Matches in SemOpenAlex for { <https://semopenalex.org/work/W2012203120> ?p ?o ?g. }
Showing items 1 to 79 of
79
with 100 items per page.
- W2012203120 abstract "Abstract New sequencing technologies make it possible to achieve genome sequence fast and cheap. Since the assembly step of such next generation reads is still not well standardized it is the most cumbersome part of sequencing projects.We present here approaches undertaken on the way to the draft assembly the cucumber (Cucumis sativus L. cv. Borszczagowski) genome done with the use of 8x unpaired and 4x paired (3 Kbp) pyrosequenced 454 XLR Titanium reads, together BAC library ends fragments (12,7x physical coverage). Two different assembly approaches, namely Celera and Celera/Arachne were finally used. The Celera result was 15’196 contigs of 197 Mbp length and N50 27’086 bp and 4’157 scaffolds of 224 Mbp length and N50 2’324 Kbp. In the Celera/Arachne method contigs after prior pyrosequencing reads assembly (in the form of ~ 800 nt reads) were used together with the STCs as the input to Arachne assembler. Number of contigs were 15’764 of the length 193 Mbp with N50 23’280 bp. Number of supercontigs were 12’438 with the coverage of 323 Mbp and N50 323’092 bp. Correctness of the assemblies were proven after mapping 95,56% of 63’035 cucumber unigenes with the average identity 97,81%. Additionally 6 BAC/Fosmid cucumber sequences (totally 372’277 bp) had identity of 97,61% to the assembled genome. Average reads coverage of the genome were 14,20x and 98% of the assembled genome had reads coverage higher than 3x.Taking into consideration coverage used in already reported cucumber assemblies (32x by Miller J. et al., 2009 and 72x by Huang S. et al., 2009), as well as no differences in the quality and the best overall quantity statistics of contigs/scaffold lengths, the Celera approach used in this project should be considered the most optimal one to get omics-ready quality draft sequence of highly repeated eukaryotic genome." @default.
- W2012203120 created "2016-06-24" @default.
- W2012203120 creator A5003428179 @default.
- W2012203120 creator A5004387120 @default.
- W2012203120 creator A5014756921 @default.
- W2012203120 creator A5014862043 @default.
- W2012203120 creator A5017108499 @default.
- W2012203120 creator A5024230599 @default.
- W2012203120 creator A5027162553 @default.
- W2012203120 creator A5033729108 @default.
- W2012203120 creator A5037292479 @default.
- W2012203120 creator A5038532156 @default.
- W2012203120 creator A5067200047 @default.
- W2012203120 creator A5075273190 @default.
- W2012203120 date "2011-01-04" @default.
- W2012203120 modified "2023-10-16" @default.
- W2012203120 title "12x coverage 454/Sanger Hybrid Assembly of Cucumber (Cucumis sativus L. cv.Borszczagovski) genome - the most efficient way to begin post genomic era" @default.
- W2012203120 doi "https://doi.org/10.1038/npre.2010.5466.1" @default.
- W2012203120 hasPublicationYear "2011" @default.
- W2012203120 type Work @default.
- W2012203120 sameAs 2012203120 @default.
- W2012203120 citedByCount "0" @default.
- W2012203120 crossrefType "journal-article" @default.
- W2012203120 hasAuthorship W2012203120A5003428179 @default.
- W2012203120 hasAuthorship W2012203120A5004387120 @default.
- W2012203120 hasAuthorship W2012203120A5014756921 @default.
- W2012203120 hasAuthorship W2012203120A5014862043 @default.
- W2012203120 hasAuthorship W2012203120A5017108499 @default.
- W2012203120 hasAuthorship W2012203120A5024230599 @default.
- W2012203120 hasAuthorship W2012203120A5027162553 @default.
- W2012203120 hasAuthorship W2012203120A5033729108 @default.
- W2012203120 hasAuthorship W2012203120A5037292479 @default.
- W2012203120 hasAuthorship W2012203120A5038532156 @default.
- W2012203120 hasAuthorship W2012203120A5067200047 @default.
- W2012203120 hasAuthorship W2012203120A5075273190 @default.
- W2012203120 hasBestOaLocation W20122031201 @default.
- W2012203120 hasConcept C104317684 @default.
- W2012203120 hasConcept C126513998 @default.
- W2012203120 hasConcept C141231307 @default.
- W2012203120 hasConcept C150194340 @default.
- W2012203120 hasConcept C162317418 @default.
- W2012203120 hasConcept C18949551 @default.
- W2012203120 hasConcept C51679486 @default.
- W2012203120 hasConcept C54355233 @default.
- W2012203120 hasConcept C59582021 @default.
- W2012203120 hasConcept C61271108 @default.
- W2012203120 hasConcept C70721500 @default.
- W2012203120 hasConcept C76818968 @default.
- W2012203120 hasConcept C86803240 @default.
- W2012203120 hasConceptScore W2012203120C104317684 @default.
- W2012203120 hasConceptScore W2012203120C126513998 @default.
- W2012203120 hasConceptScore W2012203120C141231307 @default.
- W2012203120 hasConceptScore W2012203120C150194340 @default.
- W2012203120 hasConceptScore W2012203120C162317418 @default.
- W2012203120 hasConceptScore W2012203120C18949551 @default.
- W2012203120 hasConceptScore W2012203120C51679486 @default.
- W2012203120 hasConceptScore W2012203120C54355233 @default.
- W2012203120 hasConceptScore W2012203120C59582021 @default.
- W2012203120 hasConceptScore W2012203120C61271108 @default.
- W2012203120 hasConceptScore W2012203120C70721500 @default.
- W2012203120 hasConceptScore W2012203120C76818968 @default.
- W2012203120 hasConceptScore W2012203120C86803240 @default.
- W2012203120 hasLocation W20122031201 @default.
- W2012203120 hasOpenAccess W2012203120 @default.
- W2012203120 hasPrimaryLocation W20122031201 @default.
- W2012203120 hasRelatedWork W138482212 @default.
- W2012203120 hasRelatedWork W2039698801 @default.
- W2012203120 hasRelatedWork W2925048800 @default.
- W2012203120 hasRelatedWork W2951181326 @default.
- W2012203120 hasRelatedWork W3043339940 @default.
- W2012203120 hasRelatedWork W3121387483 @default.
- W2012203120 hasRelatedWork W3124129973 @default.
- W2012203120 hasRelatedWork W3139165022 @default.
- W2012203120 hasRelatedWork W3167837387 @default.
- W2012203120 hasRelatedWork W3169504596 @default.
- W2012203120 isParatext "false" @default.
- W2012203120 isRetracted "false" @default.
- W2012203120 magId "2012203120" @default.
- W2012203120 workType "article" @default.