Exploiting sparseness in de novo genome assembly
Identifieur interne : 002256 ( Main/Exploration ); précédent : 002255; suivant : 002257Exploiting sparseness in de novo genome assembly
Auteurs : Chengxi Ye [États-Unis] ; Zhanshan Sam Ma ; Charles H. Cannon [États-Unis] ; Mihai Pop [États-Unis] ; Douglas W. YuSource :
- BMC Bioinformatics [ 1471-2105 ] ; 2012.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
Abstract
The very large memory requirements for the construction of assembly graphs for
In this paper, we demonstrate that constructing a sparse assembly graph which stores only a small fraction of the observed
We implement this sparse graph concept in a proof-of-principle software package,
Url:
DOI: 10.1186/1471-2105-13-S6-S1
PubMed: 22537038
PubMed Central: 3369186
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 000942
- to stream Pmc, to step Curation: 000942
- to stream Pmc, to step Checkpoint: 001299
- to stream PubMed, to step Corpus: 001D85
- to stream PubMed, to step Curation: 001D85
- to stream PubMed, to step Checkpoint: 001C83
- to stream Ncbi, to step Merge: 000951
- to stream Ncbi, to step Curation: 000951
- to stream Ncbi, to step Checkpoint: 000951
- to stream Main, to step Merge: 002281
- to stream Main, to step Curation: 002256
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Exploiting sparseness in <italic>de novo </italic>genome assembly</title><author><name sortKey="Ye, Chengxi" sort="Ye, Chengxi" uniqKey="Ye C" first="Chengxi" last="Ye">Chengxi Ye</name><affiliation><nlm:aff id="I1">Ecology & Evolution of Plant-Animal Interaction Group, Xishuangbanna Tropical Botanic Garden, Chinese Academy of Sciences, Menglun, Yunnan 666303 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 666303 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="I2">Ecology, Conservation, and Environment Center; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation><affiliation wicri:level="4"><nlm:aff id="I3">Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></affiliation></author><author><name sortKey="Ma, Zhanshan Sam" sort="Ma, Zhanshan Sam" uniqKey="Ma Z" first="Zhanshan Sam" last="Ma">Zhanshan Sam Ma</name><affiliation><nlm:aff id="I4">Computational Biology and Medical Ecology Lab; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation></author><author><name sortKey="Cannon, Charles H" sort="Cannon, Charles H" uniqKey="Cannon C" first="Charles H" last="Cannon">Charles H. Cannon</name><affiliation><nlm:aff id="I5">Ecological Evolution Group, Xishuangbanna Tropical Botanic Garden, Chinese Academy of Sciences, Menglun, Yunnan 666303 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 666303 China</wicri:noCountry></affiliation><affiliation wicri:level="2"><nlm:aff id="I6">Department of Biological Sciences, Texas Tech University, Lubbock, TX 79410 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Texas</region></placeName><wicri:cityArea>Department of Biological Sciences, Texas Tech University, Lubbock</wicri:cityArea></affiliation></author><author><name sortKey="Pop, Mihai" sort="Pop, Mihai" uniqKey="Pop M" first="Mihai" last="Pop">Mihai Pop</name><affiliation wicri:level="4"><nlm:aff id="I3">Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></affiliation></author><author><name sortKey="Yu, Douglas W" sort="Yu, Douglas W" uniqKey="Yu D" first="Douglas W" last="Yu">Douglas W. Yu</name><affiliation><nlm:aff id="I2">Ecology, Conservation, and Environment Center; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="I7">School of Biological Sciences, University of East Anglia, Norwich, Norfolk NR47TJ UK</nlm:aff><wicri:noCountry code="subfield">Norfolk NR47TJ UK</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">22537038</idno><idno type="pmc">3369186</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3369186</idno><idno type="RBID">PMC:3369186</idno><idno type="doi">10.1186/1471-2105-13-S6-S1</idno><date when="2012">2012</date><idno type="wicri:Area/Pmc/Corpus">000942</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000942</idno><idno type="wicri:Area/Pmc/Curation">000942</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000942</idno><idno type="wicri:Area/Pmc/Checkpoint">001299</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">001299</idno><idno type="wicri:source">PubMed</idno><idno type="RBID">pubmed:22537038</idno><idno type="wicri:Area/PubMed/Corpus">001D85</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001D85</idno><idno type="wicri:Area/PubMed/Curation">001D85</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001D85</idno><idno type="wicri:Area/PubMed/Checkpoint">001C83</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001C83</idno><idno type="wicri:Area/Ncbi/Merge">000951</idno><idno type="wicri:Area/Ncbi/Curation">000951</idno><idno type="wicri:Area/Ncbi/Checkpoint">000951</idno><idno type="wicri:Area/Main/Merge">002281</idno><idno type="wicri:Area/Main/Curation">002256</idno><idno type="wicri:Area/Main/Exploration">002256</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Exploiting sparseness in <italic>de novo </italic>genome assembly</title><author><name sortKey="Ye, Chengxi" sort="Ye, Chengxi" uniqKey="Ye C" first="Chengxi" last="Ye">Chengxi Ye</name><affiliation><nlm:aff id="I1">Ecology & Evolution of Plant-Animal Interaction Group, Xishuangbanna Tropical Botanic Garden, Chinese Academy of Sciences, Menglun, Yunnan 666303 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 666303 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="I2">Ecology, Conservation, and Environment Center; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation><affiliation wicri:level="4"><nlm:aff id="I3">Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></affiliation></author><author><name sortKey="Ma, Zhanshan Sam" sort="Ma, Zhanshan Sam" uniqKey="Ma Z" first="Zhanshan Sam" last="Ma">Zhanshan Sam Ma</name><affiliation><nlm:aff id="I4">Computational Biology and Medical Ecology Lab; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation></author><author><name sortKey="Cannon, Charles H" sort="Cannon, Charles H" uniqKey="Cannon C" first="Charles H" last="Cannon">Charles H. Cannon</name><affiliation><nlm:aff id="I5">Ecological Evolution Group, Xishuangbanna Tropical Botanic Garden, Chinese Academy of Sciences, Menglun, Yunnan 666303 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 666303 China</wicri:noCountry></affiliation><affiliation wicri:level="2"><nlm:aff id="I6">Department of Biological Sciences, Texas Tech University, Lubbock, TX 79410 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Texas</region></placeName><wicri:cityArea>Department of Biological Sciences, Texas Tech University, Lubbock</wicri:cityArea></affiliation></author><author><name sortKey="Pop, Mihai" sort="Pop, Mihai" uniqKey="Pop M" first="Mihai" last="Pop">Mihai Pop</name><affiliation wicri:level="4"><nlm:aff id="I3">Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Computer Science and Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></affiliation></author><author><name sortKey="Yu, Douglas W" sort="Yu, Douglas W" uniqKey="Yu D" first="Douglas W" last="Yu">Douglas W. Yu</name><affiliation><nlm:aff id="I2">Ecology, Conservation, and Environment Center; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223 China</nlm:aff><wicri:noCountry code="subfield">Yunnan 650223 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="I7">School of Biological Sciences, University of East Anglia, Norwich, Norfolk NR47TJ UK</nlm:aff><wicri:noCountry code="subfield">Norfolk NR47TJ UK</wicri:noCountry></affiliation></author></analytic><series><title level="j">BMC Bioinformatics</title><idno type="eISSN">1471-2105</idno><imprint><date when="2012">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Algorithms</term><term>Computer Storage Devices</term><term>Escherichia coli (genetics)</term><term>Genome</term><term>Genome, Human</term><term>High-Throughput Nucleotide Sequencing</term><term>Humans</term><term>Sequence Analysis, DNA</term><term>Software</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Algorithmes</term><term>Analyse de séquence d'ADN</term><term>Dispositifs mémoires d'ordinateur</term><term>Escherichia coli (génétique)</term><term>Génome</term><term>Génome humain</term><term>Humains</term><term>Logiciel</term><term>Séquençage nucléotidique à haut débit</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Escherichia coli</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Algorithms</term><term>Computer Storage Devices</term><term>Genome</term><term>Genome, Human</term><term>High-Throughput Nucleotide Sequencing</term><term>Humans</term><term>Sequence Analysis, DNA</term><term>Software</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Algorithmes</term><term>Analyse de séquence d'ADN</term><term>Dispositifs mémoires d'ordinateur</term><term>Génome</term><term>Génome humain</term><term>Humains</term><term>Logiciel</term><term>Séquençage nucléotidique à haut débit</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>The very large memory requirements for the construction of assembly graphs for <italic>de novo </italic>genome assembly limit current algorithms to super-computing environments.</p></sec><sec><title>Methods</title><p>In this paper, we demonstrate that constructing a sparse assembly graph which stores only a small fraction of the observed <italic>k-</italic>mers as nodes and the links between these nodes allows the <italic>de novo </italic>assembly of even moderately-sized genomes (~500 M) on a typical laptop computer.</p></sec><sec><title>Results</title><p>We implement this sparse graph concept in a proof-of-principle software package, <italic>SparseAssembler</italic>, utilizing a new sparse <italic>k-</italic>mer graph structure evolved from the <italic>de Bruijn </italic>graph. We test our <italic>SparseAssembler </italic>with both simulated and real data, achieving ~90% memory savings and retaining high assembly accuracy, without sacrificing speed in comparison to existing <italic>de novo </italic>assemblers.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Pop, M" uniqKey="Pop M">M Pop</name></author><author><name sortKey="Salzberg, Sl" uniqKey="Salzberg S">SL Salzberg</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name></author><author><name sortKey="Sutton, Gg" uniqKey="Sutton G">GG Sutton</name></author><author><name sortKey="Delcher, Al" uniqKey="Delcher A">AL Delcher</name></author><author><name sortKey="Dew, Im" uniqKey="Dew I">IM Dew</name></author><author><name sortKey="Fasulo, Dp" uniqKey="Fasulo D">DP Fasulo</name></author><author><name sortKey="Flanigan, Mj" uniqKey="Flanigan M">MJ Flanigan</name></author><author><name sortKey="Kravitz, Sa" uniqKey="Kravitz S">SA Kravitz</name></author><author><name sortKey="Mobarry, Cm" uniqKey="Mobarry C">CM Mobarry</name></author><author><name sortKey="Reinert, Khj" uniqKey="Reinert K">KHJ Reinert</name></author><author><name sortKey="Remington, Ka" uniqKey="Remington K">KA Remington</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Batzoglou, S" uniqKey="Batzoglou S">S Batzoglou</name></author><author><name sortKey="Jaffe, Db" uniqKey="Jaffe D">DB Jaffe</name></author><author><name sortKey="Stanley, K" uniqKey="Stanley K">K Stanley</name></author><author><name sortKey="Butler, J" uniqKey="Butler J">J Butler</name></author><author><name sortKey="Gnerre, S" uniqKey="Gnerre S">S Gnerre</name></author><author><name sortKey="Mauceli, E" uniqKey="Mauceli E">E Mauceli</name></author><author><name sortKey="Berger, B" uniqKey="Berger B">B Berger</name></author><author><name sortKey="Mesirov, Jp" uniqKey="Mesirov J">JP Mesirov</name></author><author><name sortKey="Lander, Es" uniqKey="Lander E">ES Lander</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mullikin, Jc" uniqKey="Mullikin J">JC Mullikin</name></author><author><name sortKey="Ning, Zm" uniqKey="Ning Z">ZM Ning</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Havlak, P" uniqKey="Havlak P">P Havlak</name></author><author><name sortKey="Chen, R" uniqKey="Chen R">R Chen</name></author><author><name sortKey="Durbin, Kj" uniqKey="Durbin K">KJ Durbin</name></author><author><name sortKey="Egan, A" uniqKey="Egan A">A Egan</name></author><author><name sortKey="Ren, Yr" uniqKey="Ren Y">YR Ren</name></author><author><name sortKey="Song, Xz" uniqKey="Song X">XZ Song</name></author><author><name sortKey="Weinstock, Gm" uniqKey="Weinstock G">GM Weinstock</name></author><author><name sortKey="Gibbs, Ra" uniqKey="Gibbs R">RA Gibbs</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Simpson, Jt" uniqKey="Simpson J">JT Simpson</name></author><author><name sortKey="Durbin, R" uniqKey="Durbin R">R Durbin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Birney, E" uniqKey="Birney E">E Birney</name></author><author><name sortKey="Zerbino, Dr" uniqKey="Zerbino D">DR Zerbino</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Birol, I" uniqKey="Birol I">I Birol</name></author><author><name sortKey="Simpson, Jt" uniqKey="Simpson J">JT Simpson</name></author><author><name sortKey="Wong, K" uniqKey="Wong K">K Wong</name></author><author><name sortKey="Jackman, Sd" uniqKey="Jackman S">SD Jackman</name></author><author><name sortKey="Schein, Je" uniqKey="Schein J">JE Schein</name></author><author><name sortKey="Jones, Sjm" uniqKey="Jones S">SJM Jones</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chaisson, M" uniqKey="Chaisson M">M Chaisson</name></author><author><name sortKey="Pevzner, P" uniqKey="Pevzner P">P Pevzner</name></author><author><name sortKey="Tang, Hx" uniqKey="Tang H">HX Tang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gnerre, S" uniqKey="Gnerre S">S Gnerre</name></author><author><name sortKey="Maccallum, I" uniqKey="Maccallum I">I MacCallum</name></author><author><name sortKey="Przybylski, D" uniqKey="Przybylski D">D Przybylski</name></author><author><name sortKey="Ribeiro, Fj" uniqKey="Ribeiro F">FJ Ribeiro</name></author><author><name sortKey="Burton, Jn" uniqKey="Burton J">JN Burton</name></author><author><name sortKey="Walker, Bj" uniqKey="Walker B">BJ Walker</name></author><author><name sortKey="Sharpe, T" uniqKey="Sharpe T">T Sharpe</name></author><author><name sortKey="Hall, G" uniqKey="Hall G">G Hall</name></author><author><name sortKey="Shea, Tp" uniqKey="Shea T">TP Shea</name></author><author><name sortKey="Sykes, S" uniqKey="Sykes S">S Sykes</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Himmelbauer, H" uniqKey="Himmelbauer H">H Himmelbauer</name></author><author><name sortKey="Dohm, Jc" uniqKey="Dohm J">JC Dohm</name></author><author><name sortKey="Lottaz, C" uniqKey="Lottaz C">C Lottaz</name></author><author><name sortKey="Borodina, T" uniqKey="Borodina T">T Borodina</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Li, Rq" uniqKey="Li R">RQ Li</name></author><author><name sortKey="Zhu, Hm" uniqKey="Zhu H">HM Zhu</name></author><author><name sortKey="Ruan, J" uniqKey="Ruan J">J Ruan</name></author><author><name sortKey="Qian, Wb" uniqKey="Qian W">WB Qian</name></author><author><name sortKey="Fang, Xd" uniqKey="Fang X">XD Fang</name></author><author><name sortKey="Shi, Zb" uniqKey="Shi Z">ZB Shi</name></author><author><name sortKey="Li, Yr" uniqKey="Li Y">YR Li</name></author><author><name sortKey="Li, St" uniqKey="Li S">ST Li</name></author><author><name sortKey="Shan, G" uniqKey="Shan G">G Shan</name></author><author><name sortKey="Kristiansen, K" uniqKey="Kristiansen K">K Kristiansen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pevzner, Pa" uniqKey="Pevzner P">PA Pevzner</name></author><author><name sortKey="Tang, Hx" uniqKey="Tang H">HX Tang</name></author><author><name sortKey="Waterman, Ms" uniqKey="Waterman M">MS Waterman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sundquist, A" uniqKey="Sundquist A">A Sundquist</name></author><author><name sortKey="Ronaghi, M" uniqKey="Ronaghi M">M Ronaghi</name></author><author><name sortKey="Tang, Hx" uniqKey="Tang H">HX Tang</name></author><author><name sortKey="Pevzner, P" uniqKey="Pevzner P">P Pevzner</name></author><author><name sortKey="Batzoglou, S" uniqKey="Batzoglou S">S Batzoglou</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Warren, Rl" uniqKey="Warren R">RL Warren</name></author><author><name sortKey="Sutton, Gg" uniqKey="Sutton G">GG Sutton</name></author><author><name sortKey="Jones, Sjm" uniqKey="Jones S">SJM Jones</name></author><author><name sortKey="Holt, Ra" uniqKey="Holt R">RA Holt</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Conway, Tc" uniqKey="Conway T">TC Conway</name></author><author><name sortKey="Bromage, Aj" uniqKey="Bromage A">AJ Bromage</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Marcais, G" uniqKey="Marcais G">G Marcais</name></author><author><name sortKey="Kingsford, C" uniqKey="Kingsford C">C Kingsford</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Melsted, P" uniqKey="Melsted P">P Melsted</name></author><author><name sortKey="Pritchard, Jk" uniqKey="Pritchard J">JK Pritchard</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Roberts, M" uniqKey="Roberts M">M Roberts</name></author><author><name sortKey="Hayes, W" uniqKey="Hayes W">W Hayes</name></author><author><name sortKey="Hunt, Br" uniqKey="Hunt B">BR Hunt</name></author><author><name sortKey="Mount, Sm" uniqKey="Mount S">SM Mount</name></author><author><name sortKey="Yorke, Ja" uniqKey="Yorke J">JA Yorke</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Deng, Hw" uniqKey="Deng H">HW Deng</name></author><author><name sortKey="Lin, Y" uniqKey="Lin Y">Y Lin</name></author><author><name sortKey="Li, J" uniqKey="Li J">J Li</name></author><author><name sortKey="Shen, H" uniqKey="Shen H">H Shen</name></author><author><name sortKey="Zhang, L" uniqKey="Zhang L">L Zhang</name></author><author><name sortKey="Papasian, Cj" uniqKey="Papasian C">CJ Papasian</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Salzberg, Sl" uniqKey="Salzberg S">SL Salzberg</name></author><author><name sortKey="Phillippy, Am" uniqKey="Phillippy A">AM Phillippy</name></author><author><name sortKey="Zimin, Av" uniqKey="Zimin A">AV Zimin</name></author><author><name sortKey="Puiu, D" uniqKey="Puiu D">D Puiu</name></author><author><name sortKey="Magoc, T" uniqKey="Magoc T">T Magoc</name></author><author><name sortKey="Koren, S" uniqKey="Koren S">S Koren</name></author><author><name sortKey="Treangen, T" uniqKey="Treangen T">T Treangen</name></author><author><name sortKey="Schatz, Mc" uniqKey="Schatz M">MC Schatz</name></author><author><name sortKey="Delcher, Al" uniqKey="Delcher A">AL Delcher</name></author><author><name sortKey="Roberts, M" uniqKey="Roberts M">M Roberts</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhang, Wy" uniqKey="Zhang W">WY Zhang</name></author><author><name sortKey="Chen, Jj" uniqKey="Chen J">JJ Chen</name></author><author><name sortKey="Yang, Y" uniqKey="Yang Y">Y Yang</name></author><author><name sortKey="Tang, Yf" uniqKey="Tang Y">YF Tang</name></author><author><name sortKey="Shang, J" uniqKey="Shang J">J Shang</name></author><author><name sortKey="Shen, Br" uniqKey="Shen B">BR Shen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mago, T" uniqKey="Mago T">T Magoč</name></author><author><name sortKey="Salzberg, Sl" uniqKey="Salzberg S">SL Salzberg</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Salzberg, Sl" uniqKey="Salzberg S">SL Salzberg</name></author><author><name sortKey="Kurtz, S" uniqKey="Kurtz S">S Kurtz</name></author><author><name sortKey="Phillippy, A" uniqKey="Phillippy A">A Phillippy</name></author><author><name sortKey="Delcher, Al" uniqKey="Delcher A">AL Delcher</name></author><author><name sortKey="Smoot, M" uniqKey="Smoot M">M Smoot</name></author><author><name sortKey="Shumway, M" uniqKey="Shumway M">M Shumway</name></author><author><name sortKey="Antonescu, C" uniqKey="Antonescu C">C Antonescu</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillippy, Am" uniqKey="Phillippy A">AM Phillippy</name></author><author><name sortKey="Schatz, Mc" uniqKey="Schatz M">MC Schatz</name></author><author><name sortKey="Pop, M" uniqKey="Pop M">M Pop</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Maryland</li><li>Texas</li></region><settlement><li>College Park (Maryland)</li></settlement><orgName><li>Université du Maryland</li></orgName></list><tree><noCountry><name sortKey="Ma, Zhanshan Sam" sort="Ma, Zhanshan Sam" uniqKey="Ma Z" first="Zhanshan Sam" last="Ma">Zhanshan Sam Ma</name><name sortKey="Yu, Douglas W" sort="Yu, Douglas W" uniqKey="Yu D" first="Douglas W" last="Yu">Douglas W. Yu</name></noCountry><country name="États-Unis"><region name="Maryland"><name sortKey="Ye, Chengxi" sort="Ye, Chengxi" uniqKey="Ye C" first="Chengxi" last="Ye">Chengxi Ye</name></region><name sortKey="Cannon, Charles H" sort="Cannon, Charles H" uniqKey="Cannon C" first="Charles H" last="Cannon">Charles H. Cannon</name><name sortKey="Pop, Mihai" sort="Pop, Mihai" uniqKey="Pop M" first="Mihai" last="Pop">Mihai Pop</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002256 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 002256 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= MersV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= PMC:3369186
|texte= Exploiting sparseness in de novo genome assembly
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:22537038" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a MersV1
| This area was generated with Dilib version V0.6.33. |  |