-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S.F. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
-
2
-
-
0037172403
-
Genome and virulence determinants of high virulence community-acquired MRSA
-
Baba, T. et al. (2002) Genome and virulence determinants of high virulence community-acquired MRSA. Lancet, 359, 1819-1827.
-
(2002)
Lancet
, vol.359
, pp. 1819-1827
-
-
Baba, T.1
-
3
-
-
84862591603
-
Toward almost closed genomes with GapFiller
-
Boetzer, M. and Pirovano, W. (2012) Toward almost closed genomes with GapFiller. Genome Biol., 13, R56.
-
(2012)
Genome Biol.
, vol.13
-
-
Boetzer, M.1
Pirovano, W.2
-
4
-
-
78349238864
-
Ray: Simultaneous assembly of reads from a mix of high-throughput sequencing technologies
-
Boisvert, S. et al. (2010) Ray: simultaneous assembly of reads from a mix of high-throughput sequencing technologies. J. Comput. Biol., 17, 1519-1533.
-
(2010)
J. Comput. Biol.
, vol.17
, pp. 1519-1533
-
-
Boisvert, S.1
-
5
-
-
84866440990
-
Telescoper: De novo assembly of highly repetitive regions
-
Bresler, M. et al. (2012) Telescoper: de novo assembly of highly repetitive regions. Bioinformatics., 28, i311-i317.
-
(2012)
Bioinformatics.
, vol.28
-
-
Bresler, M.1
-
6
-
-
43149086380
-
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, 810-820.
-
(2008)
Genome Res.
, vol.18
, pp. 810-820
-
-
Butler, J.1
-
7
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
Gnerre, S. et al. (2011) High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc. Natl Acad. Sci. USA, 108, 1513-1518.
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 1513-1518
-
-
Gnerre, S.1
-
8
-
-
0032524384
-
Analyzing genomes with cumulative skew diagrams
-
Grigoriev, A. (1998) Analyzing genomes with cumulative skew diagrams. Nucleic Acids Res., 26, 2286-2290.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 2286-2290
-
-
Grigoriev, A.1
-
9
-
-
84876266928
-
QUAST: Quality assessment tool for genome assemblies
-
Gurevich, A. et al. (2013) QUAST: quality assessment tool for genome assemblies. Bioinformatics, 29, 1072-1075.
-
(2013)
Bioinformatics
, vol.29
, pp. 1072-1075
-
-
Gurevich, A.1
-
10
-
-
43149085041
-
De novo bacterial genome sequencing: Millions of very short reads assembled on a desktop computer
-
Hernandez, D. et al. (2008) De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer. Genome Res., 18, 802-809.
-
(2008)
Genome Res.
, vol.18
, pp. 802-809
-
-
Hernandez, D.1
-
11
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski, M. et al. (2009) Circos: an information aesthetic for comparative genomics. Genome Res., 19, 1639-1645.
-
(2009)
Genome Res.
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
-
12
-
-
0035925904
-
Whole genome sequencing of meticillin-resistant Staphylococcus aureus
-
Kuroda, M. et al. (2001) Whole genome sequencing of meticillin-resistant Staphylococcus aureus. Lancet, 357, 1225-1240.
-
(2001)
Lancet
, vol.357
, pp. 1225-1240
-
-
Kuroda, M.1
-
13
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz, S. et al. (2004) Versatile and open software for comparing large genomes. Genome Biol., 5, R12.
-
(2004)
Genome Biol.
, vol.5
-
-
Kurtz, S.1
-
14
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li, H. and Durbin, R. (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics., 25, 1754-1760.
-
(2009)
Bioinformatics.
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
15
-
-
68549104404
-
The sequence alignment/Map format and SAMtools
-
Li, H. et al. (2009) The sequence alignment/Map format and SAMtools. Bioinformatics, 25, 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
16
-
-
75649124547
-
De novo assembly of human genomes with massively parallel short read sequencing
-
Li, R. et al. (2010) De novo assembly of human genomes with massively parallel short read sequencing. Genome Res., 20, 265-272.
-
(2010)
Genome Res.
, vol.20
, pp. 265-272
-
-
Li, R.1
-
17
-
-
27544497879
-
The fragment assembly string graph
-
Myers, E.W. (2005) The fragment assembly string graph. Bioinformatics, 21 (Suppl. 2), ii79-ii85.
-
(2005)
Bioinformatics
, vol.21
, Issue.SUPPL. 2
-
-
Myers, E.W.1
-
18
-
-
0035232164
-
Fragment assembly with double-barreled data
-
Pevzner, P.A. and Tang, H. (2001) Fragment assembly with double-barreled data. Bioinformatics, 17 (Suppl. 1), S225-S233.
-
(2001)
Bioinformatics
, vol.17
, Issue.SUPPL. 1
-
-
Pevzner, P.A.1
Tang, H.2
-
19
-
-
0035859921
-
An Eulerian path approach to DNA fragment assembly
-
Pevzner, P.A. 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.A.1
-
20
-
-
4644275238
-
De novo repeat classification and fragment assembly
-
Pevzner, P.A. et al. (2004) De novo repeat classification and fragment assembly. Genome Res., 14, 1786-1796.
-
(2004)
Genome Res.
, vol.14
, pp. 1786-1796
-
-
Pevzner, P.A.1
-
21
-
-
67449095888
-
Genome assembly reborn: Recent computational challenges
-
Pop, M. (2009) Genome assembly reborn: recent computational challenges. Brief Bioinform., 10, 354-366.
-
(2009)
Brief Bioinform.
, vol.10
, pp. 354-366
-
-
Pop, M.1
-
22
-
-
84868327508
-
Finished bacterial genomes from shotgun sequence data
-
Ribeiro, F. et al. (2012) Finished bacterial genomes from shotgun sequence data. Genome Res., 22, 2270-2277.
-
(2012)
Genome Res.
, vol.22
, pp. 2270-2277
-
-
Ribeiro, F.1
-
23
-
-
66449136667
-
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
-
24
-
-
24044447664
-
Automated generation of heuristics for biological sequence comparison
-
Slater, G.S. and Birney, E. (2005) Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics, 6, 31.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 31
-
-
Slater, G.S.1
Birney, E.2
-
25
-
-
77950658346
-
Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps
-
Tsai, I.J. et al. (2010) Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps. Genome Biol., 11, R41.
-
(2010)
Genome Biol.
, vol.11
-
-
Tsai, I.J.1
-
26
-
-
84865022311
-
Primer3-new capabilities and interfaces
-
Untergasser, A. et al. (2012) Primer3-new capabilities and interfaces. Nucleic Acids Res., 40, e115.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Untergasser, A.1
-
27
-
-
79953854485
-
Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies
-
Wetzel, J. et al. (2011) Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies. BMC Bioinformatics, 12, 95.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 95
-
-
Wetzel, J.1
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