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Volumn 30, Issue 24, 2014, Pages 3524-3531

Merging of multi-string BWTs with applications

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ANIMAL; GENOMICS; HIGH THROUGHPUT SEQUENCING; INFORMATION PROCESSING; MOUSE; PROCEDURES; SEQUENCE ALIGNMENT;

EID: 84922709802     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btu584     Document Type: Article
Times cited : (43)

References (26)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul, S. F. et al. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
    • (1990) J. Mol. Biol. , vol.215 , pp. 403-410
    • Altschul, S.F.1
  • 2
    • 79960099867 scopus 로고    scopus 로고
    • Lightweight BWT Construction for Very Large String Collections
    • Bauer, M. et al. (2011) Lightweight BWT Construction for Very Large String Collections. Comb. Pattern Matching, 6661, 219-231.
    • (2011) Comb. Pattern Matching , vol.6661 , pp. 219-231
    • Bauer, M.1
  • 3
    • 84876410333 scopus 로고    scopus 로고
    • Lightweight algorithms for constructing and inverting the BWT of string collections
    • Bauer, MJ. et al. (2013) Lightweight algorithms for constructing and inverting the BWT of string collections. Theor. Comput. Sci., 483, 134-148.
    • (2013) Theor. Comput. Sci. , vol.483 , pp. 134-148
    • Bauer, M.J.1
  • 5
    • 43149086380 scopus 로고    scopus 로고
    • ALLPATHS: De novo assembly of whole-genome shotgun microreads
    • Butler, J. et al. (2008) ALLPATHS: de novo assembly of whole-genome shotgun microreads. Genome Res., 18, 810820.
    • (2008) Genome Res. , vol.18 , pp. 810820
    • Butler, J.1
  • 6
    • 84861760100 scopus 로고    scopus 로고
    • Large-scale compression of genomic sequence databases with the burrows-wheeler transform
    • Cox, A. et al. (2012a) Large-scale compression of genomic sequence databases with the burrows-wheeler transform. Bioinformatics, 28, 1415-1419.
    • (2012) Bioinformatics , vol.28 , pp. 1415-1419
    • Cox, A.1
  • 7
    • 84866722538 scopus 로고    scopus 로고
    • Comparing DNA sequence collections by direct comparison of compressed text indexes
    • Springer Berlin, Heidelberg
    • Cox, A. et al. (2012b) Comparing DNA sequence collections by direct comparison of compressed text indexes. In: Algorithms in Bioinformatics. Springer Berlin, Heidelberg, pp. 214-224.
    • (2012) Algorithms in Bioinformatics , pp. 214-224
    • Cox, A.1
  • 8
    • 84942303205 scopus 로고    scopus 로고
    • Lightweight data indexing and compression in external memory
    • Ferragina, P. et al. (2012) Lightweight data indexing and compression in external memory. Algorithmica, 63, 707-730.
    • (2012) Algorithmica , vol.63 , pp. 707-730
    • Ferragina, P.1
  • 10
    • 84891350227 scopus 로고    scopus 로고
    • Adaptive reference-free compression of sequence quality scores
    • Janin, L. et al. (2014) Adaptive reference-free compression of sequence quality scores. Bioinformatics, 30, 24-30.
    • (2014) Bioinformatics , vol.30 , pp. 24-30
    • Janin, L.1
  • 11
    • 79951493627 scopus 로고    scopus 로고
    • On the future of genomic data
    • Kahn, S. (2011) On the future of genomic data. Science (Washington), 331, 728-729.
    • (2011) Science (Washington) , vol.331 , pp. 728-729
    • Kahn, S.1
  • 12
    • 0036226603 scopus 로고    scopus 로고
    • BLAT - The BLAST-like alignment tool
    • Kent, W. J. (2002) BLAT-the BLAST-like alignment tool. Genome Res., 12, 656-664.
    • (2002) Genome Res. , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 14
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B. et al. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol., 10, R25.
    • (2009) Genome Biol. , vol.10 , pp. R25
    • Langmead, B.1
  • 15
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with burrowswheeler transform
    • Li, H. and Durbin, R. (2009) Fast and accurate short read alignment with burrowswheeler transform. Bioinformatics, 25, 1754-1760.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 16
    • 84863702145 scopus 로고    scopus 로고
    • Compressive genomics
    • Loh, P. R. et al. (2012) Compressive genomics. Nat. Biotechnol., 30, 627-630.
    • (2012) Nat. Biotechnol. , vol.30 , pp. 627-630
    • Loh, P.R.1
  • 17
    • 26444516518 scopus 로고    scopus 로고
    • An extension of the burrows wheeler transform and applications to sequence comparison and data expression
    • Mantaci, S. et al. (2005) An extension of the burrows wheeler transform and applications to sequence comparison and data expression. Comb. Pattern Matching, 3537, 178-189.
    • (2005) Comb. Pattern Matching , vol.3537 , pp. 178-189
    • Mantaci, S.1
  • 18
    • 0035859921 scopus 로고    scopus 로고
    • An eulerian path approach to DNA fragment assembly
    • Pevzner, P. et al. (2001) An Eulerian path approach to DNA fragment assembly. Proc. Natl Acad. Sci. USA, 98, 9748-9753.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 9748-9753
    • Pevzner, P.1
  • 19
    • 53849104729 scopus 로고    scopus 로고
    • The pangenome structure of Escherichia coli: Comparative genomic analysis of E. Coli commensal and pathogenic isolates
    • Rasko, D. A. et al. (2008) The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates. J. Bacteriol., 190, 6881-6893.
    • (2008) J. Bacteriol. , vol.190 , pp. 6881-6893
    • Rasko, D.A.1
  • 20
    • 84890565382 scopus 로고    scopus 로고
    • The role of replicates for error mitigation in next-generation sequencing
    • Robasky, K. et al. (2014) The role of replicates for error mitigation in next-generation sequencing. Nat. Rev. Genet., 15, 56-62.
    • (2014) Nat. Rev. Genet. , vol.15 , pp. 56-62
    • Robasky, K.1
  • 21
    • 84884410315 scopus 로고    scopus 로고
    • Using cascading Bloom filters to improve the memory usage for de Brujin graphs
    • Springer Berlin, Heidelberg
    • Salikhov, K. et al. (2013) Using cascading Bloom filters to improve the memory usage for de Brujin graphs. In: Algorithms in Bioinformatics. Springer Berlin, Heidelberg, pp. 364-376.
    • (2013) Algorithms in Bioinformatics , pp. 364-376
    • Salikhov, K.1
  • 22
    • 77954238055 scopus 로고    scopus 로고
    • Efficient construction of an assembly string graph using the FM-index
    • Simpson, J. T. and Durbin, R (2010) Efficient construction of an assembly string graph using the FM-index. Bioinformatics, 26, i367-i373.
    • (2010) Bioinformatics , vol.26 , pp. i367-i373
    • Simpson, J.T.1    Durbin, R.2
  • 23
    • 84857838310 scopus 로고    scopus 로고
    • Efficient de novo assembly of large genomes using compressed data structures
    • Simpson, J. T. and Durbin, R. (2012) Efficient de novo assembly of large genomes using compressed data structures. Genome Res., 22, 549-556.
    • (2012) Genome Res. , vol.22 , pp. 549-556
    • Simpson, J.T.1    Durbin, R.2
  • 24
    • 66449136667 scopus 로고    scopus 로고
    • ABySS: A parallel assembler for short read sequence data
    • Simpson, J. T. et al. (2009) ABySS: a parallel assembler for short read sequence data. Genome Res., 19, 1117-1123.
    • (2009) Genome Res. , vol.19 , pp. 1117-1123
    • Simpson, J.T.1
  • 25
    • 70350648829 scopus 로고    scopus 로고
    • Compressed suffix arrays for massive data
    • Springer, Berlin Heidelberg
    • Sirén J. (2009) Compressed suffix arrays for massive data. In: String Processing and Information Retrieval. Springer, Berlin Heidelberg, pp. 63-74.
    • (2009) String Processing and Information Retrieval , pp. 63-74
    • Sirén, J.1
  • 26
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de bruijn graphs
    • Zerbino, D. and Birney, E. (2008) Velvet: algorithms for de novo short read assembly using de bruijn graphs. Genome Res., 18, 821-829.
    • (2008) Genome Res. , vol.18 , pp. 821-829
    • Zerbino, D.1    Birney, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.