tunnel is the most effective in reducing the influence of the blast loads on the vertical displacement and bending moment of the tunnel crown, respectively.

  8. Remote operated vehicle with carbon dioxide blasting (ROVCO{sub 2})

    Energy Technology Data Exchange (ETDEWEB)

    Resnick, A.M. [Oceaneering International, Inc., Upper Marlboro, MD (United States)

    1995-10-01

    The Remote Operated Vehicle with Carbon Dioxide Blasting (ROVCO{sub 2}), as shown in a front view is a six-wheeled remote land vehicle used to decontaminate concrete floors. The remote vehicle has a high pressure Cryogenesis blasting subsystem, Oceaneering Technologies (OTECH) developed a CO{sub 2} xY Orthogonal Translational End Effector (COYOTEE) subsystem, and a vacuum/filtration and containment subsystem. The cryogenesis subsystem performs the actual decontamination work and consists of the dry ice supply unit, the blasting nozzle, the remotely controlled electric and pneumatic valves, and the vacuum work-head. The COYOTEE subsystem positions the blasting work-head within a planar work space and the vacuum subsystem provides filtration and containment of the debris generated by the CO{sub 2} blasting. It employs a High Efficiency Particulate Air (HEPA) filtration unit to separate contaminants for disposal. All of the above systems are attached to the vehicle subsystem via the support structure.

  9. Confirmation of the decontamination ability using the dry blasting device

    International Nuclear Information System (INIS)

    Izuka, Hirotaka; Tsuhara, Yuuki; Ito, Hajime; Fukuda, Kazuhiro; Sugahara, Yasuhiro; Kanamori, Yoji

    2017-01-01

    The decontamination method of metallic waste was considered to reduce the radioactive waste in decommissioning a nuclear power plant. Stainless steel occupies most for the material of the system equipment of PWR. The contamination by radioactive materials is stuck in the surface in the equipment as the metal oxide (e.g. chromium oxide, iron oxide). The method of efficient abrasion by the dry blasting device was considered to remove metal oxide from stainless steel. The kind of blasting abrasives material and the abrasive operation condition (the blasting angle, rate) were considered to investigate the abrasion ability to stainless steel. The abrasive condition which was appropriate abrasive ability was investigated and appropriate blasting abrasives was selected to stainless steel. The decontamination test by selected blasting abrasives and abrasive operation condition was performed using samples and the relation between abrasive rate and activity concentration was confirmed. The metallic radioactive waste was confirmed to be able to decontaminate to the clearance level. (author)

  10. Viscoelastic Materials Study for the Mitigation of Blast-Related Brain Injury

    Science.gov (United States)

    Bartyczak, Susan; Mock, Willis, Jr.

    2011-06-01

    Recent preliminary research into the causes of blast-related brain injury indicates that exposure to blast pressures, such as from IED detonation or multiple firings of a weapon, causes damage to brain tissue resulting in Traumatic Brain Injury (TBI) and Post Traumatic Stress Disorder (PTSD). Current combat helmets are not sufficient to protect the warfighter from this danger and the effects are debilitating, costly, and long-lasting. Commercially available viscoelastic materials, designed to dampen vibration caused by shock waves, might be useful as helmet liners to dampen blast waves. The objective of this research is to develop an experimental technique to test these commercially available materials when subject to blast waves and evaluate their blast mitigating behavior. A 40-mm-bore gas gun is being used as a shock tube to generate blast waves (ranging from 1 to 500 psi) in a test fixture at the gun muzzle. A fast opening valve is used to release nitrogen gas from the breech to impact instrumented targets. The targets consist of aluminum/ viscoelastic polymer/ aluminum materials. Blast attenuation is determined through the measurement of pressure and accelerometer data in front of and behind the target. The experimental technique, calibration and checkout procedures, and results will be presented.

  11. The importance of systemic response in the pathobiology of blast-induced neurotrauma

    Directory of Open Access Journals (Sweden)

    Ibolja eCernak

    2010-12-01

    Full Text Available Due to complex injurious environment where multiple blast effects interact with the body, parallel blast-induced neurotrauma is a unique clinical entity induced by systemic, local, and cerebral responses. Activation of autonomous nervous system; sudden pressure-increase in vital organs such as lungs and liver; and activation of neuroendocrine-immune system are among the most important mechanisms that contribute significantly to molecular changes and cascading injury mechanisms in the brain. It has been hypothesized that vagally mediated cerebral effects play a vital role in the early response to blast: this assumption has been supported by experiments where bilateral vagotomy mitigated bradycardia, hypotension, and apnea, and also prevented excessive metabolic alterations in the brain of animals exposed to blast. Clinical experience suggests specific blast-body-nervous system interactions such as 1 direct interaction with the head either through direct passage of the blast wave through the skull or by causing acceleration and/or rotation of the head; and 2 via hydraulic interaction, when the blast overpressure compresses the abdomen and chest, and transfers its kinetic energy to the body’s fluid phase, initiating oscillating waves that traverse the body and reach the brain. Accumulating evidence suggests that inflammation plays important role in the pathogenesis of long-term neurological deficits due to blast. These include memory decline, motor function and balance impairments, and behavioral alterations, among others. Experiments using rigid body- or head protection in animals subjected to blast showed that head protection failed to prevent inflammation in the brain or reduce neurological deficits, whereas body protection was successful in alleviating the blast-induced functional and morphological impairments in the brain.

  12. Blast overpressure induced axonal injury changes in rat brainstem and spinal cord

    Directory of Open Access Journals (Sweden)

    Srinivasu Kallakuri

    2015-01-01

    Full Text Available Introduction: Blast induced neurotrauma has been the signature wound in returning soldiers from the ongoing wars in Iraq and Afghanistan. Of importance is understanding the pathomechansim(s of blast overpressure (OP induced axonal injury. Although several recent animal models of blast injury indicate the neuronal and axonal injury in various brain regions, animal studies related to axonal injury in the white matter (WM tracts of cervical spinal cord are limited. Objective: The purpose of this study was to assess the extent of axonal injury in WM tracts of cervical spinal cord in male Sprague Dawley rats subjected to a single insult of blast OP. Materials and Methods: Sagittal brainstem sections and horizontal cervical spinal cord sections from blast and sham animals were stained by neurofilament light (NF-L chain and beta amyloid precursor protein immunocytochemistry and observed for axonal injury changes. Results: Observations from this preliminary study demonstrate axonal injury changes in the form of prominent swellings, retraction bulbs, and putative signs of membrane disruptions in the brainstem and cervical spinal cord WM tracts of rats subjected to blast OP. Conclusions: Prominent axonal injury changes following the blast OP exposure in brainstem and cervical spinal WM tracts underscores the need for careful evaluation of blast induced injury changes and associated symptoms. NF-L immunocytochemistry can be considered as an additional tool to assess the blast OP induced axonal injury.

  13. Water in the blast hole

    Energy Technology Data Exchange (ETDEWEB)

    Pilshaw, S.R. [Pilshaw Associates, KS (United States)

    1995-10-01

    Water in the blast area is a considerable problem in US opencast coal mining. While gelatin dynamite was reasonably water resistant, Anfo is not. All potential solutions to this problem: the use of Anfo and emulsion (Heavy Anfo), pumping, draining, and the use of water bags, involve considerable extra cost. With small amounts of water an alternative solution has been formulated: the use of a self inflating gas bag to exclude water, and loading the Anfo from the water line up to the stemming level of the blasthole. Quite substantial water columns may be sealed off in this manner, with little or no deleterious effect on blast effects.

  14. Large scale vibration tests on pile-group effects using blast-induced ground motion

    International Nuclear Information System (INIS)

    Katsuichirou Hijikata; Hideo Tanaka; Takayuki Hashimoto; Kazushige Fujiwara; Yuji Miyamoto; Osamu Kontani

    2005-01-01

    Extensive vibration tests have been performed on pile-supported structures at a large-scale mining site. Ground motions induced by large-scale blasting operations were used as excitation forces for vibration tests. The main objective of this research is to investigate the dynamic behavior of pile-supported structures, in particular, pile-group effects. Two test structures were constructed in an excavated 4 m deep pit. Their test-structures were exactly the same. One structure had 25 steel piles and the other had 4 piles. The test pit was backfilled with sand of appropriate grain size distributions to obtain good compaction, especially between the 25 piles. Accelerations were measured at the structures, in the test pit and in the adjacent free field, and pile strains were measured. Dynamic modal tests of the pile-supported structures and PS measurements of the test pit were performed before and after the vibration tests to detect changes in the natural frequencies of the soil-pile-structure systems and the soil stiffness. The vibration tests were performed six times with different levels of input motions. The maximum horizontal acceleration recorded at the adjacent ground surface varied from 57 cm/s 2 to 1,683 cm/s 2 according to the distances between the test site and the blast areas. (authors)

  15. The tank's dynamic response under nuclear explosion blast wave

    International Nuclear Information System (INIS)

    Xu Mei; Wang Lianghou; Li Xiaotian; Yu Suyuan; Zhang Zhengming; Wan Li

    2005-01-01

    To weapons and equipment, blast wave is the primary destructive factor. In this paper, taken the real model-59 tank as an example, we try to transform the damage estimation problem into computing a fluid structure interaction problem with finite element method. The response of tank under nuclear explosion blast wave is computed with the general-coupling algorithm. Also, the dynamical interaction of blast wave and tank is reflected in real time. The deformation of each part of the tank is worked out and the result corresponds to the real-measured data. (authors)

  16. Flow of supersonic jets across flat plates: Implications for ground-level flow from volcanic blasts

    Science.gov (United States)

    Orescanin, Mara M.; Prisco, David; Austin, Joanna M.; Kieffer, Susan W.

    2014-04-01

    We report on laboratory experiments examining the interaction of a jet from an overpressurized reservoir with a canonical ground surface to simulate lateral blasts at volcanoes such as the 1980 blast at Mount St. Helens. These benchmark experiments test the application of supersonic jet models to simulate the flow of volcanic jets over a lateral topography. The internal shock structure of the free jet is modified such that the Mach disk shock is elevated above the surface. In elevation view, the width of the shock is reduced in comparison with a free jet, while in map view the dimensions are comparable. The distance of the Mach disk shock from the vent is in good agreement with free jet data and can be predicted with existing theory. The internal shock structures can interact with and penetrate the boundary layer. In the shock-boundary layer interaction, an oblique shock foot is present in the schlieren images and a distinctive ground signature is evident in surface measurements. The location of the oblique shock foot and the surface demarcation are closely correlated with the Mach disk shock location during reservoir depletion, and therefore, estimates of a ground signature in a zone devastated by a blast can be based on the calculated shock location from free jet theory. These experiments, combined with scaling arguments, suggest that the imprint of the Mach disk shock on the ground should be within the range of 4-9 km at Mount St. Helens depending on assumed reservoir pressure and vent dimensions.

  17. Assembling networks of microbial genomes using linear programming.

    Science.gov (United States)

    Holloway, Catherine; Beiko, Robert G

    2010-11-20

    Microbial genomes exhibit complex sets of genetic affinities due to lateral genetic transfer. Assessing the relative contributions of parent-to-offspring inheritance and gene sharing is a vital step in understanding the evolutionary origins and modern-day function of an organism, but recovering and showing these relationships is a challenging problem. We have developed a new approach that uses linear programming to find between-genome relationships, by treating tables of genetic affinities (here, represented by transformed BLAST e-values) as an optimization problem. Validation trials on simulated data demonstrate the effectiveness of the approach in recovering and representing vertical and lateral relationships among genomes. Application of the technique to a set comprising Aquifex aeolicus and 75 other thermophiles showed an important role for large genomes as 'hubs' in the gene sharing network, and suggested that genes are preferentially shared between organisms with similar optimal growth temperatures. We were also able to discover distinct and common genetic contributors to each sequenced representative of genus Pseudomonas. The linear programming approach we have developed can serve as an effective inference tool in its own right, and can be an efficient first step in a more-intensive phylogenomic analysis.

  18. Restricted DCJ-indel model: sorting linear genomes with DCJ and indels

    Science.gov (United States)

    2012-01-01

    Background The double-cut-and-join (DCJ) is a model that is able to efficiently sort a genome into another, generalizing the typical mutations (inversions, fusions, fissions, translocations) to which genomes are subject, but allowing the existence of circular chromosomes at the intermediate steps. In the general model many circular chromosomes can coexist in some intermediate step. However, when the compared genomes are linear, it is more plausible to use the so-called restricted DCJ model, in which we proceed the reincorporation of a circular chromosome immediately after its creation. These two consecutive DCJ operations, which create and reincorporate a circular chromosome, mimic a transposition or a block-interchange. When the compared genomes have the same content, it is known that the genomic distance for the restricted DCJ model is the same as the distance for the general model. If the genomes have unequal contents, in addition to DCJ it is necessary to consider indels, which are insertions and deletions of DNA segments. Linear time algorithms were proposed to compute the distance and to find a sorting scenario in a general, unrestricted DCJ-indel model that considers DCJ and indels. Results In the present work we consider the restricted DCJ-indel model for sorting linear genomes with unequal contents. We allow DCJ operations and indels with the following constraint: if a circular chromosome is created by a DCJ, it has to be reincorporated in the next step (no other DCJ or indel can be applied between the creation and the reincorporation of a circular chromosome). We then develop a sorting algorithm and give a tight upper bound for the restricted DCJ-indel distance. Conclusions We have given a tight upper bound for the restricted DCJ-indel distance. The question whether this bound can be reduced so that both the general and the restricted DCJ-indel distances are equal remains open. PMID:23281630

  19. Exposure to a predator scent induces chronic behavioral changes in rats previously exposed to low-level blast: Implications for the relationship of blast-related TBI to PTSD

    Directory of Open Access Journals (Sweden)

    Georgina Perez-Garcia

    2016-10-01

    Full Text Available Blast-related mild traumatic brain injury (mTBI has been unfortunately common in veterans who served in the recent conflicts in Iraq and Afghanistan. The postconcussion syndrome associated with these mTBIs has frequently appeared in combination with post-traumatic stress disorder (PTSD. The presence of PTSD has complicated diagnosis since clinically PTSD and the postconcussion syndrome of mTBI have many overlapping symptoms. In particular establishing how much of the symptom complex can be attributed to the psychological trauma associated with PTSD in contrast to the physical injury of TBI has proven difficult. Indeed some have suggested that much of what is now being called blast-related postconcussion syndrome is better explained by PTSD. The relationship between the postconcussion syndrome of mTBI and PTSD is complex. Association of the two disorders might be viewed as additive effects of independent psychological and physical traumas suffered in a war zone. However we previously found that rats exposed to repetitive low-level blast exposure in the absence of a psychological stressor developed a variety of anxiety and PTSD-related behavioral traits that were present months following the last blast exposure. Here we show that a single predator scent challenge delivered 8 months after the last blast exposure induces chronic anxiety related changes in blast-exposed rats that are still present 45 days later. These observations suggest that in addition to independently inducing PTSD-related traits, blast exposure sensitizes the brain to react abnormally to a subsequent psychological stressor. These studies have implications for conceptualizing the relationship between blast-related mTBI and PTSD and suggest that blast-related mTBI in humans may predispose to the later development of PTSD in reaction to subsequent psychological stressors.

  20. Microstructural Consequences of Blast Lung Injury Characterized with Digital Volume Correlation

    Directory of Open Access Journals (Sweden)

    Hari Arora

    2017-12-01

    Full Text Available This study focuses on microstructural changes that occur within the mammalian lung when subject to blast and how these changes influence strain distributions within the tissue. Shock tube experiments were performed to generate the blast injured specimens (cadaveric Sprague-Dawley rats. Blast overpressures of 100 and 180 kPa were studied. Synchrotron tomography imaging was used to capture volumetric image data of lungs. Specimens were ventilated using a custom-built system to study multiple inflation pressures during each tomography scan. These data enabled the first digital volume correlation (DVC measurements in lung tissue to be performed. Quantitative analysis was performed to describe the damaged architecture of the lung. No clear changes in the microstructure of the tissue morphology were observed due to controlled low- to moderate-level blast exposure. However, significant focal sites of injury were observed using DVC, which allowed the detection of bias and concentration in the patterns of strain level. Morphological analysis corroborated the findings, illustrating that the focal damage caused by a blast can give rise to diffuse influence across the tissue. It is important to characterize the non-instantly fatal doses of blast, given the transient nature of blast lung in the clinical setting. This research has highlighted the need for better understanding of focal injury and its zone of influence (alveolar interdependency and neighboring tissue burden as a result of focal injury. DVC techniques show great promise as a tool to advance this endeavor, providing a new perspective on lung mechanics after blast.

  1. Numerical Investigation of Structural Response of Corrugated Blast Wall Depending on Blast Load Pulse Shapes

    Directory of Open Access Journals (Sweden)

    Jung Min Sohn

    Full Text Available Abstract Hydrocarbon explosions are one of most hazardous events for workers on offshore platforms. To protect structures against explosion loads, corrugated blast walls are typically installed. However, the profiles of real explosion loads are quite different depending on the congestion and confinement of Topside structures. As the level of congestion and confinement increases, the explosion load increases by up to 8 bar, and the rising time of the load decreases. This study primarily aims to investigate the structural behavior characteristics of corrugated blast walls under different types of explosion loadings. Four loading shapes were applied in the structural response analysis, which utilized a dynamic nonlinear finite element method.

  2. Blasting Standards for the Ghanaian Mining Industry | Amegbey ...

    African Journals Online (AJOL)

    Ghana is a well known mining nation and hard rock mining has been going on since the 10th century. Mining companies in Ghana are well aware of the regulatory requirements to carry out blasting activities such that neighbouring communities are protected from excessive impact as a result of blast vibrations amongst other ...

  3. Study of consumer fireworks post-blast residues by ATR-FTIR.

    Science.gov (United States)

    Martín-Alberca, Carlos; Zapata, Félix; Carrascosa, Héctor; Ortega-Ojeda, Fernando E; García-Ruiz, Carmen

    2016-03-01

    Specific analytical procedures are requested for the forensic analysis of pre- and post-blast consumer firework samples, which present significant challenges. Up to date, vibrational spectroscopic techniques such as Fourier transform infrared spectroscopy (FTIR) have not been tested for the analysis of post-blast residues in spite of their interesting strengths for the forensic field. Therefore, this work proposes a simple and fast procedure for the sampling and analysis of consumer firework post-blast residues by a portable FTIR instrument with an Attenuated Total Reflection (ATR) accessory. In addition, the post-blast residues spectra of several consumer fireworks were studied in order to achieve the identification of their original chemical compositions. Hence, this work analysed 22 standard reagents usually employed to make consumer fireworks, or because they are related to their combustion products. Then, 5 different consumer fireworks were exploded, and their residues were sampled with dry cotton swabs and directly analysed by ATR-FTIR. In addition, their pre-blast fuses and charges were also analysed in order to stablish a proper comparison. As a result, the identification of the original chemical compositions of the post-blast samples was obtained. Some of the compounds found were potassium chlorate, barium nitrate, potassium nitrate, potassium perchlorate or charcoal. An additional study involving chemometric tools found that the results might greatly depend on the swab head type used for the sampling, and its sampling efficiency. The proposed procedure could be used as a complementary technique for the analysis of consumer fireworks post-blast residues. Copyright © 2015 Elsevier B.V. All rights reserved.

  4. The duplicated genes database: identification and functional annotation of co-localised duplicated genes across genomes.

    Directory of Open Access Journals (Sweden)

    Marion Ouedraogo

    Full Text Available BACKGROUND: There has been a surge in studies linking genome structure and gene expression, with special focus on duplicated genes. Although initially duplicated from the same sequence, duplicated genes can diverge strongly over evolution and take on different functions or regulated expression. However, information on the function and expression of duplicated genes remains sparse. Identifying groups of duplicated genes in different genomes and characterizing their expression and function would therefore be of great interest to the research community. The 'Duplicated Genes Database' (DGD was developed for this purpose. METHODOLOGY: Nine species were included in the DGD. For each species, BLAST analyses were conducted on peptide sequences corresponding to the genes mapped on a same chromosome. Groups of duplicated genes were defined based on these pairwise BLAST comparisons and the genomic location of the genes. For each group, Pearson correlations between gene expression data and semantic similarities between functional GO annotations were also computed when the relevant information was available. CONCLUSIONS: The Duplicated Gene Database provides a list of co-localised and duplicated genes for several species with the available gene co-expression level and semantic similarity value of functional annotation. Adding these data to the groups of duplicated genes provides biological information that can prove useful to gene expression analyses. The Duplicated Gene Database can be freely accessed through the DGD website at http://dgd.genouest.org.

  5. Blast Shock Wave Mitigation Using the Hydraulic Energy Redirection and Release Technology

    Science.gov (United States)

    Chen, Yun; Huang, Wei; Constantini, Shlomi

    2012-01-01

    A hydraulic energy redirection and release technology has been developed for mitigating the effects of blast shock waves on protected objects. The technology employs a liquid-filled plastic tubing as a blast overpressure transformer to transfer kinetic energy of blast shock waves into hydraulic energy in the plastic tubings. The hydraulic energy is redirected through the plastic tubings to the openings at the lower ends, and then is quickly released with the liquid flowing out through the openings. The samples of the specifically designed body armor in which the liquid-filled plastic tubings were installed vertically as the outer layer of the body armor were tested. The blast test results demonstrated that blast overpressure behind the body armor samples was remarkably reduced by 97% in 0.2 msec after the liquid flowed out of its appropriate volume through the openings. The results also suggested that a volumetric liquid surge might be created when kinetic energy of blast shock wave was transferred into hydraulic energy to cause a rapid physical movement or displacement of the liquid. The volumetric liquid surge has a strong destructive power, and can cause a noncontact, remote injury in humans (such as blast-induced traumatic brain injury and post-traumatic stress disorder) if it is created in cardiovascular system. The hydraulic energy redirection and release technology can successfully mitigate blast shock waves from the outer surface of the body armor. It should be further explored as an innovative approach to effectively protect against blast threats to civilian and military personnel. PMID:22745740

  6. The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes.

    Directory of Open Access Journals (Sweden)

    Florent E Angly

    2009-12-01

    Full Text Available Metagenomic studies characterize both the composition and diversity of uncultured viral and microbial communities. BLAST-based comparisons have typically been used for such analyses; however, sampling biases, high percentages of unknown sequences, and the use of arbitrary thresholds to find significant similarities can decrease the accuracy and validity of estimates. Here, we present Genome relative Abundance and Average Size (GAAS, a complete software package that provides improved estimates of community composition and average genome length for metagenomes in both textual and graphical formats. GAAS implements a novel methodology to control for sampling bias via length normalization, to adjust for multiple BLAST similarities by similarity weighting, and to select significant similarities using relative alignment lengths. In benchmark tests, the GAAS method was robust to both high percentages of unknown sequences and to variations in metagenomic sequence read lengths. Re-analysis of the Sargasso Sea virome using GAAS indicated that standard methodologies for metagenomic analysis may dramatically underestimate the abundance and importance of organisms with small genomes in environmental systems. Using GAAS, we conducted a meta-analysis of microbial and viral average genome lengths in over 150 metagenomes from four biomes to determine whether genome lengths vary consistently between and within biomes, and between microbial and viral communities from the same environment. Significant differences between biomes and within aquatic sub-biomes (oceans, hypersaline systems, freshwater, and microbialites suggested that average genome length is a fundamental property of environments driven by factors at the sub-biome level. The behavior of paired viral and microbial metagenomes from the same environment indicated that microbial and viral average genome sizes are independent of each other, but indicative of community responses to stressors and

  7. GPS network observation of traveling ionospheric disturbances following the Chelyabinsk meteorite blast

    Directory of Open Access Journals (Sweden)

    F. Ding

    2016-11-01

    Full Text Available We use the Global Positioning System (GPS network in northwest China and central Asia to monitor traveling ionospheric disturbances (TIDs, which were possibly excited by the large meteorite blast over Chelyabinsk, Russia, on 15 February 2013. Two TIDs were observed. The first TID was observed 13 min after the blast within a range of 270–600 km from the blast site. It propagated radially from the blast site with a mean velocity and period of 369 m s−1 and 12 min, respectively. The second TID was found in northwest China, 1.5 h after the time of the blast, at  ∼  2500–3100 km from the blast site. This latter TID propagated southeastward with a velocity and period of 410 m s−1 and 23 min, respectively. Severe dissipation of the perturbation total electronic content (TEC amplitude was observed. Any TIDs propagating in a global range was not found after the meteorite blast. Features of TIDs were compared with those excited by early nuclear explosion tests. It is inferred from our analysis that the energy release of the Chelyabinsk meteorite blast may not be large enough to excite such ionospheric disturbances in a global range as some nuclear explosions did.

  8. Equipment Specific Optimum Blast-Design Using Genetic Algorithm

    Directory of Open Access Journals (Sweden)

    Rahul Upadhyay

    2015-08-01

    Full Text Available Design of blasting parameters plays an important role in the optimization of mining cost as well as cost of subsequent processing of ore. Drilling and handling costs are the major mining cost. This work presents an indirect optimization model for mining cost through optimization of blasting parameters for a particular set of drilling and loading equipment.

  9. Blast Load Response of Steel Sandwich Panels with Liquid Encasement

    Energy Technology Data Exchange (ETDEWEB)

    Dale Karr; Marc Perlin; Benjamin Langhorst; Henry Chu

    2009-10-01

    We describe an experimental investigation of the response of hybrid blast panels for protection from explosive and impact forces. The fundamental notion is to dissipate, absorb, and redirect energy through plastic collapse, viscous dissipation, and inter-particle forces of liquid placed in sub-structural compartments. The panels are designed to absorb energy from an impact or air blast by elastic-plastic collapse of the panel substructure that includes fluid-filled cavities. The fluid contributes to blast effects mitigation by providing increased initial mass and resistance, by dissipation of energy through viscosity and fluid flow, and by redirecting the momentum that is imparted to the system from the impact and blast impulse pressures. Failure and deformation mechanisms of the panels are described.

  10. Pathological Fingerprints, Systems Biology and Biomarkers of Blast Brain Injury

    Science.gov (United States)

    2010-06-01

    changes after blast injury. J. Trauma 56, 393–403. Murthy, J.M., Chopra, J.S., and Gulati, D.R. (1979). Subdural hematoma in an adult following a blast...neuronal damage), diffuse brain injury, and subdural hemorrhage. It is still controversial whether primary blast forces directly damage the brain, and if...emboli, leading to infarction (Guy et al., 2000a; Guy et al., 2000b). The most common types of TBI are diffuse axonal injury, contusion, and subdural

  11. Controlled blasting and its implications for the NNWSI project exploratory shaft

    International Nuclear Information System (INIS)

    Van Eeckhout, E.M.

    1987-09-01

    This report reviews controlled blasting techniques for shaft sinking. Presplitting and smooth blasting are the techniques of principal interest. Smooth blasting is preferred for the Nevada Nuclear Waste Storage Investigations exploratory shaft. Shaft damage can be monitored visually or by peak velocity measurements and refractive techniques. Damage into the rock should be limited to 3 ft. 40 refs., 22 figs., 7 tabs

  12. Blasting vibrations control: The shortcomings of traditional methods

    Energy Technology Data Exchange (ETDEWEB)

    Vuillaume, P.M.; Kiszlo, M. [Institut National de l`Environnement Industriel et des Risques, Verneuil en Halatte (France); Bernard, T. [Compagnie Nouvelle de Scientifiques, Nice (France)

    1996-12-31

    In the context of its studies for the French ministry of the environment and for the French national coal board, INERIS (the French institute for the industrial environment and hazards, formerly CERCHAR) has made a complete critical survey of the methods generally used to reduce the levels of blasting vibrations. It is generally acknowledged that the main parameter to control vibrations is the so-called instantaneous charge, or charge per delay. This should be reduced as much as possible in order to diminish vibration levels. On account of this, the use of a new generation of blasting devices, such as non-electric detonators or electronic sequential timers has been developed since the seventies. INERIS has collected data from about 900 blasts in 2 quarries and 3 open pit mines. These data include input parameters such as borehole diameter, burden, spacing, charge per hole, charge per delay, total fired charge, etc ... They also include output measurements, such as vibration peak particle velocities, and main frequencies. These data have been analyzed with the help of multi variable statistical tools. Blasting tests were undertaken to evaluate new methods of vibrations control, such as the superposition of vibration signals. These methods appear to be accurate in many critical cases, but certainly would be highly improved with a better accuracy of firing delays. The development of electronic detonators seems to be the way of the future for a better blasting control.

  13. Population Genomics of Paramecium Species.

    Science.gov (United States)

    Johri, Parul; Krenek, Sascha; Marinov, Georgi K; Doak, Thomas G; Berendonk, Thomas U; Lynch, Michael

    2017-05-01

    Population-genomic analyses are essential to understanding factors shaping genomic variation and lineage-specific sequence constraints. The dearth of such analyses for unicellular eukaryotes prompted us to assess genomic variation in Paramecium, one of the most well-studied ciliate genera. The Paramecium aurelia complex consists of ∼15 morphologically indistinguishable species that diverged subsequent to two rounds of whole-genome duplications (WGDs, as long as 320 MYA) and possess extremely streamlined genomes. We examine patterns of both nuclear and mitochondrial polymorphism, by sequencing whole genomes of 10-13 worldwide isolates of each of three species belonging to the P. aurelia complex: P. tetraurelia, P. biaurelia, P. sexaurelia, as well as two outgroup species that do not share the WGDs: P. caudatum and P. multimicronucleatum. An apparent absence of global geographic population structure suggests continuous or recent dispersal of Paramecium over long distances. Intergenic regions are highly constrained relative to coding sequences, especially in P. caudatum and P. multimicronucleatum that have shorter intergenic distances. Sequence diversity and divergence are reduced up to ∼100-150 bp both upstream and downstream of genes, suggesting strong constraints imposed by the presence of densely packed regulatory modules. In addition, comparison of sequence variation at non-synonymous and synonymous sites suggests similar recent selective pressures on paralogs within and orthologs across the deeply diverging species. This study presents the first genome-wide population-genomic analysis in ciliates and provides a valuable resource for future studies in evolutionary and functional genetics in Paramecium. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  14. Blast tests of expedient shelters in the DICE THROW event

    International Nuclear Information System (INIS)

    Kearny, C.H.; Chester, C.V.

    1978-03-01

    To determine the worst blast environments that eight types of expedient shelters can withstand, we subjected a total of 18 shelters to the 1-kiloton blast effects of Defense Nuclear Agency's DICE THROW main event. These expedient shelters included two Russian and two Chinese types. The best shelter tested was a Small-Pole Shelter that had a box-like room of Russian design with ORNL-designed expedient blast entries and blast doors added. It was undamaged at the 53-psi peak overpressure range; the pressure rise inside was only 1.5 psi. An unmodified Russian Pole-Covered Trench Shelter was badly damaged at 6.8 psi. A Chinese ''Man'' Shelter, which skillfully uses very small poles to attain protective earth arching, survived 20 psi, undamaged. Two types of expedient shelters built of materials found in and around most American homes gave good protection at overpressures up to about 6 psi. Rug-Covered Trench Shelters were proved unsatisfactory. Water storage pits lined with ordinary plastic trash bags were proven practical at up to 53 psi, as were triangular expedient blast doors made of poles

  15. Effects of air blast on power plant structures and components

    International Nuclear Information System (INIS)

    Kot, C.A.; Valentin, R.A.; McLennan, D.A.; Turula, P.

    1978-10-01

    The effects of air blast from high explosives detonation on selected power plant structures and components are investigated analytically. Relying on a synthesis of state of the art methods estimates of structural response are obtained. Similarly blast loadings are determined from compilations of experimental data reported in the literature. Plastic-yield line analysis is employed to determine the response of both concrete and steel flat walls (plates) under impulsive loading. Linear elastic theory is used to investigate the spalling of concrete walls and mode analysis methods predict the deflection of piping. The specific problems considered are: the gross deformation of reinforced concrete shield and containment structures due to blast impulse, the spalling of concrete walls, the interaction or impact of concrete debris with steel containments and liners, and the response of exposed piping to blast impulse. It is found that for sufficiently close-in detonations and/or large explosive charge weights severe damage or destruction will result. This is particularly true for structures or components directly exposed to blast impulse

  16. DNA tagging of blast resistant gene(s in three Brazilian rice cultivars

    Directory of Open Access Journals (Sweden)

    S.S. Sandhu

    2003-12-01

    Full Text Available Rice blast is the most important fungal disease of rice and is caused by Pyricularia oryzae Sacc. (Telomorph Magnoporthe grisea Barr.. Seven randomly amplified polymorphic DNA (RAPD markers OPA5, OPG17, OPG18, OPG19, OPF9, OPF17 and OPF19 showed very clear polymorphism in resistant cultivar lines which differed from susceptible lines. By comparing different susceptible lines, nine DNA amplifications of seven primers (OPA5(1000, OPA5(1200, OPG17(700, OPG18(850, OPG19(500, OPG19(600, OPF9(600, OPF17(1200 and OPF19(600 were identified as dominant markers for the blast resistant gene in resistant cultivar lines. These loci facilitate the indirect scoring of blast resistant and blast susceptible genotypes. The codomine RAPDs markers will facilitate marker-assisted selection of the blast resistant gene in two blast resistant genotypes of rice (Labelle and Line 11 and will be useful in rice breeding programs.

  17. Proceedings of the seventeenth annual conference on explosives and blasting technique. Volume 2

    International Nuclear Information System (INIS)

    Anon.

    1991-01-01

    Papers from this conference dealt with the following topics: surface and underground mine blasting, ground vibrations and blast effects, design for explosive fracturing of rock, sequential timing for blasting control, design for production optimization, use of blasting for abandoned mine reclamation, chemical explosives, lightning warning systems, magazine security, fire safety, and drilling equipment. Papers have been indexed separately for inclusion on the data base

  18. Inheritance of blast resistance and identification of SSR marker ...

    Indian Academy of Sciences (India)

    2013-08-02

    Aug 2, 2013 ... arm of chromosome 6 and in close proximity of blast resis- ... resistance to a M. oryzae race in a gene-for-gene manner. DNA markers have been ... order to identify the new sources of resistance against blast, there is need for ...

  19. HIGH PRODUCTIVITY VACUUM BLASTING SYSTEM

    International Nuclear Information System (INIS)

    McPhee, William S.

    2001-01-01

    The Department of Energy (DOE) needs improved technologies to decontaminate large areas of both concrete and steel surfaces. The technology should have high operational efficiency, minimize exposures to workers, and produce low levels of secondary waste. In order to meet the DOE's needs, an applied research and development project for the improvement of a current decontamination technology, Vacuum Blasting, is proposed. The objective of this project is to improve the productivity and lower the expense of the existing vacuum blasting technology which has been widely used in DOE sites for removing radioactive contamination, PCBs, and lead-based paint. The proposed work would increase the productivity rate and provide safe and cost-effective decontamination of the DOE sites

  20. Optimization long hole blast fragmentation techniques and detonating circuit underground uranium mine stope

    International Nuclear Information System (INIS)

    Li Qin; Yang Lizhi; Song Lixia; Qin De'en; Xue Yongshe; Wang Zhipeng

    2012-01-01

    Aim at high rate of large blast fragmentation, a big difficulty in long hole drilling and blasting underground uranium mine stope, it is pointed out at the same time of taking integrated technical management measures, the key is to optimize the drilling and blasting parameters and insure safety the act of one that primes, adopt 'minimum burden' blasting technique, renew the stope fragmentation process, and use new process of hole bottom indirect initiation fragmentation; optimize the detonating circuit and use safe, reliable and economically rational duplex non-electric detonating circuit. The production practice shows that under the guarantee of strictly controlled construction quality, the application of optimized blast fragmentation technique has enhanced the reliability of safety detonation and preferably solved the problem of high rate of large blast fragments. (authors)

  1. SITUATIONAL CONTROL OF HOT BLAST STOVES GROUP BASED ON DECISION TREE

    Directory of Open Access Journals (Sweden)

    E. I. Kobysh

    2016-09-01

    Full Text Available In this paper was developed the control system of group of hot blast stoves, which operates on the basis of the packing heating control subsystem and subsystem of forecasting of modes duration in the hot blast stoves APCS of iron smelting in a blast furnace. With the use of multi-criteria optimization methods, implemented the adjustment of control system conduct, which takes into account the current production situation that has arisen in the course of the heating packing of each hot blast stove group. Developed a situation recognition algorithm and the choice of scenarios of control based on a decision tree.

  2. Partitioning of a scaled shallow-buried near-field blast load

    CSIR Research Space (South Africa)

    Reinecke, J David

    2015-07-01

    Full Text Available and target force response to a shallow and deep buried blast loads and the initial loading phase contribution to the blast load were quantified. There is no separate precursor air shock for shallow buried blast load and the initial loading phase impulse... stream_source_info Reinecke_2015.pdf.txt stream_content_type text/plain stream_size 24459 Content-Encoding UTF-8 stream_name Reinecke_2015.pdf.txt Content-Type text/plain; charset=UTF-8 Partitioning of a Scaled Shallow...

  3. Reducing Drill and Blast Cost through Blast Optimisation – A Case ...

    African Journals Online (AJOL)

    Michael O. Mensah

    2015-12-02

    Dec 2, 2015 ... Case Study* ... using the proposed blast parameters increased by 14.3 to 50.0% for ore zones and 12.5 ... of gold, compels technologists in the industry to .... 127. Bench Height (H), m. 4. 4. 4.5. 4.5. 4.5. 4.5. Sub-drill (U), m. 0.5.

  4. Marine Genomics: A clearing-house for genomic and transcriptomic data of marine organisms

    Directory of Open Access Journals (Sweden)

    Trent Harold F

    2005-03-01

    Full Text Available Abstract Background The Marine Genomics project is a functional genomics initiative developed to provide a pipeline for the curation of Expressed Sequence Tags (ESTs and gene expression microarray data for marine organisms. It provides a unique clearing-house for marine specific EST and microarray data and is currently available at http://www.marinegenomics.org. Description The Marine Genomics pipeline automates the processing, maintenance, storage and analysis of EST and microarray data for an increasing number of marine species. It currently contains 19 species databases (over 46,000 EST sequences that are maintained by registered users from local and remote locations in Europe and South America in addition to the USA. A collection of analysis tools are implemented. These include a pipeline upload tool for EST FASTA file, sequence trace file and microarray data, an annotative text search, automated sequence trimming, sequence quality control (QA/QC editing, sequence BLAST capabilities and a tool for interactive submission to GenBank. Another feature of this resource is the integration with a scientific computing analysis environment implemented by MATLAB. Conclusion The conglomeration of multiple marine organisms with integrated analysis tools enables users to focus on the comprehensive descriptions of transcriptomic responses to typical marine stresses. This cross species data comparison and integration enables users to contain their research within a marine-oriented data management and analysis environment.

  5. Variability among the Most Rapidly Evolving Plastid Genomic Regions is Lineage-Specific: Implications of Pairwise Genome Comparisons in Pyrus (Rosaceae) and Other Angiosperms for Marker Choice

    Science.gov (United States)

    Ter-Voskanyan, Hasmik; Allgaier, Martin; Borsch, Thomas

    2014-01-01

    Plastid genomes exhibit different levels of variability in their sequences, depending on the respective kinds of genomic regions. Genes are usually more conserved while noncoding introns and spacers evolve at a faster pace. While a set of about thirty maximum variable noncoding genomic regions has been suggested to provide universally promising phylogenetic markers throughout angiosperms, applications often require several regions to be sequenced for many individuals. Our project aims to illuminate evolutionary relationships and species-limits in the genus Pyrus (Rosaceae)—a typical case with very low genetic distances between taxa. In this study, we have sequenced the plastid genome of Pyrus spinosa and aligned it to the already available P. pyrifolia sequence. The overall p-distance of the two Pyrus genomes was 0.00145. The intergenic spacers between ndhC–trnV, trnR–atpA, ndhF–rpl32, psbM–trnD, and trnQ–rps16 were the most variable regions, also comprising the highest total numbers of substitutions, indels and inversions (potentially informative characters). Our comparative analysis of further plastid genome pairs with similar low p-distances from Oenothera (representing another rosid), Olea (asterids) and Cymbidium (monocots) showed in each case a different ranking of genomic regions in terms of variability and potentially informative characters. Only two intergenic spacers (ndhF–rpl32 and trnK–rps16) were consistently found among the 30 top-ranked regions. We have mapped the occurrence of substitutions and microstructural mutations in the four genome pairs. High AT content in specific sequence elements seems to foster frequent mutations. We conclude that the variability among the fastest evolving plastid genomic regions is lineage-specific and thus cannot be precisely predicted across angiosperms. The often lineage-specific occurrence of stem-loop elements in the sequences of introns and spacers also governs lineage-specific mutations

  6. Variability among the most rapidly evolving plastid genomic regions is lineage-specific: implications of pairwise genome comparisons in Pyrus (Rosaceae and other angiosperms for marker choice.

    Directory of Open Access Journals (Sweden)

    Nadja Korotkova

    Full Text Available Plastid genomes exhibit different levels of variability in their sequences, depending on the respective kinds of genomic regions. Genes are usually more conserved while noncoding introns and spacers evolve at a faster pace. While a set of about thirty maximum variable noncoding genomic regions has been suggested to provide universally promising phylogenetic markers throughout angiosperms, applications often require several regions to be sequenced for many individuals. Our project aims to illuminate evolutionary relationships and species-limits in the genus Pyrus (Rosaceae-a typical case with very low genetic distances between taxa. In this study, we have sequenced the plastid genome of Pyrus spinosa and aligned it to the already available P. pyrifolia sequence. The overall p-distance of the two Pyrus genomes was 0.00145. The intergenic spacers between ndhC-trnV, trnR-atpA, ndhF-rpl32, psbM-trnD, and trnQ-rps16 were the most variable regions, also comprising the highest total numbers of substitutions, indels and inversions (potentially informative characters. Our comparative analysis of further plastid genome pairs with similar low p-distances from Oenothera (representing another rosid, Olea (asterids and Cymbidium (monocots showed in each case a different ranking of genomic regions in terms of variability and potentially informative characters. Only two intergenic spacers (ndhF-rpl32 and trnK-rps16 were consistently found among the 30 top-ranked regions. We have mapped the occurrence of substitutions and microstructural mutations in the four genome pairs. High AT content in specific sequence elements seems to foster frequent mutations. We conclude that the variability among the fastest evolving plastid genomic regions is lineage-specific and thus cannot be precisely predicted across angiosperms. The often lineage-specific occurrence of stem-loop elements in the sequences of introns and spacers also governs lineage-specific mutations. Sequencing

  7. Distance Measurement Solves Astrophysical Mysteries

    Science.gov (United States)

    2003-08-01

    Location, location, and location. The old real-estate adage about what's really important proved applicable to astrophysics as astronomers used the sharp radio "vision" of the National Science Foundation's Very Long Baseline Array (VLBA) to pinpoint the distance to a pulsar. Their accurate distance measurement then resolved a dispute over the pulsar's birthplace, allowed the astronomers to determine the size of its neutron star and possibly solve a mystery about cosmic rays. "Getting an accurate distance to this pulsar gave us a real bonanza," said Walter Brisken, of the National Radio Astronomy Observatory (NRAO) in Socorro, NM. Monogem Ring The Monogem Ring, in X-Ray Image by ROSAT satellite CREDIT: Max-Planck Institute, American Astronomical Society (Click on Image for Larger Version) The pulsar, called PSR B0656+14, is in the constellation Gemini, and appears to be near the center of a circular supernova remnant that straddles Gemini and its neighboring constellation, Monoceros, and is thus called the Monogem Ring. Since pulsars are superdense, spinning neutron stars left over when a massive star explodes as a supernova, it was logical to assume that the Monogem Ring, the shell of debris from a supernova explosion, was the remnant of the blast that created the pulsar. However, astronomers using indirect methods of determining the distance to the pulsar had concluded that it was nearly 2500 light-years from Earth. On the other hand, the supernova remnant was determined to be only about 1000 light-years from Earth. It seemed unlikely that the two were related, but instead appeared nearby in the sky purely by a chance juxtaposition. Brisken and his colleagues used the VLBA to make precise measurements of the sky position of PSR B0656+14 from 2000 to 2002. They were able to detect the slight offset in the object's apparent position when viewed from opposite sides of Earth's orbit around the Sun. This effect, called parallax, provides a direct measurement of

  8. An RES-Based Model for Risk Assessment and Prediction of Backbreak in Bench Blasting

    Science.gov (United States)

    Faramarzi, F.; Ebrahimi Farsangi, M. A.; Mansouri, H.

    2013-07-01

    Most blasting operations are associated with various forms of energy loss, emerging as environmental side effects of rock blasting, such as flyrock, vibration, airblast, and backbreak. Backbreak is an adverse phenomenon in rock blasting operations, which imposes risk and increases operation expenses because of safety reduction due to the instability of walls, poor fragmentation, and uneven burden in subsequent blasts. In this paper, based on the basic concepts of a rock engineering systems (RES) approach, a new model for the prediction of backbreak and the risk associated with a blast is presented. The newly suggested model involves 16 effective parameters on backbreak due to blasting, while retaining simplicity as well. The data for 30 blasts, carried out at Sungun copper mine, western Iran, were used to predict backbreak and the level of risk corresponding to each blast by the RES-based model. The results obtained were compared with the backbreak measured for each blast, which showed that the level of risk achieved is in consistence with the backbreak measured. The maximum level of risk [vulnerability index (VI) = 60] was associated with blast No. 2, for which the corresponding average backbreak was the highest achieved (9.25 m). Also, for blasts with levels of risk under 40, the minimum average backbreaks (<4 m) were observed. Furthermore, to evaluate the model performance for backbreak prediction, the coefficient of correlation ( R 2) and root mean square error (RMSE) of the model were calculated ( R 2 = 0.8; RMSE = 1.07), indicating the good performance of the model.

  9. Effects of low-level blast exposure on the nervous system: Is there really a controversy?

    Directory of Open Access Journals (Sweden)

    Gregory A Elder

    2014-12-01

    Full Text Available High-pressure blast waves can cause extensive CNS injury in humans. However, in combat settings such as Iraq and Afghanistan, lower level exposures associated with mild TBI (mTBI or subclinical exposure have been much more common. Yet controversy exists concerning what traits can be attributed to low-level blast, in large part due to the difficulty of distinguishing blast-related mTBI from post-traumatic stress disorder (PTSD. We describe how TBI is defined in humans and the problems posed in using current definitions to recognize blast-related mTBI. We next consider the problem of applying definitions of human mTBI to animal models, in particular that TBI severity in humans is defined in relation to alteration of consciousness at the time of injury, which typically cannot be assessed in animals. However, based on outcome assessments a condition of low-level blast exposure can be defined in animals that likely approximates human mTBI or subclinical exposure. We review blast injury modeling in animals noting that inconsistencies in experimental approach have contributed to uncertainty over the effects of low-level blast. Yet animal studies show that low-level blast pressure waves are transmitted to the brain. In brain low-level blast exposures cause behavioral, biochemical, pathological and physiological effects on the nervous system including the induction of PTSD-related behavioral traits in the absence of a psychological stressor. We review the relationship of blast exposure to chronic neurodegenerative diseases noting the paradoxical lowering of Abeta by blast, which along with other observations suggest that blast-related TBI is pathophysiologically distinct from non-blast TBI. Human neuroimaging studies show that blast-related mTBI is associated with a variety of chronic effects that are unlikely to be explained by co-morbid PTSD. We conclude that abundant evidence supports low-level blast as having long-term effects on the nervous system.

  10. Implementations of BLAST for parallel computers.

    Science.gov (United States)

    Jülich, A

    1995-02-01

    The BLAST sequence comparison programs have been ported to a variety of parallel computers-the shared memory machine Cray Y-MP 8/864 and the distributed memory architectures Intel iPSC/860 and nCUBE. Additionally, the programs were ported to run on workstation clusters. We explain the parallelization techniques and consider the pros and cons of these methods. The BLAST programs are very well suited for parallelization for a moderate number of processors. We illustrate our results using the program blastp as an example. As input data for blastp, a 799 residue protein query sequence and the protein database PIR were used.

  11. Drill and blast tunnelling; Konvensjonell drift av tunneler

    Energy Technology Data Exchange (ETDEWEB)

    Roenn, Paal-Egil

    1997-12-31

    This thesis treats drill and blast tunnelling. The rapid technological advance necessitates revised and updated design criteria, quality requirements and quality control. In situ blast experiments were carried out in order to test new methods and improve the basis for calculation and design. The main topics of the experiments were (1) longer rounds and increased drillhole diameter, (2) emulsion slurry as explosives in tunnelling, and (3) electronic detonators in contour blasting. The experiments show that it is technically feasible to blast rounds of up to 8.6 m length. Using current technology, the economical optimum round length is substantially shorter. Dust, low visibility, noise and toxic fumes are occupational environmental strains for the tunnel workers. Several of the environmental factors are strongly influenced by the type of explosives used. For example, emulsion slurry resulted in 4 to 5 times better visibility than Anolit and the concentration of respirable dust and total dust was reduced by 30-50 %. Electronic detonators were tested and found to give a higher percentage of remaining drillholes in the contour than Nonel detonators. The thesis includes a chapter on economic design of hydropower tunnels. 42 refs., 83 figs., 45 tabs.

  12. Open cast blasting of coal in Australia; Goshu rotenbori tanko kengakuki

    Energy Technology Data Exchange (ETDEWEB)

    Hashizume, K. [Nippon Kayaku Co. Ltd., Tokyo (Japan)

    1997-06-30

    Introduced in this report are blastings performed for surface coal mining in the southeastern part of Australia. The Liddell coal mine began mining in 1990. This mine enjoys an annual raw coal yield of 2-million ton, removing approximately 11-million m{sup 3} of rocks consuming 5000 ton of anfo and emulsion explosives. The explosives are carried by a pump truck to the site where mixing is carried out, and non-electrical primers are used for detonation. The other mine described here is the Camberwell mine that yields 3.5-million ton of raw coal annually. For each blasting, 100-200 ton of explosive is consumed. A pump truck reciprocates between the material plant near the mine and the location of blasting, and charges the explosive directly. One of the anfo, emulsion, and heavy-anfo explosives is chosen, dependent upon conditions such as rock hardness. Also mentioned in this report are general blasting specifications relating to blasting at these two mines

  13. Integration of Tuyere, Raceway and Shaft Models for Predicting Blast Furnace Process

    Science.gov (United States)

    Fu, Dong; Tang, Guangwu; Zhao, Yongfu; D'Alessio, John; Zhou, Chenn Q.

    2018-06-01

    A novel modeling strategy is presented for simulating the blast furnace iron making process. Such physical and chemical phenomena are taking place across a wide range of length and time scales, and three models are developed to simulate different regions of the blast furnace, i.e., the tuyere model, the raceway model and the shaft model. This paper focuses on the integration of the three models to predict the entire blast furnace process. Mapping output and input between models and an iterative scheme are developed to establish communications between models. The effects of tuyere operation and burden distribution on blast furnace fuel efficiency are investigated numerically. The integration of different models provides a way to realistically simulate the blast furnace by improving the modeling resolution on local phenomena and minimizing the model assumptions.

  14. Dry ice blasting as a substitution for the conventional electroplating pre-treatments

    Directory of Open Access Journals (Sweden)

    Uhlmann Eckart

    2016-01-01

    Full Text Available For high quality electroplated products, surfaces must be thoroughly pre-treated. For this purpose electroplating currently needs a variety of chemical baths. The used chemicals are injurious to health and harmful to the environment. In addition, the conventional pre-treatment has a long process time which results in high costs. Dry ice blasting alone or in combination with other processes has the potential to completely substitute these conventional pre-treatment processes. Three process sequences as pre-treatment methods prior to electroplating were investigated on the aluminium alloys AlSi12 and AlMg3. The used processes are dry ice blasting, tempering during dry ice blasting and glass bead blasting followed by dry ice blasting. The influence of the parameters on the surface roughness, surface topography and surface tension of the workpieces was examined. A model to describe the correlation between the dry ice blasting parameters and surface parameters was developed. Finally, an adhesion test of electroplated specimen was conducted in order to determine the suitability of these alternative pre-treatment processes.

  15. Spalling of concrete subjected to blast loading

    Directory of Open Access Journals (Sweden)

    Foglar M.

    2013-09-01

    Full Text Available This paper presents outcomes of the blast field tests of FRC and reinforced concrete specimens, which were performed in cooperation with the Czech Army corps and Police of the Czech Republic in the military training area Boletice. The numerical evaluation of the experiments focused on the spalling of concrete subjected to blast loading started after the first set of the tests, took almost 3 years and required further small-scale experiments performed in the labs of the Czech Technical University.

  16. Chronic caffeine exposure attenuates blast-induced memory deficit in mice.

    Science.gov (United States)

    Ning, Ya-Lei; Yang, Nan; Chen, Xing; Zhao, Zi-Ai; Zhang, Xiu-Zhu; Chen, Xing-Yun; Li, Ping; Zhao, Yan; Zhou, Yuan-Guo

    2015-01-01

    To investigate the effects of three different ways of chronic caffeine administration on blast- induced memory dysfunction and to explore the underlying mechanisms. Adult male C57BL/6 mice were used and randomly divided into five groups: control: without blast exposure, con-water: administrated with water continuously before and after blast-induced traumatic brain injury (bTBI), con-caffeine: administrated with caffeine continuously for 1 month before and after bTBI, pre-caffeine: chronically administrated with caffeine for 1 month before bTBI and withdrawal after bTBI, post-caffeine: chronically administrated with caffeine after bTBI. After being subjected to moderate intensity of blast injury, mice were recorded for learning and memory performance using Morris water maze (MWM) paradigms at 1, 4, and 8 weeks post-blast injury. Neurological deficit scoring, glutamate concentration, proinflammatory cytokines production, and neuropathological changes at 24 h, 1, 4, and 8 weeks post-bTBI were examined to evaluate the brain injury in early and prolonged stages. Adenosine A1 receptor expression was detected using qPCR. All of the three ways of chronic caffeine exposure ameliorated blast-induced memory deficit, which is correlated with the neuroprotective effects against excitotoxicity, inflammation, astrogliosis and neuronal loss at different stages of injury. Continuous caffeine treatment played positive roles in both early and prolonged stages of bTBI; pre-bTBI and post-bTBI treatment of caffeine tended to exert neuroprotective effects at early and prolonged stages of bTBI respectively. Up-regulation of adenosine A1 receptor expression might contribute to the favorable effects of chronic caffeine consumption. Since caffeinated beverages are widely consumed in both civilian and military personnel and are convenient to get, the results may provide a promising prophylactic strategy for blast-induced neurotrauma and the consequent cognitive impairment.

  17. Controlled Blasting for Deconstruction of a Railway Bridge Near Sahibganj

    Science.gov (United States)

    Mandal, S. K.; Ghosh, A. K.; Oraon, S.

    2018-06-01

    Some of the Indian Railway bridges require reconstruction for electrification and expansion of railway tracks. Dismantling of bridge within time schedule in densely populated area requires controlled and pre-planned blasting methodology for safe pulling down of the structure and quick removal of blasted debris for fast restoration of tracks and smooth plying of trains. The three arched railway bridge (Bridge No. 61) located between Sahibganj and Karamtola cases one such example where the bridge was dismantled and the track was restored within 4 h of blasting, though the stipulated block period for demolition and restoration of tracks was 6 h. The 25.48 m long three-arched bridge was drilled and blasted with 225 number of blastholes (32 mm diameter) and 100 kg explosive (25 mm diameter). Length of blastholes varied between 0.5 and 1.8 m with blast geometry of 0.3-0.35 m burden and 0.33 m spacing. This paper deals with the conceptual and theoretical model developed for identification of the key locations for drilling and implementation of the same. It also discusses about the precautionary measures and the drilling pattern adopted for quick demolition and speedy restoration of tracks.

  18. Controlled Blasting for Deconstruction of a Railway Bridge Near Sahibganj

    Science.gov (United States)

    Mandal, S. K.; Ghosh, A. K.; Oraon, S.

    2018-02-01

    Some of the Indian Railway bridges require reconstruction for electrification and expansion of railway tracks. Dismantling of bridge within time schedule in densely populated area requires controlled and pre-planned blasting methodology for safe pulling down of the structure and quick removal of blasted debris for fast restoration of tracks and smooth plying of trains. The three arched railway bridge (Bridge No. 61) located between Sahibganj and Karamtola cases one such example where the bridge was dismantled and the track was restored within 4 h of blasting, though the stipulated block period for demolition and restoration of tracks was 6 h. The 25.48 m long three-arched bridge was drilled and blasted with 225 number of blastholes (32 mm diameter) and 100 kg explosive (25 mm diameter). Length of blastholes varied between 0.5 and 1.8 m with blast geometry of 0.3-0.35 m burden and 0.33 m spacing. This paper deals with the conceptual and theoretical model developed for identification of the key locations for drilling and implementation of the same. It also discusses about the precautionary measures and the drilling pattern adopted for quick demolition and speedy restoration of tracks.

  19. Modelling of turbulent combustion in the blast furnace raceway

    Energy Technology Data Exchange (ETDEWEB)

    Karvinen, R.; Maekiranta, R. [Tampere Univ. (Finland). Energy and Process Engineering

    1996-12-31

    The phenomena concerning coke-gas -suspension and simultaneous combustion of solid coke particles and residual fuel oil in a blast furnace raceway are modelled. The flow field of suspension is predicted by using the two fluid model, which is based on the Eulerian method, in the Phoenics code. The standard k-e -model of turbulence is used. Pyrolysis of oil droplets is calculated with the own coded subroutine, which is based on the Lagrangian approach. Gas phase reaction rate is assumed to be controlled by chemical kinetics. Radiative heat transfer is calculated by using the six-flux method. Heterogenous surface reactions are used for the coke particles. Calculations without coke combustion show that due to a poor mixing in the hot blast, pyrolysis gases of residual fuel oil have not time enough to react with oxygen. It is obvious that if combustion of coke particles is taken into account, the oxygen content in the blast decreases to such a level, that unburnt pyrolysis gases can flow out of the raceway causing problems. The distribution of coke void fraction has been succeeded to predict in the raceway domain. Coke particles fall from the upper part of the raceway to the hot blast forming locally high concentrations, which affect very strongly the oxygen distribution of the hot blast. (orig.) SULA 2 Research Programme; 10 refs.

  20. Modelling of turbulent combustion in the blast furnace raceway

    Energy Technology Data Exchange (ETDEWEB)

    Karvinen, R; Maekiranta, R [Tampere Univ. (Finland). Energy and Process Engineering

    1997-12-31

    The phenomena concerning coke-gas -suspension and simultaneous combustion of solid coke particles and residual fuel oil in a blast furnace raceway are modelled. The flow field of suspension is predicted by using the two fluid model, which is based on the Eulerian method, in the Phoenics code. The standard k-e -model of turbulence is used. Pyrolysis of oil droplets is calculated with the own coded subroutine, which is based on the Lagrangian approach. Gas phase reaction rate is assumed to be controlled by chemical kinetics. Radiative heat transfer is calculated by using the six-flux method. Heterogenous surface reactions are used for the coke particles. Calculations without coke combustion show that due to a poor mixing in the hot blast, pyrolysis gases of residual fuel oil have not time enough to react with oxygen. It is obvious that if combustion of coke particles is taken into account, the oxygen content in the blast decreases to such a level, that unburnt pyrolysis gases can flow out of the raceway causing problems. The distribution of coke void fraction has been succeeded to predict in the raceway domain. Coke particles fall from the upper part of the raceway to the hot blast forming locally high concentrations, which affect very strongly the oxygen distribution of the hot blast. (orig.) SULA 2 Research Programme; 10 refs.

  1. A genome-wide SNP-association study confirms a sequence variant (g.66493737C>T in the equine myostatin (MSTN gene as the most powerful predictor of optimum racing distance for Thoroughbred racehorses

    Directory of Open Access Journals (Sweden)

    Whiston Ronan

    2010-10-01

    Full Text Available Abstract Background Thoroughbred horses have been selected for traits contributing to speed and stamina for centuries. It is widely recognized that inherited variation in physical and physiological characteristics is responsible for variation in individual aptitude for race distance, and that muscle phenotypes in particular are important. Results A genome-wide SNP-association study for optimum racing distance was performed using the EquineSNP50 Bead Chip genotyping array in a cohort of n = 118 elite Thoroughbred racehorses divergent for race distance aptitude. In a cohort-based association test we evaluated genotypic variation at 40,977 SNPs between horses suited to short distance (≤ 8 f and middle-long distance (> 8 f races. The most significant SNP was located on chromosome 18: BIEC2-417495 ~690 kb from the gene encoding myostatin (MSTN [Punadj. = 6.96 × 10-6]. Considering best race distance as a quantitative phenotype, a peak of association on chromosome 18 (chr18:65809482-67545806 comprising eight SNPs encompassing a 1.7 Mb region was observed. Again, similar to the cohort-based analysis, the most significant SNP was BIEC2-417495 (Punadj. = 1.61 × 10-9; PBonf. = 6.58 × 10-5. In a candidate gene study we have previously reported a SNP (g.66493737C>T in MSTN associated with best race distance in Thoroughbreds; however, its functional and genome-wide relevance were uncertain. Additional re-sequencing in the flanking regions of the MSTN gene revealed four novel 3' UTR SNPs and a 227 bp SINE insertion polymorphism in the 5' UTR promoter sequence. Linkage disequilibrium was highest between g.66493737C>T and BIEC2-417495 (r2 = 0.86. Conclusions Comparative association tests consistently demonstrated the g.66493737C>T SNP as the superior variant in the prediction of distance aptitude in racehorses (g.66493737C>T, P = 1.02 × 10-10; BIEC2-417495, Punadj. = 1.61 × 10-9. Functional investigations will be required to determine whether this

  2. Rapid release of tissue enzymes into blood after blast exposure: potential use as biological dosimeters.

    Directory of Open Access Journals (Sweden)

    Peethambaran Arun

    Full Text Available Explosive blast results in multiple organ injury and polytrauma, the intensity of which varies with the nature of the exposure, orientation, environment and individual resilience. Blast overpressure alone may not precisely indicate the level of body or brain injury after blast exposure. Assessment of the extent of body injury after blast exposure is important, since polytrauma and systemic factors significantly contribute to blast-induced traumatic brain injury. We evaluated the activity of plasma enzymes including aspartate aminotransferase (AST, alanine aminotransferase (ALT, lactate dehydrogenase (LDH and creatine kinase (CK at different time points after blast exposure using a mouse model of single and repeated blast exposures to assess the severity of injury. Our data show that activities of all the enzymes in the plasma were significantly increased as early as 1 h after blast exposure. The elevated enzyme activity remained up to 6 h in an overpressure dose-dependent manner and returned close to normal levels at 24 h. Head-only blast exposure with body protection showed no increase in the enzyme activities suggesting that brain injury alone does not contribute to the systemic increase. In contrast to plasma increase, AST, ALT and LDH activity in the liver and CK in the skeletal muscle showed drastic decrease at 6 h after blast exposures. Histopathology showed mild necrosis at 6 h and severe necrosis at 24 h after blast exposures in liver and no changes in the skeletal muscle suggesting that the enzyme release from the tissue to plasma is probably triggered by transient cell membrane disruption from shockwave and not due to necrosis. Overpressure dependent transient release of tissue enzymes and elevation in the plasma after blast exposure suggest that elevated enzyme activities in the blood can be potentially used as a biological dosimeter to assess the severity of blast injury.

  3. Effect of surface conditions on blast wave propagation

    International Nuclear Information System (INIS)

    Song, Seung Ho; Li, Yi Bao; Lee, Chang Hoon; Choi, Jung Il

    2016-01-01

    We performed numerical simulations of blast wave propagations on surfaces by solving axisymmetric two-dimensional Euler equations. Assuming the initial stage of fireball at the breakaway point after an explosion, we investigated the effect of surface conditions considering surface convex or concave elements and thermal conditions on blast wave propagations near the ground surface. Parametric studies were performed by varying the geometrical factors of the surface element as well as thermal layer characteristics. We found that the peak overpressure near the ground zero was increased due to the surface elements, while modulations of the blast wave propagations were limited within a region for the surface elements. Because of the thermal layer, the precursor was formed in the propagations, which led to the attenuation of the peak overpressure on the ground surface

  4. Galaxy distances and deviations from universal expansion; Proceedings of the NATO Advanced Research Workshop, Kona, HI, Jan. 13-17, 1986

    Science.gov (United States)

    Madore, Barry F.; Tully, R. Brent

    A collection of papers on galaxy distances and deviations from universal expansion is presented. Individual topics addressed include: new results on the distance scale and the Hubble constant, Magellanic Clouds and the distance scale, CCD observations of Cepheids in nearby galaxies, distances using A supergiant stars, infrared calibration of the Cepheid distance scale, two stepping stones to the Hubble constant, physical models of supernovae and the distance scale, 21 cm line widths and distances of spiral galaxies, infrared color-luminosity relations for field galaxies, minimizing the scatter in the Tully-Fisher relation, photometry of galaxies and the local peculiar motion, elliptical galaxies and nonuniformities in the Hubble flow, and large-scale anisotropy in the Hubble flow. Also discussed are: improved distance indicator for elliptical galaxies, anisotropy of galaxies detected by IRAS, the local gravitational field, measurements of the CBR, measure of cosmological times, ages from nuclear cosmochronology, extragalactic gas at high redshift, supercluster infall models, Virgo infall and the mass density of the universe, dynamics of superclusters and Omega(0), distribution of galaxies versus dark matter, peculiar velocities and galaxy formation, cosmological shells and blast waves.

  5. PRESSURE-IMPULSE DIAGRAM OF MULTI-LAYERED ALUMINUM FOAM PANELS UNDER BLAST PRESSURE

    Directory of Open Access Journals (Sweden)

    CHANG-SU SHIM

    2013-06-01

    Full Text Available Anti-terror engineering has increasing demand in construction industry, but basis of design (BOD is normally not clear for designers. Hardening of structures has limitations when design loads are not defined. Sacrificial foam claddings are one of the most efficient methods to protect blast pressure. Aluminum foam can have designed yield strength according to relative density and mitigate the blast pressure below a target transmitted pressure. In this paper, multi-layered aluminum foam panels were proposed to enhance the pressure mitigation by increasing effective range of blast pressure. Through explicit finite element analyses, the performance of blast pressure mitigation by the multi-layered foams was evaluated. Pressure-impulse diagrams for the foam panels were developed from extensive analyses. Combination of low and high strength foams showed better applicability in wider range of blast pressure.

  6. Mapping of Micro-Tom BAC-End Sequences to the Reference Tomato Genome Reveals Possible Genome Rearrangements and Polymorphisms

    Science.gov (United States)

    Asamizu, Erika; Shirasawa, Kenta; Hirakawa, Hideki; Sato, Shusei; Tabata, Satoshi; Yano, Kentaro; Ariizumi, Tohru; Shibata, Daisuke; Ezura, Hiroshi

    2012-01-01

    A total of 93,682 BAC-end sequences (BESs) were generated from a dwarf model tomato, cv. Micro-Tom. After removing repetitive sequences, the BESs were similarity searched against the reference tomato genome of a standard cultivar, “Heinz 1706.” By referring to the “Heinz 1706” physical map and by eliminating redundant or nonsignificant hits, 28,804 “unique pair ends” and 8,263 “unique ends” were selected to construct hypothetical BAC contigs. The total physical length of the BAC contigs was 495, 833, 423 bp, covering 65.3% of the entire genome. The average coverage of euchromatin and heterochromatin was 58.9% and 67.3%, respectively. From this analysis, two possible genome rearrangements were identified: one in chromosome 2 (inversion) and the other in chromosome 3 (inversion and translocation). Polymorphisms (SNPs and Indels) between the two cultivars were identified from the BLAST alignments. As a result, 171,792 polymorphisms were mapped on 12 chromosomes. Among these, 30,930 polymorphisms were found in euchromatin (1 per 3,565 bp) and 140,862 were found in heterochromatin (1 per 2,737 bp). The average polymorphism density in the genome was 1 polymorphism per 2,886 bp. To facilitate the use of these data in Micro-Tom research, the BAC contig and polymorphism information are available in the TOMATOMICS database. PMID:23227037

  7. Mycobacterial species as case-study of comparative genome analysis.

    Science.gov (United States)

    Zakham, F; Belayachi, L; Ussery, D; Akrim, M; Benjouad, A; El Aouad, R; Ennaji, M M

    2011-02-08

    The genus Mycobacterium represents more than 120 species including important pathogens of human and cause major public health problems and illnesses. Further, with more than 100 genome sequences from this genus, comparative genome analysis can provide new insights for better understanding the evolutionary events of these species and improving drugs, vaccines, and diagnostics tools for controlling Mycobacterial diseases. In this present study we aim to outline a comparative genome analysis of fourteen Mycobacterial genomes: M. avium subsp. paratuberculosis K—10, M. bovis AF2122/97, M. bovis BCG str. Pasteur 1173P2, M. leprae Br4923, M. marinum M, M. sp. KMS, M. sp. MCS, M. tuberculosis CDC1551, M. tuberculosis F11, M. tuberculosis H37Ra, M. tuberculosis H37Rv, M. tuberculosis KZN 1435 , M. ulcerans Agy99,and M. vanbaalenii PYR—1, For this purpose a comparison has been done based on their length of genomes, GC content, number of genes in different data bases (Genbank, Refseq, and Prodigal). The BLAST matrix of these genomes has been figured to give a lot of information about the similarity between species in a simple scheme. As a result of multiple genome analysis, the pan and core genome have been defined for twelve Mycobacterial species. We have also introduced the genome atlas of the reference strain M. tuberculosis H37Rv which can give a good overview of this genome. And for examining the phylogenetic relationships among these bacteria, a phylogenic tree has been constructed from 16S rRNA gene for tuberculosis and non tuberculosis Mycobacteria to understand the evolutionary events of these species.

  8. Genomic characterization of Burkholderia pseudomallei isolates selected for medical countermeasures testing: comparative genomics associated with differential virulence.

    Directory of Open Access Journals (Sweden)

    Jason W Sahl

    Full Text Available Burkholderia pseudomallei is the causative agent of melioidosis and a potential bioterrorism agent. In the development of medical countermeasures against B. pseudomallei infection, the US Food and Drug Administration (FDA animal Rule recommends using well-characterized strains in animal challenge studies. In this study, whole genome sequence data were generated for 6 B. pseudomallei isolates previously identified as candidates for animal challenge studies; an additional 5 isolates were sequenced that were associated with human inhalational melioidosis. A core genome single nucleotide polymorphism (SNP phylogeny inferred from a concatenated SNP alignment from the 11 isolates sequenced in this study and a diverse global collection of isolates demonstrated the diversity of the proposed Animal Rule isolates. To understand the genomic composition of each isolate, a large-scale blast score ratio (LS-BSR analysis was performed on the entire pan-genome; this demonstrated the variable composition of genes across the panel and also helped to identify genes unique to individual isolates. In addition, a set of ~550 genes associated with pathogenesis in B. pseudomallei were screened against the 11 sequenced genomes with LS-BSR. Differential gene distribution for 54 virulence-associated genes was observed between genomes and three of these genes were correlated with differential virulence observed in animal challenge studies using BALB/c mice. Differentially conserved genes and SNPs associated with disease severity were identified and could be the basis for future studies investigating the pathogenesis of B. pseudomallei. Overall, the genetic characterization of the 11 proposed Animal Rule isolates provides context for future studies involving B. pseudomallei pathogenesis, differential virulence, and efficacy to therapeutics.

  9. Primary Blast Injury Criteria for Animal/Human TBI Models using Field Validated Shock Tubes

    Science.gov (United States)

    2017-09-01

    acute hemorrhage characterized by partial filling of small groups of alveoli by blood . 240 kPa: Mild multifocal pools of acute hemorrhage which...Neurotrauma, Blast TBI, Primary blast brain injury, Blast overpressure, Blood -brain barrier, Neuroinflammation, Oxidative stress, Neuroproteomics 16...stress, neuroinflammation and BBB damage as a result of blast overpressure in the acute phase (0, 4 and 24 hours post-exposure). Our group

  10. Blast Exposure, White Matter Integrity, and Cognitive Function in Iraq and Afghanistan Combat Veterans

    Directory of Open Access Journals (Sweden)

    Erin A. Hazlett

    2017-04-01

    Full Text Available The long-term effects of blast exposure are a major health concern for combat veterans returning from the recent conflicts in Iraq and Afghanistan. We used an optimized diffusion tensor imaging tractography algorithm to assess white matter (WM fractional anisotropy (FA in blast-exposed Iraq and Afghanistan veterans (n = 40 scanned on average 3.7 years after deployment/trauma exposure. Veterans diagnosed with a blast-related mild traumatic brain injury (mTBI were compared to combat veterans with blast exposure but no TBI diagnosis. Blast exposure was associated with decreased FA in several WM tracts. However, total blast exposure did not correlate well with neuropsychological testing performance and there were no differences in FA based on mTBI diagnosis. Yet, veterans with mTBI performed worse on every neurocognitive test administered. Multiple linear regression across all blast-exposed veterans using a six-factor prediction model indicated that the amount of blast exposure accounted for 11–15% of the variability in composite FA scores such that as blast exposure increased, FA decreased. Education accounted for 10% of the variability in composite FA scores and 25–32% of FA variability in the right cingulum, such that as level of education increased, FA increased. Total blast exposure, age, and education were significant predictors of FA in the left cingulum. We did not find any effect of post-traumatic stress disorder on cognition or composite FA. In summary, our findings suggest that greater total blast exposure is a contributing factor to poor WM integrity. While FA was not associated with neurocognitive performance, we hypothesize that FA changes in the cingulum in veterans with multiple combat exposures and no head trauma prior to deployment may represent a marker of vulnerability for future deficits. Future work needs to examine this longitudinally.

  11. D-BLAST OFDM with Channel Estimation

    Directory of Open Access Journals (Sweden)

    Du Jianxuan

    2004-01-01

    Full Text Available Multiple-input and multiple-output (MIMO systems formed by multiple transmit and receive antennas can improve performance and increase capacity of wireless communication systems. Diagonal Bell Laboratories Layered Space-Time (D-BLAST structure offers a low-complexity solution for realizing the attractive capacity of MIMO systems. However, for broadband wireless communications, channel is frequency-selective and orthogonal frequency division multiplexing (OFDM has to be used with MIMO techniques to reduce system complexity. In this paper, we investigate D-BLAST for MIMO-OFDM systems. We develop a layerwise channel estimation algorithm which is robust to channel variation by exploiting the characteristic of the D-BLAST structure. Further improvement is made by subspace tracking to considerably reduce the error floor. Simulation results show that the layerwise estimators require 1 dB less signal-to-noise ratio (SNR than the traditional blockwise estimator for a word error rate (WER of when Doppler frequency is 40 Hz. Among the layerwise estimators, the subspace-tracking estimator provides a 0.8 dB gain for WER with 200 Hz Doppler frequency compared with the DFT-based estimator.

  12. Verification of wet blasting decontamination technology

    International Nuclear Information System (INIS)

    Matsubara, Sachito; Murayama, Kazunari; Yoshida, Hirohisa; Igei, Shigemitsu; Izumida, Tatsuo

    2013-01-01

    Macoho Co., Ltd. participated in the projects of 'Decontamination Verification Test FY 2011 by the Ministry of the Environment' and 'Decontamination Verification Test FY 2011 by the Cabinet Office.' And we tested verification to use a wet blasting technology for decontamination of rubble and roads contaminated by the accident of Fukushima Daiichi Nuclear Power Plant of the Tokyo Electric Power Company. As a results of the verification test, the wet blasting decontamination technology showed that a decontamination rate became 60-80% for concrete paving, interlocking, dense-grated asphalt pavement when applied to the decontamination of the road. When it was applied to rubble decontamination, a decontamination rate was 50-60% for gravel and approximately 90% for concrete and wood. It was thought that Cs-134 and Cs-137 attached to the fine sludge scraped off from a decontamination object and the sludge was found to be separated from abrasives by wet cyclene classification: the activity concentration of the abrasives is 1/30 or less than the sludge. The result shows that the abrasives can be reused without problems when the wet blasting decontamination technology is used. (author)

  13. Considering Bone Marrow Blasts From Nonerythroid Cellularity Improves the Prognostic Evaluation of Myelodysplastic Syndromes.

    Science.gov (United States)

    Arenillas, Leonor; Calvo, Xavier; Luño, Elisa; Senent, Leonor; Alonso, Esther; Ramos, Fernando; Ardanaz, María Teresa; Pedro, Carme; Tormo, Mar; Marco, Víctor; Montoro, Julia; Díez-Campelo, María; Brunet, Salut; Arrizabalaga, Beatriz; Xicoy, Blanca; Andreu, Rafael; Bonanad, Santiago; Jerez, Andrés; Nomdedeu, Benet; Ferrer, Ana; Sanz, Guillermo F; Florensa, Lourdes

    2016-09-20

    WHO classification of myeloid malignancies is based mainly on the percentage of bone marrow (BM) blasts. This is considered from total nucleated cells (TNCs), unless there is erythroid-hyperplasia (erythroblasts ≥ 50%), calculated from nonerythroid cells (NECs). In these instances, when BM blasts are ≥ 20%, the disorder is classified as erythroleukemia, and when BM blasts are < 20%, as myelodysplastic syndrome (MDS). In the latter, the percentage of blasts is considered from TNCs. We assessed the percentage of BM blasts from TNCs and NECs in 3,692 patients with MDS from the Grupo Español de Síndromes Mielodisplásicos, 465 patients with erythroid hyperplasia (MDS-E) and 3,227 patients without erythroid hyperplasia. We evaluated the relevance of both quantifications on classification and prognostication. By enumerating blasts systematically from NECs, 22% of patients with MDS-E and 12% with MDS from the whole series diagnosed within WHO categories with < 5% BM blasts, were reclassified into higher-risk categories and showed a poorer overall survival than did those who remained in initial categories (P = .006 and P = .001, respectively). Following WHO recommendations, refractory anemia with excess blasts (RAEB)-2 diagnosis is not possible in MDS-E, as patients with 10% to < 20% BM blasts from TNCs fulfill erythroleukemia criteria; however, by considering blasts from NECs, 72 patients were recoded as RAEB-2 and showed an inferior overall survival than did patients with RAEB-1 without erythroid hyperplasia. Recalculating the International Prognostic Scoring System by enumerating blasts from NECs in MDS-E and in the overall MDS population reclassified approximately 9% of lower-risk patients into higher-risk categories, which indicated the survival expected for higher-risk patients. Regardless of the presence of erythroid hyperplasia, calculating the percentage of BM blasts from NECs improves prognostic assessment of MDS. This fact should be considered in future

  14. Collembase: a repository for springtail genomics and soil quality assessment

    Directory of Open Access Journals (Sweden)

    Klein-Lankhorst Rene M

    2007-09-01

    Full Text Available Abstract Background Environmental quality assessment is traditionally based on responses of reproduction and survival of indicator organisms. For soil assessment the springtail Folsomia candida (Collembola is an accepted standard test organism. We argue that environmental quality assessment using gene expression profiles of indicator organisms exposed to test substrates is more sensitive, more toxicant specific and significantly faster than current risk assessment methods. To apply this species as a genomic model for soil quality testing we conducted an EST sequencing project and developed an online database. Description Collembase is a web-accessible database comprising springtail (F. candida genomic data. Presently, the database contains information on 8686 ESTs that are assembled into 5952 unique gene objects. Of those gene objects ~40% showed homology to other protein sequences available in GenBank (blastx analysis; non-redundant (nr database; expect-value -5. Software was applied to infer protein sequences. The putative peptides, which had an average length of 115 amino-acids (ranging between 23 and 440 were annotated with Gene Ontology (GO terms. In total 1025 peptides (~17% of the gene objects were assigned at least one GO term (expect-value -25. Within Collembase searches can be conducted based on BLAST and GO annotation, cluster name or using a BLAST server. The system furthermore enables easy sequence retrieval for functional genomic and Quantitative-PCR experiments. Sequences are submitted to GenBank (Accession numbers: EV473060 – EV481745. Conclusion Collembase http://www.collembase.org is a resource of sequence data on the springtail F. candida. The information within the database will be linked to a custom made microarray, based on the Agilent platform, which can be applied for soil quality testing. In addition, Collembase supplies information that is valuable for related scientific disciplines such as molecular ecology

  15. Analysis of effect of aluminized canfo on fragmentation and economics of quarry blast

    International Nuclear Information System (INIS)

    Shoukat, M.R.; Akram, M.

    2016-01-01

    Reducing the explosive cost for drilling and blasting operations conducted at limestone quarries is a major concern for every mine operator. In Pakistan, to reduce explosive cost, Calcium Ammonium Nitrate with Fuel Oil (CANFO) is commonly used in explosive column charge in place of Ammonium nitrate fuel oil (ANFO). However, fragmentation of the blast has to be compromised over cost reduction. Hence it is desired to enhance the performance of CANFO. In this study, Aluminum (AL) is added into Calcium Ammonium Nitrate (CAN) to analyze its effect on fragmentation and economics of blast at a limestone quarry. Experimental shots were held using rectangular drilling pattern (current practice), using CANFO and ALCANFO in separate shots, while all other blast design factors were kept constant. Post blast analysis for all shots was done in terms of fragmentation and cost. The shots using ALCANFO proved to be better fragmentation wise, and also assured a saving of 1.6% in drilling and blasting costs. (author)

  16. Proceedings of the fourteenth annual symposium on explosives and blasting research

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1998-12-31

    Subjects covered include: ground vibration effects on structures; open-pit blast vibration prediction; effects of velocity of detonation and gas pressurization on fragmentation in layered rock; thermal ignition for emulsion powder explosives and emulsion matrix; effect of cut-off pressure on energy partition and blast design; new burden and spacing formulae for optimum blasting; calculated risk of experiencing lightning caused unplanned detonation; predicting explosive toxic fumes; and stemming techniques for loading angled holes charged with Anfo.

  17. Carbon dioxide blasting as a nondestructive method for nuclear material decontamination

    International Nuclear Information System (INIS)

    Norton, C.J.; Campbell, R.A.

    1991-01-01

    Many traditional methods of decontamination use chemicals that are inherently harmful and can be direct environmental hazards. These methods may generate large volumes of mixed waste and high disposal costs. Sandblasting grit disposal costs have dramatically increased. Also, the additional volume of contaminated waste generated by sandblasting affects facilities disposal quotas. Water blasting now requires expensive processing procedures. State and federal governments are developing regulations that restrict the use of these methods; therefore, alternative technologies are becoming increasingly important. Carbon dioxide (CO 2 ) blasting is an important break-through for nuclear decontamination because of its superior environmental characteristics. The CO 2 blasting method is waterless, waste free, noncorrosive, and nonreactive. Commercial CO 2 is primarily produced as a salvaged waste gas from the production of other industrial gases. In the blasting operation, the frozen CO 2 pellet is transformed into its gaseous state, which is a normal component of the earth's atmosphere. The CO 2 blasting system can solve many of the environmental and cost problems now facing managers responsible for nuclear contamination

  18. X-ray diffractometry of steam cured ordinary Portland and blast-furnace-slag cements

    International Nuclear Information System (INIS)

    Camarini, G.; Djanikian, J.G.

    1994-01-01

    This work studies some aspects of the phases produced by hydration of ordinary and blast-furnace-slag cements, at normal conditions and steam cured (60 and 95 0 C), using an X-ray diffraction technique. The blast-furnace-slag cement was a mixture of 50% of ordinary Portland cement and 50% of blast-furnace-slag (separately grinding). After curing the X-ray diffraction reveals that, in relation to ordinary Portland cement, the main phases in blast-furnace-slag cement are hydrated silicates and aluminates, hydro garnet, etringitte and mono sulphate. After steam curing the hydration of blast-furnace-slag cement proceeds. This is a result of the slag activation by the curing temperature. (author). 8 refs., 3 figs., 1 tab

  19. A study on impulsive sound attenuation for a high-pressure blast flow field

    International Nuclear Information System (INIS)

    Kang, Kuk Jeong; Ko, Sung Ho; Lee, Dong Soo

    2008-01-01

    The present work addresses a numerical study on impulsive sound attenuation for a complex high-pressure blast flow field; these characteristics are generated by a supersonic propellant gas flow through a shock tube into an ambient environment. A numerical solver for analyzing the high pressure blast flow field is developed in this study. From numerical simulations, wave dynamic processes (which include a first precursor shock wave, a second main propellant shock wave, and interactions in the muzzle blasts) are simulated and discussed. The pressure variation of the blast flow field is analyzed to evaluate the effect of a silencer. A live firing test is also performed to evaluate four different silencers. The results of this study will be helpful in understanding blast wave and in designing silencers

  20. A study on impulsive sound attenuation for a high-pressure blast flow field

    Energy Technology Data Exchange (ETDEWEB)

    Kang, Kuk Jeong [Agency for Defence Development, Daejeon (Korea, Republic of); Ko, Sung Ho; Lee, Dong Soo [Chungnam National University, Daejeon (Korea, Republic of)

    2008-01-15

    The present work addresses a numerical study on impulsive sound attenuation for a complex high-pressure blast flow field; these characteristics are generated by a supersonic propellant gas flow through a shock tube into an ambient environment. A numerical solver for analyzing the high pressure blast flow field is developed in this study. From numerical simulations, wave dynamic processes (which include a first precursor shock wave, a second main propellant shock wave, and interactions in the muzzle blasts) are simulated and discussed. The pressure variation of the blast flow field is analyzed to evaluate the effect of a silencer. A live firing test is also performed to evaluate four different silencers. The results of this study will be helpful in understanding blast wave and in designing silencers

  1. Myeloblastic and lymphoblastic markers in acute undifferentiated leukemia and chronic myelogenous leukemia in blast crisis.

    Science.gov (United States)

    Shumak, K H; Baker, M A; Taub, R N; Coleman, M S

    1980-11-01

    Blast cells were obtained from 17 patients with acute undifferentiated leukemia and 13 patients with chronic myelogenous leukemia in blast crisis. The blasts were tested with anti-i serum in cytotoxicity tests and with antisera to myeloblastic leukemia-associated antigens in immunofluorescence tests. The terminal deoxynucleotidyl transferase (TDT) content of the blasts was also measured. Lymphoblasts react strongly with anti-i, do not react with anti-myeloblast serum, and have high levels of TDT; myeloblasts react weakly with anti-i, do not react with anti-myeloblast serum, and have very low levels of TDT. Of the 17 patients with acute undifferentiated leukemia, there were six with blasts which reacted like lymphoblasts, six with blasts which reacted like myeloblasts, and five with blasts bearing different combinations of these lymphoblastic and myeloblastic markers. Eight of the 11 patients with lymphoblastic or mixed lymphoblastic-myeloblastic markers, but only one of the six with myeloblastic markers, achieved complete or partial remission in response to therapy. Thus, in acute undifferentiated leukemia, classification of blasts with these markers may be of prognostic value. Of the 13 patients with chronic myelogenous leukemia in blast crises, the markers were concordant (for myeloblasts) in only two cases. Three of the 13 patients had TDT-positive blasts, but the reactions of these cells with anti-i and with anti-myeloblast serum differed from those seen with lymphoblasts from patients with acute lymphoblastic leukemia. Although the cell involved in "lymphoid" blast crisis of chronic myelogenous leukemia is similar in many respects to that involved in acute lymphoblastic leukemia, these cells are not identical.

  2. Osteogenic differentiation of periosteum-derived stromal cells in blast-associated traumatic loading

    Science.gov (United States)

    Sory, David R.; Amin, Harsh D.; Rankin, Sara M.; Proud, William G.

    2017-06-01

    One of the most recurrent medical complications resulting from blast trauma includes blast-induced heterotopic ossification. Heterotopic ossification refers to the pathologic formation of extraskeletal bone in non-osseous tissue. Although a number of studies have established the interaction between mechanics and biology in bone formation following shock trauma, the exact nature of the mechanical stimuli associated to blast-loading and their influence on the activation of osteogenic differentiation of cells remain unanswered. Here we present the design and calibration of a loading platform compatible with living cells to examine the effects of mechanical stress pulses of blast-associated varying strain rates on the activation of osteogenic differentiation of periosteum (PO) cells. Multiaxial compression loadings of PO cells are performed at different magnitudes of stress and ranges of strain rate. A proof of concept is presented so as to establish a new window to address fundamental questions regarding blast injuries at the cellular level. This work was conducted under the auspices of the Royal British Legion Centre for Blast Injury Studies at Imperial College London. The authors would like to acknowledge the financial support of the Royal British Legion.

  3. Design and development of a quiet, self-thrusting blast hole

    CSIR Research Space (South Africa)

    Ottermann, RW

    2001-08-01

    Full Text Available and demonstrated. The primary output of this project is a quiet, ergonomically, reliable blast hole drilling system, which is used to drill suitable blast holes by workers responsible for drilling these holes. The system has to be safe and reliable with reduced...

  4. Dry blasting decontaminating method for radioactive waste

    International Nuclear Information System (INIS)

    Nishiwaki, Hitoshi.

    1993-01-01

    In the present invention, when abrasives are dry blasted on the surface of radioactive wastes and the recovered abrasives are classified for re-use, abrasives having a microvicker's hardness (HMV) of greater than 600 and a grain size of greater than 1mm are used in a case where the radioactive wastes to be abraded are stainless steels. This enables dry blasting decontamination for stainless steels which has been considered to be impossible. In addition since the amount of secondary wastes are reduced, it is extremely effective. (T.M.)

  5. Atmospheric particulate emissions from dry abrasive blasting using coal slag

    Energy Technology Data Exchange (ETDEWEB)

    Bhaskar Kura; Kalpalatha Kambham; Sivaramakrishnan Sangameswaran; Sandhya Potana [University of New Orleans, New Orleans, LA (United States). Department of Civil and Environmental Engineering

    2006-08-15

    Coal slag is one of the widely used abrasives in dry abrasive blasting. Atmospheric emissions from this process include particulate matter (PM) and heavy metals, such as chromium, lead, manganese, nickel. Quantities and characteristics of PM emissions depend on abrasive characteristics and process parameters. Emission factors are key inputs to estimate emissions. Experiments were conducted to study the effect of blast pressure, abrasive feed rate, and initial surface contamination on total PM (TPM) emission factors for coal slag. Rusted and painted mild steel surfaces were used as base plates. Blasting was carried out in an enclosed chamber, and PM was collected from an exhaust duct using U.S. Environment Protection Agency source sampling methods for stationary sources. Results showed that there is significant effect of blast pressure, feed rate, and surface contamination on TPM emissions. Mathematical equations were developed to estimate emission factors in terms of mass of emissions per unit mass of abrasive used, as well as mass of emissions per unit of surface area cleaned. These equations will help industries in estimating PM emissions based on blast pressure and abrasive feed rate. In addition, emissions can be reduced by choosing optimum operating conditions. 40 refs., 5 figs., 2 tabs.

  6. Anatomical manifestations of primary blast ocular trauma observed in a postmortem porcine model.

    Science.gov (United States)

    Sherwood, Daniel; Sponsel, William E; Lund, Brian J; Gray, Walt; Watson, Richard; Groth, Sylvia L; Thoe, Kimberly; Glickman, Randolph D; Reilly, Matthew A

    2014-02-24

    We qualitatively describe the anatomic features of primary blast ocular injury observed using a postmortem porcine eye model. Porcine eyes were exposed to various levels of blast energy to determine the optimal conditions for future testing. We studied 53 enucleated porcine eyes: 13 controls and 40 exposed to a range of primary blast energy levels. Eyes were preassessed with B-scan and ultrasound biomicroscopy (UBM) ultrasonography, photographed, mounted in gelatin within acrylic orbits, and monitored with high-speed videography during blast-tube impulse exposure. Postimpact photography, ultrasonography, and histopathology were performed, and ocular damage was assessed. Evidence for primary blast injury was obtained. While some of the same damage was observed in the control eyes, the incidence and severity of this damage in exposed eyes increased with impulse and peak pressure, suggesting that primary blast exacerbated these injuries. Common findings included angle recession, internal scleral delamination, cyclodialysis, peripheral chorioretinal detachments, and radial peripapillary retinal detachments. No full-thickness openings of the eyewall were observed in any of the eyes tested. Scleral damage demonstrated the strongest associative tendency for increasing likelihood of injury with increased overpressure. These data provide evidence that primary blast alone (in the absence of particle impact) can produce clinically relevant ocular damage in a postmortem model. The blast parameters derived from this study are being used currently in an in vivo model. We also propose a new Cumulative Injury Score indicating the clinical relevance of observed injuries.

  7. Blasting and Blast Effects in Cold Regions. Part 3. Explosions in Ground Materials

    Science.gov (United States)

    1989-05-01

    121- York, Ontario: Technical Marketing Services- 123. Explosives, Canadian Industries, 6th edition. Gaffney, E.S. (1984b) Hugoniot of water ice. In...Mines, blasting. U.S. Bureau of Nlines , Report of Insesti- Report of lnsestigations RI 7751. gations 8507. Piekutoiski. A.J. (1974) I.aborator,, scale

  8. Simulation for the powder movement and accumulation in the lower part of blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Sugiyama, Takashi [Mineral Resources Research Center, Nippon Steel Technoresearch, Futtsu-shi Chiba (Japan)

    1998-12-31

    The behavior of unburnt char and coke powder in the blast furnace becomes material for discussion with the increase in injection rate of pulverized coal into the blast furnace. An analysis was made as to the simulation of powder accumulation at the deadman and dripping zone of blast furnace by using a powder/gas two-phases flow experimental data. When an excessive powder has penetrated at a low gas velocity, it brings an increment in holdup and the controlling factors are powder/gas ratio and gas velocity. An empirical formula used for estimating the powder hold-up in the blast furnace internal conditions has proposed based on similarity. The controlling {pi} numbers are Floude number, powder/gas ratio and particle diameter ratio of powder/lump. This empirical formular was connected with Blast Furnace Total Model `BRIGHT` for the simulation of powder amount distribution in the lower part of blast furnace. When Powder diameter Dk exceeds 100 {mu} and gas velocity becomes lower than 0.7m/s at PC1OOkg/T, the powder tends to accumulate in the deadman. These results was available for the decision of optimum blast conditions and optimum powder diameter in the high amount of pulverized coal injection to the blast furnace. (author) 10 refs.

  9. Simulation for the powder movement and accumulation in the lower part of blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Sugiyama, Takashi [Mineral Resources Research Center, Nippon Steel Technoresearch, Futtsu-shi Chiba (Japan)

    1997-12-31

    The behavior of unburnt char and coke powder in the blast furnace becomes material for discussion with the increase in injection rate of pulverized coal into the blast furnace. An analysis was made as to the simulation of powder accumulation at the deadman and dripping zone of blast furnace by using a powder/gas two-phases flow experimental data. When an excessive powder has penetrated at a low gas velocity, it brings an increment in holdup and the controlling factors are powder/gas ratio and gas velocity. An empirical formula used for estimating the powder hold-up in the blast furnace internal conditions has proposed based on similarity. The controlling {pi} numbers are Floude number, powder/gas ratio and particle diameter ratio of powder/lump. This empirical formular was connected with Blast Furnace Total Model `BRIGHT` for the simulation of powder amount distribution in the lower part of blast furnace. When Powder diameter Dk exceeds 100 {mu} and gas velocity becomes lower than 0.7m/s at PC1OOkg/T, the powder tends to accumulate in the deadman. These results was available for the decision of optimum blast conditions and optimum powder diameter in the high amount of pulverized coal injection to the blast furnace. (author) 10 refs.

  10. Blast Testing Issues and TBI; Experimental Models that Lead to Wrong Conclusions

    Directory of Open Access Journals (Sweden)

    Charles E. Needham

    2015-04-01

    Full Text Available Over the past several years we have noticed an increase in the number of blast injury studies published in peer-reviewed biomedical journals that have utilized improperly conceived experiments. Data from these studies will lead to false conclusions and more confusion than advancement in the understanding of blast injury, particularly blast neurotrauma. Computational methods to properly characterize the blast environment have been available for decades. These methods, combined with a basic understanding of blast wave phenomena enable researchers to extract useful information from well documented experiments. This basic understanding must include the differences and interrelationships of static pressure, dynamic pressure, reflected pressure, and total or stagnation pressure in transient shockwave flows, how they relate to loading of objects, and how they are properly measured. However, it is critical that the research community effectively overcomes the confusion that has been compounded by a misunderstanding of the differences between the loading produced by a free field explosive blast and loading produced by a conventional shock tube. The principles of blast scaling have been well established for decades and when properly applied will do much to repair these problems.This paper provides guidance regarding proper experimental methods and offers insights into the implications of improperly designed and executed tests. Through application of computational methods, useful data can be extracted from well documented historical tests, and future work can be conducted in a way to maximize the effectiveness and use of valuable biological test data.

  11. Blast exposure causes early and persistent aberrant phospho- and cleaved-tau expression in a murine model of mild blast-induced traumatic brain injury.

    Science.gov (United States)

    Huber, Bertrand R; Meabon, James S; Martin, Tobin J; Mourad, Pierre D; Bennett, Raymond; Kraemer, Brian C; Cernak, Ibolja; Petrie, Eric C; Emery, Michael J; Swenson, Erik R; Mayer, Cynthia; Mehic, Edin; Peskind, Elaine R; Cook, David G

    2013-01-01

    Mild traumatic brain injury (mTBI) is considered the 'signature injury' of combat veterans that have served during the wars in Iraq and Afghanistan. This prevalence of mTBI is due in part to the common exposure to high explosive blasts in combat zones. In addition to the threats of blunt impact trauma caused by flying objects and the head itself being propelled against objects, the primary blast overpressure (BOP) generated by high explosives is capable of injuring the brain. Compared to other means of causing TBI, the pathophysiology of mild-to-moderate BOP is less well understood. To study the consequences of BOP exposure in mice, we employed a well-established approach using a compressed gas-driven shock tube that recapitulates battlefield-relevant open-field BOP. We found that 24 hours post-blast a single mild BOP provoked elevation of multiple phospho- and cleaved-tau species in neurons, as well as elevating manganese superoxide-dismutase (MnSOD or SOD2) levels, a cellular response to oxidative stress. In hippocampus, aberrant tau species persisted for at least 30 days post-exposure, while SOD2 levels returned to sham control levels. These findings suggest that elevated phospho- and cleaved-tau species may be among the initiating pathologic processes induced by mild blast exposure. These findings may have important implications for efforts to prevent blast-induced insults to the brain from progressing into long-term neurodegenerative disease processes.

  12. Analysis of genetic polymorphism and genetic distance among four ...

    African Journals Online (AJOL)

    use

    2011-11-21

    Nov 21, 2011 ... The genomes of 4 sheep populations {Yuanqu white Tan sheep (YWT), Baozhongchang white Tan sheep. (BWT), black Tan sheep (BT) and small-tailed Han sheep (Han)} were screened using 10 microsatellite. DNA markers to estimate the genetic diversities and genetic distances among these ...

  13. 30 CFR 56.6404 - Separation of blasting circuits from power source.

    Science.gov (United States)

    2010-07-01

    ... LABOR METAL AND NONMETAL MINE SAFETY AND HEALTH SAFETY AND HEALTH STANDARDS-SURFACE METAL AND NONMETAL... when closed to fire the blast. (b) Lead wires shall not be connected to the blasting switch until the...

  14. 77 FR 31878 - Agency Information Collection Activities; Submission for OMB Review; Comment Request; Blasting...

    Science.gov (United States)

    2012-05-30

    ... requirements designed to protect covered employees working with and around blasting operations. Inventories of... for OMB Review; Comment Request; Blasting Operations and Use of Explosives Standard ACTION: Notice... (OSHA) sponsored information collection request (ICR) titled, ``Blasting Operations and Use of...

  15. Liquid flow in the hearth of the blast furnace

    International Nuclear Information System (INIS)

    Gauje, P.; Nicolle, R.; Steiler, J.M.; Venturini, M.J.; Libralesso, J.M.

    1992-01-01

    The hearth of a blast furnace is poorly known. Our approach to characterize the hearth involves classical methods of chemical engineering, assessing the flow conditions by means of radioactive tracer techniques. The most important feature of this study is to combine measurements on industrial blast furnaces, experiments on a small scale model and flow model. calculations. 8 refs., 16 figs

  16. Correlation exploration of metabolic and genomic diversity in rice

    Directory of Open Access Journals (Sweden)

    Shinozaki Kazuo

    2009-12-01

    Full Text Available Abstract Background It is essential to elucidate the relationship between metabolic and genomic diversity to understand the genetic regulatory networks associated with the changing metabolo-phenotype among natural variation and/or populations. Recent innovations in metabolomics technologies allow us to grasp the comprehensive features of the metabolome. Metabolite quantitative trait analysis is a key approach for the identification of genetic loci involved in metabolite variation using segregated populations. Although several attempts have been made to find correlative relationships between genetic and metabolic diversity among natural populations in various organisms, it is still unclear whether it is possible to discover such correlations between each metabolite and the polymorphisms found at each chromosomal location. To assess the correlative relationship between the metabolic and genomic diversity found in rice accessions, we compared the distance matrices for these two "omics" patterns in the rice accessions. Results We selected 18 accessions from the world rice collection based on their population structure. To determine the genomic diversity of the rice genome, we genotyped 128 restriction fragment length polymorphism (RFLP markers to calculate the genetic distance among the accessions. To identify the variations in the metabolic fingerprint, a soluble extract from the seed grain of each accession was analyzed with one dimensional 1H-nuclear magnetic resonance (NMR. We found no correlation between global metabolic diversity and the phylogenetic relationships among the rice accessions (rs = 0.14 by analyzing the distance matrices (calculated from the pattern of the metabolic fingerprint in the 4.29- to 0.71-ppm 1H chemical shift and the genetic distance on the basis of the RFLP markers. However, local correlation analysis between the distance matrices (derived from each 0.04-ppm integral region of the 1H chemical shift against genetic

  17. Influence of noxious products of blasting in mine air on miners' health

    Energy Technology Data Exchange (ETDEWEB)

    Zemlyakova, L F; Sukhanov, V V

    1979-07-01

    Changes in the percentage of carbon monoxide and nitric oxide in mine air as a result of blasting is analyzed as measured in coal mines of the Donbass in coal seams located from 500 m to 1000 m underground. It is stated that 15 minutes after blasting the concentration of carbon monoxide and nitric oxide drops to a permissible level. Fifty minutes after blasting the percentage of nitric oxide in mine air drops to such a level that it can not be detected. Carbon monoxide can be detected until the blasted rocks and coal are removed from the heading. The percentage of nitric oxide in mine air falls with growing depth of workings. The interdependence between state of miners' health and their contact with noxious gases is also analyzed. The analysis shows that miners working where blasting is used are ill more frequently than other miners, and their absence due to illness is longer. (In Russian)

  18. Optimization and application of blasting parameters based on the "pushing-wall" mechanism

    Science.gov (United States)

    Ren, Feng-yu; Sow, Thierno Amadou Mouctar; He, Rong-xing; Liu, Xin-rui

    2012-10-01

    The large structure parameter of a sublevel caving method was used in Beiminghe iron mine. The ores were generally lower than the medium hardness and easy to be drilled and blasted. However, the questions of boulder yield, "pushing-wall" accident rate, and brow damage rate were not effectively controlled in practical blasting. The model test of a similar material shows that the charge concentration of bottom blastholes in the sector is too high; the pushing wall is the fundamental reason for the poor blasting effect. One of the main methods to adjust the explosive distribution is to increase the length of charged blastholes. Therefore, the field tests with respect to increasing the length of uncharged blastholes were made in 12# stope of -95 subsection and 6# stope of Beiminghe iron mine. This paper took the test result of 12# stope as an example to analyze the impact of charge structure on blasting effect and design an appropriate blasting parameter that is to similar to No.12 stope.

  19. Implementation of a user defined mine blast model in LSDYNA

    NARCIS (Netherlands)

    Tyler-Street, M.; Leerdam, P.J.C.

    2012-01-01

    A user defined mine blast model has been developed and implemented into the explicit finite element code LS-DYNA to provide a numerically efficient method for simulating an antivehicular mine blast. The objective is to provide a simple and robust numerical method which is able to represent both the

  20. A review of three cases of mobile blast: The new culprit of hand injury

    Directory of Open Access Journals (Sweden)

    Nikunj B Mody

    2016-01-01

    Full Text Available Although blast injuries are common with war; cooking gas; firecracker, mobile phone blast cases are increasing in number in last couple of years. We present 3 cases of mobile blast in 3 children causing injury to dominant hand in them.

  1. Prokaryotic Phylogenies Inferred from Whole-Genome Sequence and Annotation Data

    Directory of Open Access Journals (Sweden)

    Wei Du

    2013-01-01

    Full Text Available Phylogenetic trees are used to represent the evolutionary relationship among various groups of species. In this paper, a novel method for inferring prokaryotic phylogenies using multiple genomic information is proposed. The method is called CGCPhy and based on the distance matrix of orthologous gene clusters between whole-genome pairs. CGCPhy comprises four main steps. First, orthologous genes are determined by sequence similarity, genomic function, and genomic structure information. Second, genes involving potential HGT events are eliminated, since such genes are considered to be the highly conserved genes across different species and the genes located on fragments with abnormal genome barcode. Third, we calculate the distance of the orthologous gene clusters between each genome pair in terms of the number of orthologous genes in conserved clusters. Finally, the neighbor-joining method is employed to construct phylogenetic trees across different species. CGCPhy has been examined on different datasets from 617 complete single-chromosome prokaryotic genomes and achieved applicative accuracies on different species sets in agreement with Bergey's taxonomy in quartet topologies. Simulation results show that CGCPhy achieves high average accuracy and has a low standard deviation on different datasets, so it has an applicative potential for phylogenetic analysis.

  2. The Vigna Genome Server, 'VigGS': A Genomic Knowledge Base of the Genus Vigna Based on High-Quality, Annotated Genome Sequence of the Azuki Bean, Vigna angularis (Willd.) Ohwi & Ohashi.

    Science.gov (United States)

    Sakai, Hiroaki; Naito, Ken; Takahashi, Yu; Sato, Toshiyuki; Yamamoto, Toshiya; Muto, Isamu; Itoh, Takeshi; Tomooka, Norihiko

    2016-01-01

    The genus Vigna includes legume crops such as cowpea, mungbean and azuki bean, as well as >100 wild species. A number of the wild species are highly tolerant to severe environmental conditions including high-salinity, acid or alkaline soil; drought; flooding; and pests and diseases. These features of the genus Vigna make it a good target for investigation of genetic diversity in adaptation to stressful environments; however, a lack of genomic information has hindered such research in this genus. Here, we present a genome database of the genus Vigna, Vigna Genome Server ('VigGS', http://viggs.dna.affrc.go.jp), based on the recently sequenced azuki bean genome, which incorporates annotated exon-intron structures, along with evidence for transcripts and proteins, visualized in GBrowse. VigGS also facilitates user construction of multiple alignments between azuki bean genes and those of six related dicot species. In addition, the database displays sequence polymorphisms between azuki bean and its wild relatives and enables users to design primer sequences targeting any variant site. VigGS offers a simple keyword search in addition to sequence similarity searches using BLAST and BLAT. To incorporate up to date genomic information, VigGS automatically receives newly deposited mRNA sequences of pre-set species from the public database once a week. Users can refer to not only gene structures mapped on the azuki bean genome on GBrowse but also relevant literature of the genes. VigGS will contribute to genomic research into plant biotic and abiotic stresses and to the future development of new stress-tolerant crops. © The Author 2015. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists. All rights reserved. For permissions, please email: journals.permissions@oup.com.

  3. Experimental Study of Bilinear Initiating System Based on Hard Rock Pile Blasting

    Directory of Open Access Journals (Sweden)

    Yusong Miao

    2017-01-01

    Full Text Available It is difficult to use industrial explosives to excavate hard rock and achieve suitable blasting effect due to the low energy utilization rate resulting in large rocks and short blasting footage. Thus, improving the utilization ratio of the explosive energy is important. In this study, a novel bilinear initiation system based on hard rock blasting was proposed to improve the blasting effects. Furthermore, on the basis of the detonation wave collision theory, frontal collision, oblique reflection, and Mach reflection during detonation wave propagation were studied. The results show that the maximum detonation pressure at the Mach reflection point where the incident angle is 46.9° is three times larger than the value of the explosive complete detonation. Then, in order to analyze the crack propagation in different initiation forms, a rock fracture test slot was designed, and the results show that bilinear initiating system can change the energy distribution of explosives. Finally, field experiment was implemented at the hard rock pile blasting engineering, and experimental results show that the present system possesses high explosive energy utilization ratio and low rock fragments size. The results of this study can be used to improve the efficiency in hard rock blasting.

  4. Injection of heavy fuel oil into the blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Paloposki, T. [Helsinki Univ. of Technology, Otaniemi (Finland); Hakala, J.; Mannila, P.; Laukkanen, J. [Oulu Univ. (Finland)

    1996-12-31

    This study deals with the injection and combustion of heavy fuel oil in blast furnaces. The injection of the oil was studied experimentally in a small-scale test rig. The combustion of the oil was analysed with a commercial computer program for flow and combustion simulations. Results from computer simulations show that the combustion of the oil can be improved by decreasing the size of the oil drops and by enhancing the mixing between the oil drops and the hot blast. The devolatilization rate of the oil mainly depends on the size of the oil drops. The combustion rate of the volatiles mainly depends on the effectiveness of turbulent mixing with combustion air. Methods to decrease the size of the oil drops were sought in the experimental part of the study. Experimental results show that the size of the oil drops increases with increasing mass flow rate of the oil and decreases with increasing velocity of the hot blast. Methods to improve the mixing between the oil drops and the hot blast are suggested but have not yet been experimentally tested. (author) (4 refs.)

  5. Injection of heavy fuel oil into the blast furnace

    Energy Technology Data Exchange (ETDEWEB)

    Paloposki, T [Helsinki Univ. of Technology, Otaniemi (Finland); Hakala, J; Mannila, P; Laukkanen, J [Oulu Univ. (Finland)

    1997-12-31

    This study deals with the injection and combustion of heavy fuel oil in blast furnaces. The injection of the oil was studied experimentally in a small-scale test rig. The combustion of the oil was analysed with a commercial computer program for flow and combustion simulations. Results from computer simulations show that the combustion of the oil can be improved by decreasing the size of the oil drops and by enhancing the mixing between the oil drops and the hot blast. The devolatilization rate of the oil mainly depends on the size of the oil drops. The combustion rate of the volatiles mainly depends on the effectiveness of turbulent mixing with combustion air. Methods to decrease the size of the oil drops were sought in the experimental part of the study. Experimental results show that the size of the oil drops increases with increasing mass flow rate of the oil and decreases with increasing velocity of the hot blast. Methods to improve the mixing between the oil drops and the hot blast are suggested but have not yet been experimentally tested. (author) (4 refs.)

  6. An ultra-fast fiber optic pressure sensor for blast event measurements

    International Nuclear Information System (INIS)

    Wu, Nan; Tian, Ye; Wang, Xingwei; Zou, Xiaotian; Fitek, John; Maffeo, Michael; Niezrecki, Christopher; Chen, Julie

    2012-01-01

    Soldiers who are exposed to explosions are at risk of suffering traumatic brain injury (TBI). Since the causal relationship between a blast and TBI is poorly understood, it is critical to have sensors that can accurately quantify the blast dynamics and resulting wave propagation through a helmet and skull that are imparted onto and inside the brain. To help quantify the cause of TBI, it is important to record transient pressure data during a blast event. However, very few sensors feature the capabilities of tracking the dynamic pressure transients due to the rapid change of the pressure during blast events, while not interfering with the physical material layers or wave propagation. In order to measure the pressure transients efficiently, a pressure sensor should have a high resonant frequency and a high spatial resolution. This paper describes an ultra-fast fiber optic pressure sensor based on the Fabry–Perot principle for the application of measuring the rapid pressure changes in a blast event. A shock tube experiment performed in US Army Natick Soldier Research, Development and Engineering Center has demonstrated that the resonant frequency of the sensor is 4.12 MHz, which is relatively close to the designed theoretical value of 4.113 MHz. Moreover, the experiment illustrated that the sensor has a rise time of 120 ns, which demonstrates that the sensor is capable of observing the dynamics of the pressure transient during a blast event. (paper)

  7. EFFECTS OF BLAST-FURNACE SLAG ON NATURAL POZZOLAN-BASED GEOPOLYMER CEMENT

    Directory of Open Access Journals (Sweden)

    MAHSHAD YAZDANIPOUR

    2011-03-01

    Full Text Available A number of geopolymer cement mixes were designed and produced by alkali-activation of a pumice-type natural pozzolan. Effects of blast-furnace slag on basic engineering properties of the mixes were studied. Different engineering properties of the mixes such as setting times and 28-day compressive strength were studied at different amounts of blast-furnace slag, sodium oxide content, and water-to-cement ratio. The mix comprising of 5 wt.% blast-furnace slag and 8 wt.% Na2O with a water-to-dry binder ratio of 0.30 exhibits the highest 28-day compressive strength, i.e. 36 MPa. Mixes containing 5 wt.% of ground granulated blast furnace slag showed the least efflorescence or best soundness. Laboratory techniques of X-ray diffractometry (XRD, fourier transform infrared spectroscopy (FTIR, and scanning electron microscopy (SEM were utilized for characterizing a number of mixes and studying their molecular and micro-structure. Investigations done by scanning electron microscopy confirm that smaller blast-furnace slag particles react totally while the larger ones react partially with alkaline activators and contribute to the formation of a composite microstructure.

  8. Bomb blast, mild traumatic brain injury and psychiatric morbidity: a review.

    Science.gov (United States)

    Rosenfeld, Jeffrey V; Ford, Nick L

    2010-05-01

    Traumatic brain injury (TBI) arising from blast exposure during war is common, and frequently complicated by psychiatric morbidity. There is controversy as to whether mild TBI from blast is different from other causes of mild TBI. Anxiety and affective disorders such as Post-traumatic Stress Disorder (PTSD) and depression are common accompaniments of blast injury with a significant overlap in the diagnostic features of PTSD with post-concussive syndrome (PCS). This review focuses on this overlap and the effects of mild TBI due to bomb blast. Mild TBI may have been over diagnosed by late retrospective review of returned servicemen and women using imprecise criteria. There is therefore a requirement for clear and careful documentation by health professionals of a TBI due to bomb blast shortly after the event so that the diagnosis of TBI can be made with confidence. There is a need for the early recognition of symptoms of PCS, PTSD and depression and early multi-disciplinary interventions focussed on expected return to duties. There also needs to be a continued emphasis on the de-stigmatization of psychological conditions in military personnel returning from deployment. (c) 2009 Elsevier Ltd. All rights reserved.

  9. Mathematical models of blast induced TBI: current status, challenges and prospects

    Directory of Open Access Journals (Sweden)

    Raj K Gupta

    2013-05-01

    Full Text Available Blast induced traumatic brain injury (TBI has become a signature wound of recent military activities and is the leading cause of death and long-term disability among U.S. soldiers. The current limited understanding of brain injury mechanisms impedes the development of protection, diagnostic and treatment strategies. We believe mathematical models of blast wave brain injury biomechanics and neurobiology, complemented with in vitro and in vivo experimental studies, will enable a better understanding of injury mechanisms and accelerate the development of both protective and treatment strategies. The goal of this paper is to review the current state of the art in mathematical and computational modeling of blast induced TBI, identify research gaps and recommend future developments. A brief overview of blast wave physics, injury biomechanics and the neurobiology of brain injury is used as a foundation for a more detailed discussion of multiscale mathematical models of primary biomechanics and secondary injury and repair mechanisms. The paper also presents a discussion of model development strategies, experimental approaches to generate benchmark data for model validation and potential applications of the model for prevention and protection against blast wave TBI.

  10. Seismic-safe conditions of blasting near pressure pipe-lines during power installation construction

    International Nuclear Information System (INIS)

    Smolij, N.I.; Nikitin, A.S.

    1980-01-01

    Seismic-safe conditions for performing drill-blasting operations in the vicinity of underground gas pipelines when constructing thermal- or nuclear power plants are discussed. It is shown that, for the determination of seismic-safe parameters, of drill-blasting operations, the maximum permissible level of seismic loads should be specified taking into account the mechanical properties of the pipeline.metal, structural parameters of the gas pipeline and the pressure of the medium transported. Besides, the seismic effect of the blast should be considered with regard to particular conditions of blasting and rock properties. The equations and diagrams used in the calculation are given

  11. Effect of Image Linearization on Normalized Compression Distance

    Science.gov (United States)

    Mortensen, Jonathan; Wu, Jia Jie; Furst, Jacob; Rogers, John; Raicu, Daniela

    Normalized Information Distance, based on Kolmogorov complexity, is an emerging metric for image similarity. It is approximated by the Normalized Compression Distance (NCD) which generates the relative distance between two strings by using standard compression algorithms to compare linear strings of information. This relative distance quantifies the degree of similarity between the two objects. NCD has been shown to measure similarity effectively on information which is already a string: genomic string comparisons have created accurate phylogeny trees and NCD has also been used to classify music. Currently, to find a similarity measure using NCD for images, the images must first be linearized into a string, and then compared. To understand how linearization of a 2D image affects the similarity measure, we perform four types of linearization on a subset of the Corel image database and compare each for a variety of image transformations. Our experiment shows that different linearization techniques produce statistically significant differences in NCD for identical spatial transformations.

  12. Manual for the prediction of blast and fragment loadings on structures

    Energy Technology Data Exchange (ETDEWEB)

    1980-11-01

    The purpose of this manual is to provide Architect-Engineer (AE) firms guidance for the prediction of air blast, ground shock and fragment loadings on structures as a result of accidental explosions in or near these structures. Information in this manual is the result of an extensive literature survey and data gathering effort, supplemented by some original analytical studies on various aspects of blast phenomena. Many prediction equations and graphs are presented, accompanied by numerous example problems illustrating their use. The manual is complementary to existing structural design manuals and is intended to reflect the current state-of-the-art in prediction of blast and fragment loads for accidental explosions of high explosives at the Pantex Plant. In some instances, particularly for explosions within blast-resistant structures of complex geometry, rational estimation of these loads is beyond the current state-of-the-art.

  13. Gene Ontology annotation of the rice blast fungus, Magnaporthe oryzae

    Directory of Open Access Journals (Sweden)

    Deng Jixin

    2009-02-01

    Full Text Available Abstract Background Magnaporthe oryzae, the causal agent of blast disease of rice, is the most destructive disease of rice worldwide. The genome of this fungal pathogen has been sequenced and an automated annotation has recently been updated to Version 6 http://www.broad.mit.edu/annotation/genome/magnaporthe_grisea/MultiDownloads.html. However, a comprehensive manual curation remains to be performed. Gene Ontology (GO annotation is a valuable means of assigning functional information using standardized vocabulary. We report an overview of the GO annotation for Version 5 of M. oryzae genome assembly. Methods A similarity-based (i.e., computational GO annotation with manual review was conducted, which was then integrated with a literature-based GO annotation with computational assistance. For similarity-based GO annotation a stringent reciprocal best hits method was used to identify similarity between predicted proteins of M. oryzae and GO proteins from multiple organisms with published associations to GO terms. Significant alignment pairs were manually reviewed. Functional assignments were further cross-validated with manually reviewed data, conserved domains, or data determined by wet lab experiments. Additionally, biological appropriateness of the functional assignments was manually checked. Results In total, 6,286 proteins received GO term assignment via the homology-based annotation, including 2,870 hypothetical proteins. Literature-based experimental evidence, such as microarray, MPSS, T-DNA insertion mutation, or gene knockout mutation, resulted in 2,810 proteins being annotated with GO terms. Of these, 1,673 proteins were annotated with new terms developed for Plant-Associated Microbe Gene Ontology (PAMGO. In addition, 67 experiment-determined secreted proteins were annotated with PAMGO terms. Integration of the two data sets resulted in 7,412 proteins (57% being annotated with 1,957 distinct and specific GO terms. Unannotated proteins

  14. HpBase: A genome database of a sea urchin, Hemicentrotus pulcherrimus.

    Science.gov (United States)

    Kinjo, Sonoko; Kiyomoto, Masato; Yamamoto, Takashi; Ikeo, Kazuho; Yaguchi, Shunsuke

    2018-04-01

    To understand the mystery of life, it is important to accumulate genomic information for various organisms because the whole genome encodes the commands for all the genes. Since the genome of Strongylocentrotus purpratus was sequenced in 2006 as the first sequenced genome in echinoderms, the genomic resources of other North American sea urchins have gradually been accumulated, but no sea urchin genomes are available in other areas, where many scientists have used the local species and reported important results. In this manuscript, we report a draft genome of the sea urchin Hemincentrotus pulcherrimus because this species has a long history as the target of developmental and cell biology in East Asia. The genome of H. pulcherrimus was assembled into 16,251 scaffold sequences with an N50 length of 143 kbp, and approximately 25,000 genes were identified in the genome. The size of the genome and the sequencing coverage were estimated to be approximately 800 Mbp and 100×, respectively. To provide these data and information of annotation, we constructed a database, HpBase (http://cell-innovation.nig.ac.jp/Hpul/). In HpBase, gene searches, genome browsing, and blast searches are available. In addition, HpBase includes the "recipes" for experiments from each lab using H. pulcherrimus. These recipes will continue to be updated according to the circumstances of individual scientists and can be powerful tools for experimental biologists and for the community. HpBase is a suitable dataset for evolutionary, developmental, and cell biologists to compare H. pulcherrimus genomic information with that of other species and to isolate gene information. © 2018 Japanese Society of Developmental Biologists.

  15. BRAD, the genetics and genomics database for Brassica plants

    Directory of Open Access Journals (Sweden)

    Li Pingxia

    2011-10-01

    Full Text Available Abstract Background Brassica species include both vegetable and oilseed crops, which are very important to the daily life of common human beings. Meanwhile, the Brassica species represent an excellent system for studying numerous aspects of plant biology, specifically for the analysis of genome evolution following polyploidy, so it is also very important for scientific research. Now, the genome of Brassica rapa has already been assembled, it is the time to do deep mining of the genome data. Description BRAD, the Brassica database, is a web-based resource focusing on genome scale genetic and genomic data for important Brassica crops. BRAD was built based on the first whole genome sequence and on further data analysis of the Brassica A genome species, Brassica rapa (Chiifu-401-42. It provides datasets, such as the complete genome sequence of B. rapa, which was de novo assembled from Illumina GA II short reads and from BAC clone sequences, predicted genes and associated annotations, non coding RNAs, transposable elements (TE, B. rapa genes' orthologous to those in A. thaliana, as well as genetic markers and linkage maps. BRAD offers useful searching and data mining tools, including search across annotation datasets, search for syntenic or non-syntenic orthologs, and to search the flanking regions of a certain target, as well as the tools of BLAST and Gbrowse. BRAD allows users to enter almost any kind of information, such as a B. rapa or A. thaliana gene ID, physical position or genetic marker. Conclusion BRAD, a new database which focuses on the genetics and genomics of the Brassica plants has been developed, it aims at helping scientists and breeders to fully and efficiently use the information of genome data of Brassica plants. BRAD will be continuously updated and can be accessed through http://brassicadb.org.

  16. BLAST and FASTA similarity searching for multiple sequence alignment.

    Science.gov (United States)

    Pearson, William R

    2014-01-01

    BLAST, FASTA, and other similarity searching programs seek to identify homologous proteins and DNA sequences based on excess sequence similarity. If two sequences share much more similarity than expected by chance, the simplest explanation for the excess similarity is common ancestry-homology. The most effective similarity searches compare protein sequences, rather than DNA sequences, for sequences that encode proteins, and use expectation values, rather than percent identity, to infer homology. The BLAST and FASTA packages of sequence comparison programs provide programs for comparing protein and DNA sequences to protein databases (the most sensitive searches). Protein and translated-DNA comparisons to protein databases routinely allow evolutionary look back times from 1 to 2 billion years; DNA:DNA searches are 5-10-fold less sensitive. BLAST and FASTA can be run on popular web sites, but can also be downloaded and installed on local computers. With local installation, target databases can be customized for the sequence data being characterized. With today's very large protein databases, search sensitivity can also be improved by searching smaller comprehensive databases, for example, a complete protein set from an evolutionarily neighboring model organism. By default, BLAST and FASTA use scoring strategies target for distant evolutionary relationships; for comparisons involving short domains or queries, or searches that seek relatively close homologs (e.g. mouse-human), shallower scoring matrices will be more effective. Both BLAST and FASTA provide very accurate statistical estimates, which can be used to reliably identify protein sequences that diverged more than 2 billion years ago.

  17. Merlin: Computer-Aided Oligonucleotide Design for Large Scale Genome Engineering with MAGE.

    Science.gov (United States)

    Quintin, Michael; Ma, Natalie J; Ahmed, Samir; Bhatia, Swapnil; Lewis, Aaron; Isaacs, Farren J; Densmore, Douglas

    2016-06-17

    Genome engineering technologies now enable precise manipulation of organism genotype, but can be limited in scalability by their design requirements. Here we describe Merlin ( http://merlincad.org ), an open-source web-based tool to assist biologists in designing experiments using multiplex automated genome engineering (MAGE). Merlin provides methods to generate pools of single-stranded DNA oligonucleotides (oligos) for MAGE experiments by performing free energy calculation and BLAST scoring on a sliding window spanning the targeted site. These oligos are designed not only to improve recombination efficiency, but also to minimize off-target interactions. The application further assists experiment planning by reporting predicted allelic replacement rates after multiple MAGE cycles, and enables rapid result validation by generating primer sequences for multiplexed allele-specific colony PCR. Here we describe the Merlin oligo and primer design procedures and validate their functionality compared to OptMAGE by eliminating seven AvrII restriction sites from the Escherichia coli genome.

  18. The effects of sampling on the efficiency and accuracy of k-mer indexes: Theoretical and empirical comparisons using the human genome.

    Science.gov (United States)

    Almutairy, Meznah; Torng, Eric

    2017-01-01

    One of the most common ways to search a sequence database for sequences that are similar to a query sequence is to use a k-mer index such as BLAST. A big problem with k-mer indexes is the space required to store the lists of all occurrences of all k-mers in the database. One method for reducing the space needed, and also query time, is sampling where only some k-mer occurrences are stored. Most previous work uses hard sampling, in which enough k-mer occurrences are retained so that all similar sequences are guaranteed to be found. In contrast, we study soft sampling, which further reduces the number of stored k-mer occurrences at a cost of decreasing query accuracy. We focus on finding highly similar local alignments (HSLA) over nucleotide sequences, an operation that is fundamental to biological applications such as cDNA sequence mapping. For our comparison, we use the NCBI BLAST tool with the human genome and human ESTs. When identifying HSLAs, we find that soft sampling significantly reduces both index size and query time with relatively small losses in query accuracy. For the human genome and HSLAs of length at least 100 bp, soft sampling reduces index size 4-10 times more than hard sampling and processes queries 2.3-6.8 times faster, while still achieving retention rates of at least 96.6%. When we apply soft sampling to the problem of mapping ESTs against the genome, we map more than 98% of ESTs perfectly while reducing the index size by a factor of 4 and query time by 23.3%. These results demonstrate that soft sampling is a simple but effective strategy for performing efficient searches for HSLAs. We also provide a new model for sampling with BLAST that predicts empirical retention rates with reasonable accuracy by modeling two key problem factors.

  19. Basic Local Alignment Search Tool (BLAST)

    Data.gov (United States)

    U.S. Department of Health & Human Services — BLAST finds regions of similarity between biological sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the...

  20. TECHNOLOGY OF REVERSE-BLAST CORROSION CLEANING OF STEEL SHEETS PRIOR TO LASER CUTTING

    Directory of Open Access Journals (Sweden)

    A. N. Zguk

    2017-01-01

    Full Text Available Quality of surface cleaning against corrosion influences on efficiency in realization of a number of technological processes. While using bentonite clays in power fluid reverse-blast cleaning ensures formation of anticorrosion protective coating with light absorbing properties on the cleaned surface and prevents formation of the repeated corrosion. The paper presents results of the investigations pertaining to influence of reverse-blast cleaning parameters of steel sheets on quality of the cleaned surface prior to laser cutting. Processing conditions, applied compositions of power fluid and also properties of the protective film coatings on the cleaned surface have been given in the paper. The paper considers topography, morphology and chemical composition of the given coating while applying complex metal micrographic, X-ray diffraction and electronic and microscopic investigations. A complex of laser cutting (refer to gas lasers with output continuous capacity of 2.5/4.0 kW has been applied for experimental works to evaluate influence of the formed surface quality on efficiency of laser cutting process. Specimens having dimension 120×120 mm, made of steel Ст3пс, with thickness from 3 to 10 mm have been prepared for the experiments. An analysis has shown that the application of reverse-blast cleaning ensures higher speed in laser cutting by a mean of 10–20 %. The investigations have made it possible to determine optimum cleaning modes: distance from a nozzle to the surface to be cleaned, jet velocity, pressure. It has been revealed that after drying of the specimens processed by power fluid based on water with concentrations of bentonite clay and calcined soda a protective film coating with thickness of some 5–7 µm has been formed on the whole cleaned specimen surfaces. Chemical base of the coating has been formed by the elements which are included in the composition of bentonite clay being the basic component of the power fluid. 

  1. Orientation, distance, regulation and function of neighbouring genes

    Directory of Open Access Journals (Sweden)

    Gherman Adrian

    2009-01-01

    Full Text Available Abstract The sequencing of the human genome has allowed us to observe globally and in detail the arrangement of genes along the chromosomes. There are multiple lines of evidence that this arrangement is not random, both in terms of intergenic distances and orientation of neighbouring genes. We have undertaken a systematic evaluation of the spatial distribution and orientation of known genes across the human genome. We used genome-level information, including phylogenetic conservation, single nucleotide polymorphism density and correlation of gene expression to assess the importance of this distribution. In addition to confirming and extending known properties of the genome, such as the significance of gene deserts and the importance of 'head to head' orientation of gene pairs in proximity, we provide significant new observations that include a smaller average size for intervals separating the 3' ends of neighbouring genes, a correlation of gene expression across tissues for genes as far as 100 kilobases apart and signatures of increasing positive selection with decreasing interval size surprisingly relaxing for intervals smaller than ~500 base pairs. Further, we provide extensive graphical representations of the genome-wide data to allow for observations and comparisons beyond what we address.

  2. Centrifugal shot blast system

    International Nuclear Information System (INIS)

    1998-02-01

    This report describes a demonstration of Concrete cleaning, Inc., modified centrifugal shot blast technology to remove the paint coating from concrete flooring. This demonstration is part of the Chicago Pile-5 (CP-5) Large-Scale Demonstration Project (LSDP) sponsored by the US Department of Energy (DOE), office of Science and Technology (OST), Deactivation and Decommissioning Focus Area (DDFA). The objective of the LSDP is to select and demonstrate potentially beneficial technologies at the Argonne National Laboratory-East (ANL) CP-5 Research Reactor. The purpose of the LSDP is to demonstrate that using innovative and improved decontamination and decommissioning (D and D) technologies from various sources can result in significant benefits, such as decreased cost and increased health and safety, as compared with baseline D and D technologies. Potential markets exist for the innovative centrifugal shot blast system at the following sites: Fernald Environmental Management Project, Los Alamos, Nevada, Oak Ridge Y-12 and K-25, Paducah, Portsmouth Gaseous Diffusion site, and the Savannah River Site. This information is based on a revision to the OST Linkage Tables dated August 4, 1997

  3. Genomic diversity and introgression in O. sativa reveal the impact of domestication and breeding on the rice genome.

    Directory of Open Access Journals (Sweden)

    Keyan Zhao

    2010-05-01

    Full Text Available The domestication of Asian rice (Oryza sativa was a complex process punctuated by episodes of introgressive hybridization among and between subpopulations. Deep genetic divergence between the two main varietal groups (Indica and Japonica suggests domestication from at least two distinct wild populations. However, genetic uniformity surrounding key domestication genes across divergent subpopulations suggests cultural exchange of genetic material among ancient farmers.In this study, we utilize a novel 1,536 SNP panel genotyped across 395 diverse accessions of O. sativa to study genome-wide patterns of polymorphism, to characterize population structure, and to infer the introgression history of domesticated Asian rice. Our population structure analyses support the existence of five major subpopulations (indica, aus, tropical japonica, temperate japonica and GroupV consistent with previous analyses. Our introgression analysis shows that most accessions exhibit some degree of admixture, with many individuals within a population sharing the same introgressed segment due to artificial selection. Admixture mapping and association analysis of amylose content and grain length illustrate the potential for dissecting the genetic basis of complex traits in domesticated plant populations.Genes in these regions control a myriad of traits including plant stature, blast resistance, and amylose content. These analyses highlight the power of population genomics in agricultural systems to identify functionally important regions of the genome and to decipher the role of human-directed breeding in refashioning the genomes of a domesticated species.

  4. Dynamics and stability of relativistic gamma-ray-bursts blast waves

    Science.gov (United States)

    Meliani, Z.; Keppens, R.

    2010-09-01

    Aims: In gamma-ray-bursts (GRBs), ultra-relativistic blast waves are ejected into the circumburst medium. We analyse in unprecedented detail the deceleration of a self-similar Blandford-McKee blast wave from a Lorentz factor 25 to the nonrelativistic Sedov phase. Our goal is to determine the stability properties of its frontal shock. Methods: We carried out a grid-adaptive relativistic 2D hydro-simulation at extreme resolving power, following the GRB jet during the entire afterglow phase. We investigate the effect of the finite initial jet opening angle on the deceleration of the blast wave, and identify the growth of various instabilities throughout the coasting shock front. Results: We find that during the relativistic phase, the blast wave is subject to pressure-ram pressure instabilities that ripple and fragment the frontal shock. These instabilities manifest themselves in the ultra-relativistic phase alone, remain in full agreement with causality arguments, and decay slowly to finally disappear in the near-Newtonian phase as the shell Lorentz factor drops below 3. From then on, the compression rate decreases to levels predicted to be stable by a linear analysis of the Sedov phase. Our simulations confirm previous findings that the shell also spreads laterally because a rarefaction wave slowly propagates to the jet axis, inducing a clear shell deformation from its initial spherical shape. The blast front becomes meridionally stratified, with decreasing speed from axis to jet edge. In the wings of the jetted flow, Kelvin-Helmholtz instabilities occur, which are of negligible importance from the energetic viewpoint. Conclusions: Relativistic blast waves are subject to hydrodynamical instabilities that can significantly affect their deceleration properties. Future work will quantify their effect on the afterglow light curves.

  5. Neuronal DNA Methylation Profiling of Blast-Related Traumatic Brain Injury.

    Science.gov (United States)

    Haghighi, Fatemeh; Ge, Yongchao; Chen, Sean; Xin, Yurong; Umali, Michelle U; De Gasperi, Rita; Gama Sosa, Miguel A; Ahlers, Stephen T; Elder, Gregory A

    2015-08-15

    Long-term molecular changes in the brain resulting from blast exposure may be mediated by epigenetic changes, such as deoxyribonucleic acid (DNA) methylation, that regulate gene expression. Aberrant regulation of gene expression is associated with behavioral abnormalities, where DNA methylation bridges environmental signals to sustained changes in gene expression. We assessed DNA methylation changes in the brains of rats exposed to three 74.5 kPa blast overpressure events, conditions that have been associated with long-term anxiogenic manifestations weeks or months following the initial exposures. Rat frontal cortex eight months post-exposure was used for cell sorting of whole brain tissue into neurons and glia. We interrogated DNA methylation profiles in these cells using Expanded Reduced Representation Bisulfite Sequencing. We obtained data for millions of cytosines, showing distinct methylation profiles for neurons and glia and an increase in global methylation in neuronal versus glial cells (pDNA methylation perturbations in blast overpressure-exposed animals, compared with sham blast controls, within 458 and 379 genes in neurons and glia, respectively. Differentially methylated neuronal genes showed enrichment in cell death and survival and nervous system development and function, including genes involved in transforming growth factor β and nitric oxide signaling. Functional validation via gene expression analysis of 30 differentially methylated neuronal and glial genes showed a 1.2 fold change in gene expression of the serotonin N-acetyltransferase gene (Aanat) in blast animals (pDNA methylation induced in response to multiple blast overpressure exposures. In particular, increased methylation and decreased gene expression were observed in the Aanat gene, which is involved in converting serotonin to the circadian hormone melatonin and is implicated in sleep disturbance and depression associated with traumatic brain injury.

  6. A review of blasting activity in the former Soviet Union

    Energy Technology Data Exchange (ETDEWEB)

    Leith, W. [Geological Survey, Reston, VA (United States); Bruk, L. [BRUK Hydrogeologcal Consulting, Inc., Rockville, MD (United States)

    1994-12-31

    Monitoring a comprehensive nuclear test ban by seismic means will require identification of seismic sources at lower magnitudes, where industrial explosions (primarily mining blasts) may comprise a significant fraction of the total number of events recorded and may, for some countries, dominate the seismicity. The USGS has recently obtained preliminary data on blasting activities in the former Soviet Union (FSU), one of the few countries in which the use of explosives exceeded that of the United States. A review of the Soviet data suggests that there are both similarities and differences in blasting practices between the U.S. and the FSU. These data are important because they provide some insight into variations form U.S. practice and because they can be used directly to estimate the assets needed to effectively monitor that country. Key findings include: (1) in 1988, approximately 2.6 million metric tons of high explosives were detonated in the FSu; this compares with 2.1 million metric tons in the U.S. in the same year; (2) about 80% of the explosives were used in mining, 10% in construction and 10% for other uses; (3) 84% of the explosives were consumed by only six Ministries of the FSU, and 66% were consumed in the three main mining industries: MinCherMet, MinTsvetMet and MinUgleProm; (4) in 1988 alone, the FSU conducted over 100 explosions in excess of 1 kt total charge (compare with one blast over 1 kt in the U.S. in 1987), and none of these were in the coal mining industry; (5) most very large blasts occurred on the surface, and in only a small number of mines; most underground blasts were less than 100 tons.

  7. Comparative analysis of catfish BAC end sequences with the zebrafish genome

    Directory of Open Access Journals (Sweden)

    Abernathy Jason

    2009-12-01

    Full Text Available Abstract Background Comparative mapping is a powerful tool to transfer genomic information from sequenced genomes to closely related species for which whole genome sequence data are not yet available. However, such an approach is still very limited in catfish, the most important aquaculture species in the United States. This project was initiated to generate additional BAC end sequences and demonstrate their applications in comparative mapping in catfish. Results We reported the generation of 43,000 BAC end sequences and their applications for comparative genome analysis in catfish. Using these and the additional 20,000 existing BAC end sequences as a resource along with linkage mapping and existing physical map, conserved syntenic regions were identified between the catfish and zebrafish genomes. A total of 10,943 catfish BAC end sequences (17.3% had significant BLAST hits to the zebrafish genome (cutoff value ≤ e-5, of which 3,221 were unique gene hits, providing a platform for comparative mapping based on locations of these genes in catfish and zebrafish. Genetic linkage mapping of microsatellites associated with contigs allowed identification of large conserved genomic segments and construction of super scaffolds. Conclusion BAC end sequences and their associated polymorphic markers are great resources for comparative genome analysis in catfish. Highly conserved chromosomal regions were identified to exist between catfish and zebrafish. However, it appears that the level of conservation at local genomic regions are high while a high level of chromosomal shuffling and rearrangements exist between catfish and zebrafish genomes. Orthologous regions established through comparative analysis should facilitate both structural and functional genome analysis in catfish.

  8. Experimental studies on intake headloss of a blasted lake tap

    International Nuclear Information System (INIS)

    Yang, James; Billstein, Mats; Engström, Fredrik; Strand, Rikard

    2014-01-01

    In existing reservoirs, construction of an intake is sometimes achieved by so-called lake tapping, a submerged tunnel piercing by blasting out the rock plug at the intake. The blasting process involves phases of rock, water, air and gas released from the explosive charge; the resulting entrance profile often differs from design assumptions. The intake headloss is a factor of concern for power generation. For a vertical intake formed by lake tapping, experiments have been carried out in a 1:30 physical model to examine the effect of entrance shapes on intake headlosses. The purpose is that, if there is potential to reduce the headlosses, the originally blasted intake shape would be modified. In the model, five alternative shapes are evaluated. The test results show that to enlarge the vertical shaft area is the most effective way to reduce the intake headloss; to further blast out a narrow channel upstream does not give much effect. Bearing in mind the risk of free-surface vortex at the intake, the influence of the intake modifications on vortex is also checked

  9. Remote operated vehicle with carbon dioxide blasting (ROVCO2)

    International Nuclear Information System (INIS)

    Resnick, A.M.

    1995-01-01

    The Remote Operated Vehicle with Carbon Dioxide Blasting (ROVCO 2 ), as shown in a front view, is a six-wheeled remote land vehicle used to decontaminate concrete floors. The remote vehicle has a high pressure Cryogenesis blasting subsystem, Oceaneering Technologies (OTECH) developed a CO 2 xY Orthogonal Translational End Effector (COYOTEE) subsystem, and a vacuum/filtration and containment subsystem. Figure 2 shows a block diagram with the various subsystems labeled

  10. INCREASED RELIABILITY OF ELECTRIC BLASTING

    OpenAIRE

    Kashuba, Oleh Ivanovych; Skliarov, L I; Skliarov, A L

    2017-01-01

    The problems of improving reliability of an electric blasting method using electric detonators with nichrome filament bridges. It was revealed that in the calculation of the total resistance of the explosive network it is necessary to increase to 24% of the nominal value

  11. Inferring species trees from incongruent multi-copy gene trees using the Robinson-Foulds distance

    Science.gov (United States)

    2013-01-01

    Background Constructing species trees from multi-copy gene trees remains a challenging problem in phylogenetics. One difficulty is that the underlying genes can be incongruent due to evolutionary processes such as gene duplication and loss, deep coalescence, or lateral gene transfer. Gene tree estimation errors may further exacerbate the difficulties of species tree estimation. Results We present a new approach for inferring species trees from incongruent multi-copy gene trees that is based on a generalization of the Robinson-Foulds (RF) distance measure to multi-labeled trees (mul-trees). We prove that it is NP-hard to compute the RF distance between two mul-trees; however, it is easy to calculate this distance between a mul-tree and a singly-labeled species tree. Motivated by this, we formulate the RF problem for mul-trees (MulRF) as follows: Given a collection of multi-copy gene trees, find a singly-labeled species tree that minimizes the total RF distance from the input mul-trees. We develop and implement a fast SPR-based heuristic algorithm for the NP-hard MulRF problem. We compare the performance of the MulRF method (available at http://genome.cs.iastate.edu/CBL/MulRF/) with several gene tree parsimony approaches using gene tree simulations that incorporate gene tree error, gene duplications and losses, and/or lateral transfer. The MulRF method produces more accurate species trees than gene tree parsimony approaches. We also demonstrate that the MulRF method infers in minutes a credible plant species tree from a collection of nearly 2,000 gene trees. Conclusions Our new phylogenetic inference method, based on a generalized RF distance, makes it possible to quickly estimate species trees from large genomic data sets. Since the MulRF method, unlike gene tree parsimony, is based on a generic tree distance measure, it is appealing for analyses of genomic data sets, in which many processes such as deep coalescence, recombination, gene duplication and losses as

  12. Monte Carlo simulation as a tool to predict blasting fragmentation based on the Kuz Ram model

    Science.gov (United States)

    Morin, Mario A.; Ficarazzo, Francesco

    2006-04-01

    Rock fragmentation is considered the most important aspect of production blasting because of its direct effects on the costs of drilling and blasting and on the economics of the subsequent operations of loading, hauling and crushing. Over the past three decades, significant progress has been made in the development of new technologies for blasting applications. These technologies include increasingly sophisticated computer models for blast design and blast performance prediction. Rock fragmentation depends on many variables such as rock mass properties, site geology, in situ fracturing and blasting parameters and as such has no complete theoretical solution for its prediction. However, empirical models for the estimation of size distribution of rock fragments have been developed. In this study, a blast fragmentation Monte Carlo-based simulator, based on the Kuz-Ram fragmentation model, has been developed to predict the entire fragmentation size distribution, taking into account intact and joints rock properties, the type and properties of explosives and the drilling pattern. Results produced by this simulator were quite favorable when compared with real fragmentation data obtained from a blast quarry. It is anticipated that the use of Monte Carlo simulation will increase our understanding of the effects of rock mass and explosive properties on the rock fragmentation by blasting, as well as increase our confidence in these empirical models. This understanding will translate into improvements in blasting operations, its corresponding costs and the overall economics of open pit mines and rock quarries.

  13. 77 FR 49277 - Takes of Marine Mammals During Specified Activities; Confined Blasting Operations by the U.S...

    Science.gov (United States)

    2012-08-15

    ... effects that confined blasting can have on marine animals near the blast (Keevin et al., 1999). The visual... Atmospheric Administration Takes of Marine Mammals During Specified Activities; Confined Blasting Operations... Marine Mammals During Specified Activities; Confined Blasting Operations by the U.S. Army Corps of...

  14. Blasting technology advances

    Energy Technology Data Exchange (ETDEWEB)

    1990-04-01

    Nitroglycerine explosives are increasingly giving way to emulsions and low cost Anfo compositions, the latter sometimes incorporating emulsion in order to improve water resistance and performance. The aim is to produce an explosive which is extremely efficient, relatively safe and can be tailored to meet user requirements. Discussion is presented of emulsion delivery systems, initiation systems, electronic detonators, computer blast modelling, directional explosives, underground automation, and the development of Soviet explosives. 3 refs., 4 figs.

  15. The effects of repeated low-level blast exposure on hearing in marines

    Directory of Open Access Journals (Sweden)

    Lina R Kubli

    2017-01-01

    Full Text Available Background: The study evaluates a group of Military Service Members specialized in blast explosive training called “Breachers” who are routinely exposed to multiple low-level blasts while teaching breaching at the U.S. Marine Corps in Quantico Virginia. The objective of this study was to determine if there are any acute or long-term auditory changes due to repeated low-level blast exposures used in training. The performance of the instructor group “Breachers” was compared to a control group, “Engineers”. Methods: A total of 11 Breachers and four engineers were evaluated in the study. The participants received comprehensive auditory tests, including pure-tone testing, speech-in-noise (SIN measures, and central auditory behavioral and objective tests using early and late (P300 auditory evoked potentials over a period of 17 months. They also received shorter assessments immediately following the blast-exposure onsite at Quantico. Results: No acute or longitudinal effects were identified. However, there were some interesting baseline effects found in both groups. Contrary to the expected, the onsite hearing thresholds and distortion product otoacoustic emissions were slightly better at a few frequencies immediately after blast-exposure than measurements obtained with the same equipment weeks to months after each blast-exposure. Conclusions: To date, the current study is the most comprehensive study that evaluates the long-term effects of blast-exposure on hearing. Despite extensive testing to assess changes, the findings of this study suggest that the levels of current exposures used in this military training environment do not seem to have an obvious deleterious effect on hearing.

  16. Blast event simulation for a structure subjected to a landmine explosion

    NARCIS (Netherlands)

    Sun, J.; Vlahopoulos, N.; Stabryla, T.J.; Goetz, R.; Velde, R. van de

    2006-01-01

    One of the main threats to military vehicles originates from landmine blasts. In order to improve the survivability of the occupants it is important to design a military vehicle for increased occupant safety. Simulation technology that combines modeling of the blast loads from the landmine

  17. Smoothwall blasting planned for the underground research facility at Yucca Mountain

    International Nuclear Information System (INIS)

    Bullock, R.L.; McKenzie, J.

    1990-01-01

    This paper discusses whether or not the Exploratory Shaft Facility (ESF) at yucca Mountain, Nevada will be completely mechanically excavated, completely developed by drilling and blasting or whether both methods will be utilized on different parts of the ESF. Where drilling and blasting may be used, smoothwall blasting techniques will be used and strict controls will be placed on drill hole placement and alignment, and the correct use of limiting damage explosive, so that minimum amount of fracturing will occur beyond the perimeter of the openings. The authors discuss why this is necessary and how it is achievable

  18. Medium-Scale Traveling Ionospheric Disturbances (MSTIDs) resulting from Chelyabinsk Meteor Blast

    Science.gov (United States)

    Sheeks, B. J.; Warren, N.; Coster, A. J.

    2013-12-01

    A global network of GPS receivers continuously make line-of-sight (LOS) measurements of the total electron content (TEC) of the ionosphere. This TEC measurement data can be analyzed to 'persistently monitor' natural and man-made activity in the atmosphere (such as volcanic eruptions, earthquakes, rocket launches, etc) which propagate into the ionosphere to produce TIDs (Traveling Ionospheric Disturbances). As an example we have analyzed in detail the TIDs resulting from the 15 Feb 2013 Chelyabinsk meteor blast as observed by the Artu GPS receiver site in Arti, Russia close to the event. Seven of the GPS satellite measurements with LOS pierce points within 1000 km of the blast show disturbances. Four of these clearly show VTEC oscillations with ~12 minute periods. The other three show much weaker responses, but their LOS pierce points are far from the blast and their aspects between the geomagnetic field & blast propagation vector are unfavorable (near broadside). By fitting all seven measurements we estimate a propagation speed of ~380 m/s for these medium-scale TIDs. As future 'persistent surveillance' efforts we intend to investigate the observability of man-made activities such as static rocket engine firings in TEC measurements. Analysis of MSTIDs resulting from the Chelyabinsk meteor blast

  19. Acid etching and plasma sterilization fail to improve osseointegration of grit blasted titanium implants

    DEFF Research Database (Denmark)

    Mortensen, Mikkel Saksø; Jakobsen, Stig Storgaard; Saksø, Henrik

    2012-01-01

    Interaction between implant surface and surrounding bone influences implant fixation. We attempted to improve the bone-implant interaction by 1) adding surface micro scale topography by acid etching, and 2) removing surface-adherent pro-inflammatory agents by plasma cleaning. Implant fixation...... was evaluated by implant osseointegration and biomechanical fixation.The study consisted of two paired animal sub-studies where 10 skeletally mature Labrador dogs were used. Grit blasted titanium alloy implants were inserted press fit in each proximal tibia. In the first study grit blasted implants were...... compared with acid etched grit blasted implants. In the second study grit blasted implants were compared with acid etched grit blasted implants that were further treated with plasma sterilization. Implant performance was evaluated by histomorphometrical investigation (tissue-to-implant contact, peri-implant...

  20. Production of blast furnace coke from soft brown coal

    Energy Technology Data Exchange (ETDEWEB)

    Scholz, G.; Wundes, H.; Schkommodau, F.; Zinke, H.-G. (VEB Gaskombinat Schwarze Pumpe (German Democratic Republic))

    1988-01-01

    Reviews experimental production and utilization of high quality brown coal coke in the GDR during 1985 and 1986. The technology of briquetting and coking brown coal dust is described; the superior parameters of produced coke quality are listed in comparison to those of regular industrial coke made from brown and black coal. Dust emission from high quality brown coal coke was suppressed by coke surface treatment with dispersion foam. About 4,200 t of this coke were employed in black coal coke substitution tests in a blast furnace. Substitution rate was 11%, blast furnace operation was positive, a substitution factor of 0.7 t black coal coke per 1 t of brown coal coke was calculated. Technology development of high quality brown coal coke production is regarded as complete; blast furnace coke utilization, however, requires further study. 8 refs.

  1. Genome wide SSR high density genetic map construction from an interspecific cross of Gossypium hirsutum × Gossypium tomentosum

    Directory of Open Access Journals (Sweden)

    Muhammad Kashif Riaz eKhan

    2016-04-01

    Full Text Available A high density genetic map was constructed using F2 population derived from an interspecific cross of G. hirsutum x G. tomentosum. The map consisted of 3,093 marker loci distributed across all the 26 chromosomes and covered 4,365.3 cM of cotton genome with an average inter-marker distance of 1.48 cM. The maximum length of chromosome was 218.38 cM and the minimum was 122.09 cM with an average length of 167.90 cM. A sub-genome covers more genetic distance (2,189.01 cM with an average inter loci distance of 1.53 cM than D sub-genome which covers a length of 2,176.29 cM with an average distance of 1.43 cM. There were 716 distorted loci in the map accounting for 23.14% and most distorted loci were distributed on D sub-genome (25.06%, which were more than on A sub-genome (21.23%. In our map 49 segregation hotspots (SDR were distributed across the genome with more on D sub-genome as compared to A genome. Two post-polyploidization reciprocal translocations of A2/A3 and A4/A5 were suggested by 7 pairs of duplicate loci. The map constructed through these studies is one of the three densest genetic maps in cotton however; this is the first dense genome wide SSR interspecific genetic map between G. hirsutum and G. tomentosum.

  2. Economic and Environmental Impact of Rice Blast Pathogen (Magnaporthe oryzae) Alleviation in the United States.

    Science.gov (United States)

    Nalley, Lawton; Tsiboe, Francis; Durand-Morat, Alvaro; Shew, Aaron; Thoma, Greg

    2016-01-01

    Rice blast (Magnaporthe oryzae) is a key concern in combating global food insecurity given the disease is responsible for approximately 30% of rice production losses globally-the equivalent of feeding 60 million people. These losses increase the global rice price and reduce consumer welfare and food security. Rice is the staple crop for more than half the world's population so any reduction in rice blast would have substantial beneficial effects on consumer livelihoods. In 2012, researchers in the US began analyzing the feasibility of creating blast-resistant rice through cisgenic breeding. Correspondingly, our study evaluates the changes in producer, consumer, and environmental welfare, if all the rice produced in the Mid-South of the US were blast resistant through a process like cisgenics, using both international trade and environmental assessment modeling. Our results show that US rice producers would gain 69.34 million dollars annually and increase the rice supply to feed an additional one million consumers globally by eliminating blast from production in the Mid-South. These results suggest that blast alleviation could be even more significant in increasing global food security given that the US is a small rice producer by global standards and likely experiences lower losses from blast than other rice-producing countries because of its ongoing investment in production technology and management. Furthermore, results from our detailed life cycle assessment (LCA) show that producing blast-resistant rice has lower environmental (fossil fuel depletion, ecotoxicity, carcinogenics, eutrophication, acidification, global warming potential, and ozone depletion) impacts per unit of rice than non-blast resistant rice production. Our findings suggest that any reduction in blast via breeding will have significantly positive impacts on reducing global food insecurity through increased supply, as well as decreased price and environmental impacts in production.

  3. Economic and Environmental Impact of Rice Blast Pathogen (Magnaporthe oryzae Alleviation in the United States.

    Directory of Open Access Journals (Sweden)

    Lawton Nalley

    Full Text Available Rice blast (Magnaporthe oryzae is a key concern in combating global food insecurity given the disease is responsible for approximately 30% of rice production losses globally-the equivalent of feeding 60 million people. These losses increase the global rice price and reduce consumer welfare and food security. Rice is the staple crop for more than half the world's population so any reduction in rice blast would have substantial beneficial effects on consumer livelihoods. In 2012, researchers in the US began analyzing the feasibility of creating blast-resistant rice through cisgenic breeding. Correspondingly, our study evaluates the changes in producer, consumer, and environmental welfare, if all the rice produced in the Mid-South of the US were blast resistant through a process like cisgenics, using both international trade and environmental assessment modeling. Our results show that US rice producers would gain 69.34 million dollars annually and increase the rice supply to feed an additional one million consumers globally by eliminating blast from production in the Mid-South. These results suggest that blast alleviation could be even more significant in increasing global food security given that the US is a small rice producer by global standards and likely experiences lower losses from blast than other rice-producing countries because of its ongoing investment in production technology and management. Furthermore, results from our detailed life cycle assessment (LCA show that producing blast-resistant rice has lower environmental (fossil fuel depletion, ecotoxicity, carcinogenics, eutrophication, acidification, global warming potential, and ozone depletion impacts per unit of rice than non-blast resistant rice production. Our findings suggest that any reduction in blast via breeding will have significantly positive impacts on reducing global food insecurity through increased supply, as well as decreased price and environmental impacts in

  4. Characterization of rue extract and its potential for controlling rice blast

    Directory of Open Access Journals (Sweden)

    Karinna Bannach Reis

    2015-12-01

    Full Text Available Abstract: The objective of this work was to purify and standardize the rue (Ruta graveolens extract and evaluate its effect on Magnaporthe oryzae as an alternative to the integrated management of rice blast. The drug was characterized, the liquid extract was obtained, and the methodology for quantifying the standard markers psoralen and bergapten was validated. Rue extract and the markers, solely or in combination, were assayed in vitro, as well as in greenhouse conditions, for their ability to suppress leaf blast, by the evaluation of mycelial growth, conidial germination, and appressorium formation. Rue extract inhibited M. oryzae mycelial growth (100%, conidial germination (LD50=0.237 mg, and the appressorium formation (LD50=0.121 mg; besides, the extract reduced leaf blast severity by 80.84%. Fluorescence microscopy showed that rue extract did not damage M. oryzae cell wall and plasma membrane, indicating another mode of action. Rue extract has a great potential for controlling rice leaf blast.

  5. DEVELOPMENT OF QUARRY SOLUTION VERSION 1.0 FOR QUICK COMPUTATION OF DRILLING AND BLASTING PARAMETERS

    Directory of Open Access Journals (Sweden)

    B. ADEBAYO

    2014-10-01

    Full Text Available Computation of drilling cost, quantity of explosives and blasting cost are routine procedure in Quarry and all these parameters are estimated manually in most of the quarries in Nigeria. This paper deals with the development of application package QUARRY SOLUTION Version 1.0 for quarries using Visual Basic 6.0. In order to achieve this data were obtained from the quarry such as drilling and blasting activities. Also, empirical formulae developed by different researchers were used for computation of the required parameters viz: practical burden, spacing, length of hole, cost of drilling consumables, drilling cost, powder factor, quantity of column charge, total quantity of explosives, volume of blast and blasting cost. The output obtained from the software QUARRY SOLUTION Version 1.0 for length of drilling, drilling cost, total quantity of explosives, volume of blast and blasting cost were compared with the results manually computed for these routine parameters estimated during drilling and blasting operation in quarry, it was then discovered that they followed the same trend. The computation from the application package revealed that 611 blast-holes require 3326.71 kg of high explosives (166 cartons of explosives and 20147.2 kg of low explosives (806 bags of explosives. The total cost was computed to be N 5133999:50 ($ 32087.49. Moreover, the output showed that these routine parameters estimated during drilling and blasting could be computed within a short time frame using this QUARRY SOLUTION, therefore, improving productivity and efficiency. This application package is recommended for use in open-pit and quarries when all necessary inputs are supplied.

  6. Energy absorption capabilities of composite sandwich panels under blast loads

    Science.gov (United States)

    Sankar Ray, Tirtha

    As blast threats on military and civilian structures continue to be a significant concern, there remains a need for improved design strategies to increase blast resistance capabilities. The approach to blast resistance proposed here is focused on dissipating the high levels of pressure induced during a blast through maximizing the potential for energy absorption of composite sandwich panels, which are a competitive structural member type due to the inherent energy absorption capabilities of fiber reinforced polymer (FRP) composites. Furthermore, the middle core in the sandwich panels can be designed as a sacrificial layer allowing for a significant amount of deformation or progressive failure to maximize the potential for energy absorption. The research here is aimed at the optimization of composite sandwich panels for blast mitigation via energy absorption mechanisms. The energy absorption mechanisms considered include absorbed strain energy due to inelastic deformation as well as energy dissipation through progressive failure of the core of the sandwich panels. The methods employed in the research consist of a combination of experimentally-validated finite element analysis (FEA) and the derivation and use of a simplified analytical model. The key components of the scope of work then includes: establishment of quantified energy absorption criteria, validation of the selected FE modeling techniques, development of the simplified analytical model, investigation of influential core architectures and geometric parameters, and investigation of influential material properties. For the parameters that are identified as being most-influential, recommended values for these parameters are suggested in conceptual terms that are conducive to designing composite sandwich panels for various blast threats. Based on reviewing the energy response characteristic of the panel under blast loading, a non-dimensional parameter AET/ ET (absorbed energy, AET, normalized by total energy

  7. Proceedings of the twenty-fourth annual conference on explosives and blasting technique

    Energy Technology Data Exchange (ETDEWEB)

    1998-01-01

    Papers of interest to the coal industry include: death of a coal shovel; deep hole blasting with SMS (site-mix slurry system); trend of bulk explosives in India; bottomhole annular pressure - a theoretical problem with real effects; maximizing rotary blast hole drills; explosive energy concept for drill productivity and higher overall productivity at reduced excavation costs; large diameter presplitting improved through two novel techniques; avoiding tragedy - lessons to be learned from a flyrock fatality; and an economic analysis of cast blasting compared to other stripping alternatives.

  8. Optimization Of Blasting Design Parameters On Open Pit Bench A Case Study Of Nchanga Open Pits

    Directory of Open Access Journals (Sweden)

    Victor Mwango Bowa

    2015-08-01

    Full Text Available Abstract In hard rock mining blasting is the most productive excavation technique applied to fragment insitu rock to the required size for efficient loading and crushing. In order to blast the insitu rock to the desired fragment size blast design parameter such as bench height hole diameter spacing burden hole length bottom charge specific charge and rock factor are considered. The research was carried out as a practical method on Nchanga Open Pits NOP ore Bench to optimize the blasting design parameters that can yield the required fragmentation size thereby reducing the shovel loading times and maximizing efficiency of the subsequent mining unit operations such as hauling and crushing. Fragmentation characteristics such as the mean fragment size were measured by means of a digital measuring tape and predicated using the Kuznetsov equation and rock factor value of ore bench was calculated using Lilly 1986 equations by means of rock characteristics. Traditional blasting design parameters were acquired for NOP and modified using Langerfors and Sharma P.A approaches. Several blast operations were conducted using both traditional and modified blasting design parameters on the same ore bench with the same geological conditions. Loading times of the shovel and fragment sizes were obtained after the blasts from ore bench where both the traditional and modified blasting design parameters were applied. Results show that mean fragment size and loading times were reduced from 51cm and 12minutes to 22cm and 3minutes where traditional and modified blasting design parameters were applied respectively.

  9. The Effects of Low-level Repetitive Blasts on Neuropsychological Functioning

    Science.gov (United States)

    2015-12-01

    including suggestions for reducing the burden, to Department of Defense, Washington Headquarters Services , Directorate for Information Operations and... Warden , 2006). Despite a recent push to develop refined prognostic, diagnostic, and intervention strategies that specifically address blast-related mTBI...standpoint. A single exposure to a “low level” blast results in acute axonal damage and shrinking of cortical neurons, although recovery is usually

  10. Development of a Comprehensive Blast-Related Auditory Injury Database (BRAID)

    Science.gov (United States)

    2016-05-01

    servicemembers included in the Blast-Related Auditory Injury Database. * Training injuries, accidents, and other noncombat injuries. †3,452 injuries...medications, exposures to ototoxic chemicals, recreational noise exposure, and other forms of temporary and persistent threshold shift. Combat marines...AC, Vecchiotti M, Kujawa SG, Lee DJ, Quesnel AM. Otologic outcomes after blast injury: The Boston Marathon experience. Otol Neurotol. 2014; 35(10

  11. CMG-biotools, a free workbench for basic comparative microbial genomics.

    Science.gov (United States)

    Vesth, Tammi; Lagesen, Karin; Acar, Öncel; Ussery, David

    2013-01-01

    Today, there are more than a hundred times as many sequenced prokaryotic genomes than were present in the year 2000. The economical sequencing of genomic DNA has facilitated a whole new approach to microbial genomics. The real power of genomics is manifested through comparative genomics that can reveal strain specific characteristics, diversity within species and many other aspects. However, comparative genomics is a field not easily entered into by scientists with few computational skills. The CMG-biotools package is designed for microbiologists with limited knowledge of computational analysis and can be used to perform a number of analyses and comparisons of genomic data. The CMG-biotools system presents a stand-alone interface for comparative microbial genomics. The package is a customized operating system, based on Xubuntu 10.10, available through the open source Ubuntu project. The system can be installed on a virtual computer, allowing the user to run the system alongside any other operating system. Source codes for all programs are provided under GNU license, which makes it possible to transfer the programs to other systems if so desired. We here demonstrate the package by comparing and analyzing the diversity within the class Negativicutes, represented by 31 genomes including 10 genera. The analyses include 16S rRNA phylogeny, basic DNA and codon statistics, proteome comparisons using BLAST and graphical analyses of DNA structures. This paper shows the strength and diverse use of the CMG-biotools system. The system can be installed on a vide range of host operating systems and utilizes as much of the host computer as desired. It allows the user to compare multiple genomes, from various sources using standardized data formats and intuitive visualizations of results. The examples presented here clearly shows that users with limited computational experience can perform complicated analysis without much training.

  12. Radiometric report for a blast furnace tracing with radioactive isotopes

    International Nuclear Information System (INIS)

    Tanase, G.; Tanase, M.

    1995-01-01

    One of the methods to monitor refractory wall of blast furnace is its tracing with radioactive isotopes. The tracer isotope can be detected by two ways: the external dosimetric measurement at the armour of the blast furnace and/or the radiometric measurement of the iron sample charge by charge. Any change in radiometric situation of tracer radioisotope is recorded in a radiometric report. This paper presents an original concept of radiometric report based upon PARADOX and CORELDRAW soft kits. Their advantage are: quick and easy changes, easy recording of current radioactivity of tracer isotope, short history of changes, visual mapping of the tracer isotope and others. In this way we monitored 6 blast furnaces and more than 180 radioactive sources

  13. Effect of Stemming to Burden Ratio and Powder Factor on Blast Induced Rock Fragmentation- A Case Study

    Science.gov (United States)

    Prasad, Sandeep; Choudhary, B. S.; Mishra, A. K.

    2017-08-01

    Rock fragmentation size is very important parameters for economical point of view in any surface mining. Rock fragment size direct effects on the costs of drilling, blasting, loading, secondary blasting and crushing. The main purpose of this study is to investigate effect of blast design parameters such as burden, blast hole length, stemming length, and powder factor on rock fragmentation. The fragment sizes (MFS, K50, m), and maximum fragment size (K95, m) of rock were determined by using the computer software. For every blast, after blasting operation, the images of whole muck pile are captured and there images were used for fragmentation analysis by using the Fragalyst software. It was observed that the optimal fragment size (MFS, K50, m and maximum fragment size, K95, m) of rock depends strongly on the blast design parameters and explosive parameters.

  14. Study of Perturbations on High Mach Number Blast Waves in Various Gasses

    Science.gov (United States)

    Edens, A.; Adams, R.; Rambo, P.; Shores, J.; Smith, I.; Atherton, B.; Ditmire, T.

    2006-10-01

    We have performed a series of experiments examining the properties of high Mach number blast waves. Experiments were conducted on the Z-Beamlet^1 laser at Sandia National Laboratories. We created blast waves in the laboratory by using 10 J- 1000 J laser pulses to illuminate millimeter scale solid targets immersed in gas. Our experiments studied the validity of theories forwarded by Vishniac and Ryu^2-4 to explain the dynamics of perturbations on astrophysical blast waves. These experiments consisted of an examination of the evolution of perturbations of known primary mode number induced on the surface of blast waves by means of regularly spaced wire arrays. The temporal evolution of the amplitude of the induced perturbations relative to the mean radius of the blast wave was fit to a power law in time. Measurements were taken for a number of different mode numbers and background gasses and the results show qualitative agreement with previously published theories for the hydrodynamics of thin shell blast wave. The results for perturbations on nitrogen gas have been recently published^5. .^1 P. K. Rambo, I. C. Smith, J. L. Porter, et al., Applied Optics 44, 2421 (2005). ^2 D. Ryu and E. T. Vishniac, Astrophysical Journal 313, 820 (1987). ^3 D. Ryu and E. T. Vishniac, Astrophysical Journal 368, 411 (1991). ^4 E. T. Vishniac, Astrophysical Journal 274, 152 (1983). ^5 A. D. Edens, T. Ditmire, J. F. Hansen, et al., Physical Review Letters 95 (2005).

  15. Combined Effects of Primary and Tertiary Blast on Rat Brain: Characterization of a Model of Blast-induced Mild Traumatic Brain Injury

    Science.gov (United States)

    2015-03-01

    Prog Neurobiol. 2001;63:321-36. [34] Zador Z, Stiver S, Wang V, Manley GT. Role of aquaporin-4 in cerebral edema and stroke. Handb Exp Pharmacol. 2009...bullae were opened • Images were taken under microscope with a 20x magnification • Sham ( ll , 1R), 280Ps_S psi (2l, 2R), 2BOPs_12 psi (3l, 3R...8217 · ~~ lW . ll at 7 dafter double blast exposures (ID Effect of blast exposure on auditory cortex • Immunohistochemistry on brain sections • at 6 hand

  16. Representing distance, consuming distance

    DEFF Research Database (Denmark)

    Larsen, Gunvor Riber

    Title: Representing Distance, Consuming Distance Abstract: Distance is a condition for corporeal and virtual mobilities, for desired and actual travel, but yet it has received relatively little attention as a theoretical entity in its own right. Understandings of and assumptions about distance...... are being consumed in the contemporary society, in the same way as places, media, cultures and status are being consumed (Urry 1995, Featherstone 2007). An exploration of distance and its representations through contemporary consumption theory could expose what role distance plays in forming...

  17. The effect of the air blast sprayer speed on the chemical distribution in vineyard.

    Science.gov (United States)

    Celen, I H; Arin, S; Durgut, M R

    2008-06-01

    A study was conducted to determine the spray deposition patterns for air blast sprayers used to apply chemicals to the canopy of Semillon grapevine in vineyard. The application carried out in 12 bars and three sprayer speed (2.1-4.9-7.7 km h(-1)). The spray deposition was measured on the point in the different distances (1.5-3-6-9 m). Tartrazine were applied as tracer material. Maximum spray deposit was obtained 66.1 mg cm(-2) at sprayer speed of 2.1 km h(-1) and minimum deposit was obtained 37.1 mg cm(-2) at sprayer speed of 7.7 km h(-1). The results showed that the sprayer speeds had significant effect on spray deposit distribution and increasing of the sprayer speed increased drift.

  18. Compound 49b Reduces Inflammatory Markers and Apoptosis after Ocular Blast Injury

    Science.gov (United States)

    2018-02-01

    inflammatory and apoptotic markers, but not to control levels. Figure 1. ELISA results for TNF(left) and IL-1(right) in mouse retina without exposure to...anti- apoptotic protein BcL-xL (bottom left). ELISA results for cleaved caspase 3. *Pɘ.05 vs. NT. #Pɘ.05 vs. blast only at the same time point. N=5...E). ELISA results for cleaved caspase 3 (C) in IGFBP-3 knockdown mice without exposure to blast, IGFBP-3 KD mice exposed to blast for 4, 24, and 72

  19. OPTIMALIZATION OF BLASTING IN »LAKOVIĆI« LIMESTONE QUARRY

    OpenAIRE

    Branko Božić; Karlo Braun

    1992-01-01

    The optimalization of exploitation in »Lakovići« limestone quarry is described. Based on determined discontinuities in the rock mass and their densities, the best possible working site have been located in order to obtain the best possible sizes of blasted rocks and work slope stability. Optimal lowest resistance line size for the quarry has been counted and proved experimentally. New blasting parameters have resulted in considerable saving of drilling and explosive (the paper is published in...

  20. Blasted copper slag as fine aggregate in Portland cement concrete.

    Science.gov (United States)

    Dos Anjos, M A G; Sales, A T C; Andrade, N

    2017-07-01

    The present work focuses on assessing the viability of applying blasted copper slag, produced during abrasive blasting, as fine aggregate for Portland cement concrete manufacturing, resulting in an alternative and safe disposal method. Leaching assays showed no toxicity for this material. Concrete mixtures were produced, with high aggregate replacement ratios, varying from 0% to 100%. Axial compressive strength, diametrical compressive strength, elastic modulus, physical indexes and durability were evaluated. Assays showed a significant improvement in workability, with the increase in substitution of fine aggregate. With 80% of replacement, the concrete presented lower levels of water absorption capacity. Axial compressive strength and diametrical compressive strength decreased, with the increase of residue replacement content. The greatest reductions of compressive strength were found when the replacement was over 40%. For tensile strength by diametrical compression, the greatest reduction occurred for the concrete with 80% of replacement. After the accelerated aging, results of mechanic properties showed a small reduction of the concrete with blasted copper slag performance, when compared with the reference mixture. Results indicated that the blasted copper slag is a technically viable material for application as fine aggregate for concrete mixtures. Copyright © 2017 Elsevier Ltd. All rights reserved.

  1. An update on blast furnace granular coal injection

    Energy Technology Data Exchange (ETDEWEB)

    Hill, D.G. [Bethlehem Steel Corp., Burns Harbor, IN (United States); Strayer, T.J.; Bouman, R.W. [Bethlehem Steel Corp., PA (United States)

    1997-12-31

    A blast furnace coal injection system has been constructed and is being used on the furnace at the Burns Harbor Division of Bethlehem Steel. The injection system was designed to deliver both granular (coarse) and pulverized (fine) coal. Construction was completed on schedule in early 1995. Coal injection rates on the two Burns Harbor furnaces were increased throughout 1995 and was over 200 lbs/ton on C furnace in September. The injection rate on C furnace reached 270 lbs/ton by mid-1996. A comparison of high volatile and low volatile coals as injectants shows that low volatile coal replaces more coke and results in a better blast furnace operation. The replacement ratio with low volatile coal is 0.96 lbs coke per pound of coal. A major conclusion of the work to date is that granular coal injection performs very well in large blast furnaces. Future testing will include a processed sub-bituminous coal, a high ash coal and a direct comparison of granular versus pulverized coal injection.

  2. BLAST in Gid (BiG): A Grid-Enabled Software Architecture and Implementation of Parallel and Sequential BLAST

    International Nuclear Information System (INIS)

    Aparicio, G.; Blanquer, I.; Hernandez, V.; Segrelles, D.

    2007-01-01

    The integration of High-performance computing tools is a key issue in biomedical research. Many computer-based applications have been migrated to High-Performance computers to deal with their computing and storage needs such as BLAST. However, the use of clusters and computing farm presents problems in scalability. The use of a higher layer of parallelism that splits the task into highly independent long jobs that can be executed in parallel can improve the performance maintaining the efficiency. Grid technologies combined with parallel computing resources are an important enabling technology. This work presents a software architecture for executing BLAST in a International Grid Infrastructure that guarantees security, scalability and fault tolerance. The software architecture is modular an adaptable to many other high-throughput applications, both inside the field of bio computing and outside. (Author)

  3. Developing climate resilient rice through genomics assisted breeding

    Directory of Open Access Journals (Sweden)

    Valarmathi Muthu

    2017-10-01

    Full Text Available Rice is one of the major cereal food crops whose production has to be doubled to achieve the projected demand [1] and current yield trends are not sufficient to meet the projected growth in production. Increasing the rice production by 30% during 2030 needs overcoming challenges viz., yield plateau, declining land, water and labor resources and predicted effects of global climate change. Development of high performance rice genotypes with enhanced yield potential and resilience to climate change will help in sustained increase in rice production. Deployment of genomic technologies can accelerate development and delivery of improved germplasm with enhanced resilience and adaptability [2, 3]. In this context, the present study was undertaken with an aim of developing rice genotypes pyramided with QTLs/genes controlling tolerance against various biotic and abiotic stresses viz., bacterial leaf blight (xa13, Xa21, blast (Pi9, Gall midge (Gm4, drought (qDTY1.1 qDTY2.1, submergence (Sub1 and salinity (Saltol. CBMAS14065 an elite culture harboring QTLs controlling tolerance against drought, salinity and submergence was crossed with a donor harboring BLB, Blast and Gall midge resistant genes. True F1s were backcrossed with CBMAS14065 and BC1F1 progenies were subjected to foreground selection using markers linked to the target traits. Superior plants (18 of BC1F1 generation were subjected to background selection which revealed 71.42 - 86.90% recurrent parent (CBMAS14065 genome recovery. Selected BC1F1 plants were advanced to BC2F1 generation backcrossing with CBMAS14065. In BC2F1 generation, through foreground selection 6-8 QTL/gene positive plants have been selected and advanced for further evaluation. The superior lines with desired QTLs/genes will be subjected to rigorous phenotypic evaluation against target stresses and advanced further.

  4. Application of slurries in rationalization of blasting technology. Primjena emulzija radi racionalizacije procesa miniranja

    Energy Technology Data Exchange (ETDEWEB)

    Kljucanin, T.; Dzindic, M. (Rudarski Institut, Tuzla (Yugoslavia))

    1990-01-01

    Emphasizes the advantages of using slurry-type explosives in surface coal mines. Outputs achieved at the Potocari surface coal mine with vitezit, amonal, kamniktit, nitrol and anfex explosives (90 mm cartridge diameter) are compared with output achieved using the slurry-type vitomex explosive (171 mm and 249 mm diameter). In two experimental detonations, 12,636 and 13,720 m[sup 3] of rocky material were blasted using multirow blasting. Average consumption of explosives when blasting with vitomex was 0.32 kg/m[sup 3] and 0.36 kg/m[sup 3]. When blasting with conventional explosives the average consumption of explosives ranged from 0.18 to 0.26 kg/m[sup 3]. Owing to its lower price (YUD 6.7/kg), use of vitomex brings about significant savings in operating costs (average price of conventional explosives is YUD 12/kg), in addition to technological advantages. Recommendations are made for further experimental blasting by means of weakened explosive charges. Use of hole cylinders, made of inert salt, put around explosive cartridges, is recommended as a measure for obtaining better fracturing of blasted material. 3 refs.

  5. Application of micro blasting technique to demolition of biological shield wall of reactor building

    International Nuclear Information System (INIS)

    Kontani, Osamu

    2016-01-01

    Although heavily reinforced concrete structures in nuclear facilities could be dismantled effectively with the controlled blasting technique, the noises and vibrations caused by blasting were matters of concern. Recently, in the building replacement at urban areas, there are increasing cases of demolition of large reinforced concrete members below ground. Instead of applying heavy weight breakers, the micro blasting technique that enables to lower noises and vibrations has developed and applied to demolition work of large reinforced concrete members in urban areas. In this report, the features of the micro blasting technique is reviewed by comparing with existing controlled blasting technique and its applicability to demolition work of nuclear facilities is investigated. The results of those study find that it is confirmed that the micro blasting technique could be applicable to large reinforced concrete structures in nuclear facilities because of the low levels of noises and vibrations. However, it is recommended to perform mock-up tests to confirm the demolition efficiency and levels of the noises and vibrations since the rebar used in nuclear facilities is larger in diameters and in rebar ratio compared with ordinary reinforced concrete structures. (author)

  6. GDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data.

    Science.gov (United States)

    Jung, Sook; Staton, Margaret; Lee, Taein; Blenda, Anna; Svancara, Randall; Abbott, Albert; Main, Dorrie

    2008-01-01

    The Genome Database for Rosaceae (GDR) is a central repository of curated and integrated genetics and genomics data of Rosaceae, an economically important family which includes apple, cherry, peach, pear, raspberry, rose and strawberry. GDR contains annotated databases of all publicly available Rosaceae ESTs, the genetically anchored peach physical map, Rosaceae genetic maps and comprehensively annotated markers and traits. The ESTs are assembled to produce unigene sets of each genus and the entire Rosaceae. Other annotations include putative function, microsatellites, open reading frames, single nucleotide polymorphisms, gene ontology terms and anchored map position where applicable. Most of the published Rosaceae genetic maps can be viewed and compared through CMap, the comparative map viewer. The peach physical map can be viewed using WebFPC/WebChrom, and also through our integrated GDR map viewer, which serves as a portal to the combined genetic, transcriptome and physical mapping information. ESTs, BACs, markers and traits can be queried by various categories and the search result sites are linked to the mapping visualization tools. GDR also provides online analysis tools such as a batch BLAST/FASTA server for the GDR datasets, a sequence assembly server and microsatellite and primer detection tools. GDR is available at http://www.rosaceae.org.

  7. 29 CFR 1926.913 - Blasting in excavation work under compressed air.

    Science.gov (United States)

    2010-07-01

    ... 29 Labor 8 2010-07-01 2010-07-01 false Blasting in excavation work under compressed air. 1926.913... Use of Explosives § 1926.913 Blasting in excavation work under compressed air. (a) Detonators and... connecting wires are connected up. (b) When detonators or explosives are brought into an air lock, no...

  8. Analysis of transitions at two-fold redundant sites in mammalian genomes. Transition redundant approach-to-equilibrium (TREx distance metrics

    Directory of Open Access Journals (Sweden)

    Liberles David A

    2006-03-01

    sites within two-fold redundant coding systems were examined in the mouse, rat, and human genomes. The key metric (f2, the fraction of those sites that holds the same nucleotide, was measured for putative ortholog pairs. A transition redundant exchange (TREx distance was calculated from f2 for these pairs. Pyrimidine-pyrimidine transitions at these sites occur approximately 14% faster than purine-purine transitions in various lineages. Transition rate constants were similar in different genes within the same lineages; within a set of orthologs, the f2 distribution is only modest overdispersed. No correlation between disparity and overdispersion is observed. In rodents, evidence was found for greater conservation of TREx sites in genes on the X chromosome, accounting for a small part of the overdispersion, however. Conclusion The TREx metric is useful to analyze the history of transition rate constants within these mammals over the past 100 million years. The TREx metric estimates the extent to which silent nucleotide substitutions accumulate in different genes, on different chromosomes, with different compositions, in different lineages, and at different times.

  9. GDR (Genome Database for Rosaceae: integrated web resources for Rosaceae genomics and genetics research

    Directory of Open Access Journals (Sweden)

    Ficklin Stephen

    2004-09-01

    Full Text Available Abstract Background Peach is being developed as a model organism for Rosaceae, an economically important family that includes fruits and ornamental plants such as apple, pear, strawberry, cherry, almond and rose. The genomics and genetics data of peach can play a significant role in the gene discovery and the genetic understanding of related species. The effective utilization of these peach resources, however, requires the development of an integrated and centralized database with associated analysis tools. Description The Genome Database for Rosaceae (GDR is a curated and integrated web-based relational database. GDR contains comprehensive data of the genetically anchored peach physical map, an annotated peach EST database, Rosaceae maps and markers and all publicly available Rosaceae sequences. Annotations of ESTs include contig assembly, putative function, simple sequence repeats, and anchored position to the peach physical map where applicable. Our integrated map viewer provides graphical interface to the genetic, transcriptome and physical mapping information. ESTs, BACs and markers can be queried by various categories and the search result sites are linked to the integrated map viewer or to the WebFPC physical map sites. In addition to browsing and querying the database, users can compare their sequences with the annotated GDR sequences via a dedicated sequence similarity server running either the BLAST or FASTA algorithm. To demonstrate the utility of the integrated and fully annotated database and analysis tools, we describe a case study where we anchored Rosaceae sequences to the peach physical and genetic map by sequence similarity. Conclusions The GDR has been initiated to meet the major deficiency in Rosaceae genomics and genetics research, namely a centralized web database and bioinformatics tools for data storage, analysis and exchange. GDR can be accessed at http://www.genome.clemson.edu/gdr/.

  10. GDR (Genome Database for Rosaceae): integrated web resources for Rosaceae genomics and genetics research.

    Science.gov (United States)

    Jung, Sook; Jesudurai, Christopher; Staton, Margaret; Du, Zhidian; Ficklin, Stephen; Cho, Ilhyung; Abbott, Albert; Tomkins, Jeffrey; Main, Dorrie

    2004-09-09

    Peach is being developed as a model organism for Rosaceae, an economically important family that includes fruits and ornamental plants such as apple, pear, strawberry, cherry, almond and rose. The genomics and genetics data of peach can play a significant role in the gene discovery and the genetic understanding of related species. The effective utilization of these peach resources, however, requires the development of an integrated and centralized database with associated analysis tools. The Genome Database for Rosaceae (GDR) is a curated and integrated web-based relational database. GDR contains comprehensive data of the genetically anchored peach physical map, an annotated peach EST database, Rosaceae maps and markers and all publicly available Rosaceae sequences. Annotations of ESTs include contig assembly, putative function, simple sequence repeats, and anchored position to the peach physical map where applicable. Our integrated map viewer provides graphical interface to the genetic, transcriptome and physical mapping information. ESTs, BACs and markers can be queried by various categories and the search result sites are linked to the integrated map viewer or to the WebFPC physical map sites. In addition to browsing and querying the database, users can compare their sequences with the annotated GDR sequences via a dedicated sequence similarity server running either the BLAST or FASTA algorithm. To demonstrate the utility of the integrated and fully annotated database and analysis tools, we describe a case study where we anchored Rosaceae sequences to the peach physical and genetic map by sequence similarity. The GDR has been initiated to meet the major deficiency in Rosaceae genomics and genetics research, namely a centralized web database and bioinformatics tools for data storage, analysis and exchange. GDR can be accessed at http://www.genome.clemson.edu/gdr/.

  11. The GAAS Metagenomic Tool and Its Estimations of Viral and Microbial Average Genome Size in Four Major Biomes

    OpenAIRE

    Angly, Florent E.; Willner, Dana; Prieto-Dav?, Alejandra; Edwards, Robert A.; Schmieder, Robert; Vega-Thurber, Rebecca; Antonopoulos, Dionysios A.; Barott, Katie; Cottrell, Matthew T.; Desnues, Christelle; Dinsdale, Elizabeth A.; Furlan, Mike; Haynes, Matthew; Henn, Matthew R.; Hu, Yongfei

    2009-01-01

    Metagenomic studies characterize both the composition and diversity of uncultured viral and microbial communities. BLAST-based comparisons have typically been used for such analyses; however, sampling biases, high percentages of unknown sequences, and the use of arbitrary thresholds to find significant similarities can decrease the accuracy and validity of estimates. Here, we present Genome relative Abundance and Average Size (GAAS), a complete software package that provides improved estimate...

  12. The Pre-Blast Concept for use on Armour Materials

    Science.gov (United States)

    2016-02-01

    distribution is displayed. The (1 1 1) pole figure for TWIP steel (FCC crystal structure) is shown representatively, while (1 0 0) is chosen for Dual...avoid the blasted plates impacting the ceiling of the blast chamber. A type ‘k’ thermocouple was then welded to a corner on the top side of the plates...angle distribution is displayed. The (1 1 1) pole figure for TWIP steel (FCC crystal structure) is shown representatively, while (1 0 0) is chosen

  13. OPTIMALIZATION OF BLASTING IN »LAKOVIĆI« LIMESTONE QUARRY

    Directory of Open Access Journals (Sweden)

    Branko Božić

    1992-12-01

    Full Text Available The optimalization of exploitation in »Lakovići« limestone quarry is described. Based on determined discontinuities in the rock mass and their densities, the best possible working site have been located in order to obtain the best possible sizes of blasted rocks and work slope stability. Optimal lowest resistance line size for the quarry has been counted and proved experimentally. New blasting parameters have resulted in considerable saving of drilling and explosive (the paper is published in Croatian.

  14. Application of Grid Planning Method in Drilling-Blasting Operations

    OpenAIRE

    Dambov, Risto; Spasovski, Orce

    2012-01-01

    The problem occurs almost every day in operation and causes troubles to mining engineers. The right performance of drilling-blasting work is important for the successful operation of the entire excavation. The aim of the paper is to point out the importance of planning and how it can contribute to the right organization and make drilling-blasting and other mining activities in mine operations easier. Defining the activities and practical example that has been given are carried out by the u...

  15. Genomic Inbreeding and Relatedness in Wild Panda Populations.

    Science.gov (United States)

    Garbe, John R; Prakapenka, Dzianis; Tan, Cheng; Da, Yang

    2016-01-01

    Inbreeding and relatedness in wild panda populations are important parameters for panda conservation. Habitat loss and fragmentation are expected to increase inbreeding but the actual inbreeding levels in natural panda habitats were unknown. Using 150,025 SNPs and 14,926 SNPs selected from published whole-genome sequences, we estimated genomic inbreeding coefficients and relatedness of 49 pandas including 34 wild pandas sampled from six habitats. Qinling and Liangshan pandas had the highest levels of inbreeding and relatedness measured by genomic inbreeding and coancestry coefficients, whereas the inbreeding levels in Qionglai and Minshan were 28-45% of those in Qinling and Liangshan. Genomic coancestry coefficients between pandas from different habitats showed that panda populations from the four largest habitats, Minshan, Qionglai, Qinling and Liangshan, were genetically unrelated. Pandas between these four habitats on average shared 66.0-69.1% common alleles and 45.6-48.6% common genotypes, whereas pandas within each habitat shared 71.8-77.0% common alleles and 51.7-60.4% common genotypes. Pandas in the smaller populations of Qinling and Liangshan were more similarly to each other than pandas in the larger populations of Qionglai and Minshan according to three genomic similarity measures. Panda genetic differentiation between these habitats was positively related to their geographical distances. Most pandas separated by 200 kilometers or more shared no common ancestral alleles. The results provided a genomic quantification of the actual levels of inbreeding and relatedness among pandas in their natural habitats, provided genomic confirmation of the relationship between genetic diversity and geographical distances, and provided genomic evidence to the urgency of habitat protection.

  16. Genomic Inbreeding and Relatedness in Wild Panda Populations

    Science.gov (United States)

    Da, Yang

    2016-01-01

    Inbreeding and relatedness in wild panda populations are important parameters for panda conservation. Habitat loss and fragmentation are expected to increase inbreeding but the actual inbreeding levels in natural panda habitats were unknown. Using 150,025 SNPs and 14,926 SNPs selected from published whole-genome sequences, we estimated genomic inbreeding coefficients and relatedness of 49 pandas including 34 wild pandas sampled from six habitats. Qinling and Liangshan pandas had the highest levels of inbreeding and relatedness measured by genomic inbreeding and coancestry coefficients, whereas the inbreeding levels in Qionglai and Minshan were 28–45% of those in Qinling and Liangshan. Genomic coancestry coefficients between pandas from different habitats showed that panda populations from the four largest habitats, Minshan, Qionglai, Qinling and Liangshan, were genetically unrelated. Pandas between these four habitats on average shared 66.0–69.1% common alleles and 45.6–48.6% common genotypes, whereas pandas within each habitat shared 71.8–77.0% common alleles and 51.7–60.4% common genotypes. Pandas in the smaller populations of Qinling and Liangshan were more similarly to each other than pandas in the larger populations of Qionglai and Minshan according to three genomic similarity measures. Panda genetic differentiation between these habitats was positively related to their geographical distances. Most pandas separated by 200 kilometers or more shared no common ancestral alleles. The results provided a genomic quantification of the actual levels of inbreeding and relatedness among pandas in their natural habitats, provided genomic confirmation of the relationship between genetic diversity and geographical distances, and provided genomic evidence to the urgency of habitat protection. PMID:27494031

  17. In vivo stem cell function of interleukin-3-induced blast cells

    International Nuclear Information System (INIS)

    Tsunoda, J.; Okada, S.; Suda, J.; Nagayoshi, K.; Nakauchi, H.; Hatake, K.; Miura, Y.; Suda, T.

    1991-01-01

    The treatment of mice with high doses of 5-fluorouracil (5-FU) results in an enrichment of primitive hematopoietic progenitors. Using this procedure, the authors obtained a new class of murine hematopoietic colonies that had very high secondary plating efficiencies in vitro and could differentiate into not only myeloid cells but also into lymphoid lineage cells. The phenotypes of interleukin-3 (IL-3) induced blast colony cells were Thy-1-positive and lineage-marker-negative. They examined whether these blast colony cells contained primitive hematopoietic stem cells in vivo and could reconstitute hematopoietic tissues in lethally irradiated mice. Blast colony cells could generate macroscopic visible spleen colonies on days 8 and 12, and 5 x 10(3) blast cells were sufficient to protect them from lethally irradiation. It was shown that 6 or 8 weeks after transplantation of 5 x 10(3) blast cells, donor male cells were detected in the spleen and thymus of the female recipients but not in the bone marrow by Southern blot analysis using Y-encoded DNA probe. After 10 weeks, bone marrow cells were partially repopulated from donor cells. In a congenic mouse system, donor-derived cells (Ly5.2) were detected in the thymus and spleen 6 weeks after transplantation. Fluorescence-activated cell sorter analyses showed that B cells and macrophages developed from donor cells in the spleen. In the thymus, donor-derived cells were found in CD4, CD8 double-positive, single-positive, and double-negative populations. Reconstitution of bone marrow was delayed and myeloid and lymphoid cells were detected 10 weeks after transplantation. These results indicate that IL-3-induced blast cells contain the primitive hematopoietic stem cells capable of reconstituting hematopoietic organs in lethally irradiated mice

  18. Use of coal-water mixtures in blast furnaces

    Energy Technology Data Exchange (ETDEWEB)

    Malgarini, G; Giuli, M; Davide, A; Carlesi, C [Centro Sviluppo Materiali, Rome (Italy); Italsider, Genoa [Italy; Deltasider, Piombino [Italy

    1989-03-01

    At the present time, an ironworks blast furnace employing a pulverized coal injection (PCI) system is in operation at the Piombino Works (Italy). A wide development, within this industry, of PCI techniques is expected in the near future to limit, as much as possible, the rebuilding of coke ovens. Research activities and industrial trials aimed at maximizing the use of coal injection into blast furnaces are in course of development. This paper uses flowsheets to illustrate such a system and provides graphs to indicate the economic convenience of PCI systems as compared with systems using naphtha as an injected fuel.

  19. Behavioral Outcomes Differ Between Rotational Acceleration and Blast Mechanisms of Mild Traumatic Brain Injury

    Directory of Open Access Journals (Sweden)

    Brian D. Stemper

    2016-03-01

    Full Text Available Mild traumatic brain injury (mTBI can result from a number of mechanisms, including blunt impact, head rotational acceleration, exposure to blast, and penetration of projectiles. Mechanism is likely to influence the type, severity, and chronicity of outcomes. The objective of this study was to determine differences in the severity and time-course of behavioral outcomes following blast and rotational mTBI. The Medical College of Wisconsin (MCW Rotational Injury model and a shock tube model of primary blast injury were used to induce mTBI in rats and behavioral assessments were conducted within the first week, as well as 30 and 60 days following injury. Acute recovery time demonstrated similar increases over protocol-matched shams, indicating acute injury severity equivalence between the two mechanisms. Post-injury behavior in the elevated plus maze demonstrated differing trends, with rotationally injured rats acutely demonstrating greater activity, whereas blast-injured rats had decreased activity that developed at chronic time points. Similarly, blast-injured rats demonstrated trends associated with cognitive deficits that were not apparent following rotational injuries. These findings demonstrate that rotational and blast injury result in behavioral changes with different qualitative and temporal manifestations. Whereas rotational injury was characterized by a rapidly emerging phenotype consistent with behavioral disinhibition, blast injury was associated with emotional and cognitive differences that were not evident acutely, but developed later, with an anxiety-like phenotype still present in injured animals at our most chronic measurements.

  20. On Sorting Genomes with DCJ and Indels

    Science.gov (United States)

    Braga, Marília D. V.

    A previous work of Braga, Willing and Stoye compared two genomes with unequal content, but without duplications, and presented a new linear time algorithm to compute the genomic distance, considering double cut and join (DCJ) operations, insertions and deletions. Here we derive from this approach an algorithm to sort one genome into another one also using DCJ, insertions and deletions. The optimal sorting scenarios can have different compositions and we compare two types of sorting scenarios: one that maximizes and one that minimizes the number of DCJ operations with respect to the number of insertions and deletions.

  1. Genome mining of the genetic diversity in the Aspergillus genus - from a collection of more than 30 Aspergillus species

    DEFF Research Database (Denmark)

    Rasmussen, Jane Lind Nybo; Vesth, Tammi Camilla; Theobald, Sebastian

    In the era of high-throughput sequencing, comparative genomics can be applied for evaluating species diversity. In this project we aim to compare the genomes of 300 species of filamentous fungi from the Aspergillus genus, a complex task. To be able to define species, clade, and core features......, this project uses BLAST on the amino acid level to discover orthologs. With a potential of 300 Aspergillus species each having ~12,000 annotated genes, traditional clustering will demand supercomputing. Instead, our approach reduces the search space by identifying isoenzymes within each genome creating...... intragenomic protein families (iPFs), and then connecting iPFs across all genomes. The initial findings in a set of 31 species show that ~48% of the annotated genes are core genes (genes shared between all species) and 2-24% of the genes are defining the individual species. The methods presented here...

  2. bioWidgets: data interaction components for genomics.

    Science.gov (United States)

    Fischer, S; Crabtree, J; Brunk, B; Gibson, M; Overton, G C

    1999-10-01

    The presentation of genomics data in a perspicuous visual format is critical for its rapid interpretation and validation. Relatively few public database developers have the resources to implement sophisticated front-end user interfaces themselves. Accordingly, these developers would benefit from a reusable toolkit of user interface and data visualization components. We have designed the bioWidget toolkit as a set of JavaBean components. It includes a wide array of user interface components and defines an architecture for assembling applications. The toolkit is founded on established software engineering design patterns and principles, including componentry, Model-View-Controller, factored models and schema neutrality. As a proof of concept, we have used the bioWidget toolkit to create three extendible applications: AnnotView, BlastView and AlignView.

  3. Significance of special blasting modes for anti shock struggle at hydrothermal Pribram uranium ore deposit

    International Nuclear Information System (INIS)

    Stenczel, J.

    1988-01-01

    Situations are presented which occur in connection with blasting jobs. Special blasting operations are described. In the Pribram uranium deposit two types of special blasting operations were tested. Conditions are described under which softening blasting was carried out. This type of work did not prove satisfactory in operation and is therefore not performed at the Pribram deposit. A theoretical analysis is made of shock distrubance blasting and the procedure of designing such projects, the placement of explosives and the determination of their size. Such blasting jobs have been tested in shock zones of vein node. The total weight of the explosive was 100 to 200 kg of Px V 19. In most cases a mine shock was initiated (in some cases with a delay of up to several dozen hours). The said method increases the technical safety of operation. At the Pribram deposit it is only used in cases of utmost necessity because its use increases costs and delays the procedure of mining work. (E.S.). 9 figs., 1 tab., 6 refs

  4. Hot metal temperature prediction and simulation by fuzzy logic in a blast furnace

    International Nuclear Information System (INIS)

    Romero, M. A.; Jimenez, J.; Mochon, J.; Formoso, A.; Bueno, F.; Menendez, J. L.

    2000-01-01

    This work describes the development and further validation of a model devoted to blast furnace hot metal temperature forecast, based on Fuzzy logic principles. The model employs as input variables, the control variables of an actual blast furnace: Blast volume, moisture, coal injection, oxygen addition, etc. and it yields as a result the hot metal temperature with a forecast horizon of forty minutes. As far as the variables used to develop the model have been obtained from data supplied by an actual blast furnaces sensors, it is necessary to properly analyse and handle such data. Especial attention was paid to data temporal correlation, fitting by interpolation the different sampling rates. In the training stage of the model the ANFIS (Adaptive Neuro-Fuzzy Inference System) and the Subtractive Clustering algorithms have been used. (Author) 9 refs

  5. After-blast fumes from ANFO mixtures - the effect of prill type and mixing techniques

    Energy Technology Data Exchange (ETDEWEB)

    Farnfield, R.; Wetherelt, A.

    2003-06-01

    Over the last couple of years the Technical Services Department of exchem explosives has received a number of enquiries regarding the nature of after-blast fumes. These enquiries have been driven by two concerns: site-related health and safety and public comment from people living close to blasting operations. The paper examines how these choices can impact the quality and quantity of after-blast fume. 3 refs., 9 figs., 3 tabs.

  6. Auditory backup alarms: distance-at-first-detection via in-situ experimentation on alarm design and hearing protection effects.

    Science.gov (United States)

    Alali, Khaled; Casali, John G

    2012-01-01

    The purpose of this study was to assess normal hearing listeners' performance in detecting a stationary backup alarm signal and to quantify the linear distance at detection point. Detection distances for 12 participants with normal hearing were measured while they were fitted with 7 hearing protectors and while they were unoccluded (open ear). A standard (narrowband) backup alarm signal and a broadband (pulsed white noise) backup alarm signal from Brigade[1] were used. The method of limits, with distance as the physical measurement variable and threshold detection as the task, was employed to find at which distance the participant could first detect the backup alarms. A within-subject Analysis of Variance (ANOVA) revealed a significant main effect of the listening conditions on the detection distance in feet. Post hoc analyses indicate