-
1
-
-
84956970756
-
The enhanced suffix array and its applications to genome analysis
-
Springer, New York
-
Abouelhoda,M. (2002) The enhanced suffix array and its applications to genome analysis. In Proceedings of the Second Workshop on Algorithms in Bioinformatics, Vol. 2452 of Lecture Notes in Computer Science, Springer, New York, pp. 449-463.
-
(2002)
Proceedings of the Second Workshop on Algorithms in Bioinformatics, of Lecture Notes in Computer Science
, vol.2452
, pp. 449-463
-
-
Abouelhoda, M.1
-
2
-
-
0024988375
-
Protein database searches for multiple alignments
-
Altschul,S.F. and Lipman,D.J. (1990) Protein database searches for multiple alignments. Proc. Natl Acad. Sci. USA 87, 5509-5513.
-
(1990)
Proc. Natl Acad. Sci. USA
, vol.87
, pp. 5509-5513
-
-
Altschul, S.F.1
Lipman, D.J.2
-
3
-
-
75449094838
-
Sequences and consequences
-
Brenner,S. (2010) Sequences and consequences. Phil. Trans. R. Soc. B, 365, 207-212.
-
(2010)
Phil. Trans. R. Soc. B
, vol.365
, pp. 207-212
-
-
Brenner, S.1
-
4
-
-
28944454501
-
DNAassembly with gaps (Dawg): simulating sequence evolution
-
Cartwright,R. (2005) DNAassembly with gaps (Dawg): simulating sequence evolution. Bioinformatics, 21 (Suppl. 3), iii31-iii38.
-
(2005)
Bioinformatics
, vol.21
, Issue.SUPPL. 3
-
-
Cartwright, R.1
-
5
-
-
34249027580
-
Inference of bacterial microevolution using multilocus sequence data
-
Didelot,X. and Falush,D. (2007) Inference of bacterial microevolution using multilocus sequence data. Genetics, 175, 1251-1266.
-
(2007)
Genetics
, vol.175
, pp. 1251-1266
-
-
Didelot, X.1
Falush, D.2
-
6
-
-
79251573854
-
Inference of homologous recombination in bacteria using whole genome sequences
-
Didelot,X. et al. (2010) Inference of homologous recombination in bacteria using whole genome sequences. Genetics, 186, 1435-1449.
-
(2010)
Genetics
, vol.186
, pp. 1435-1449
-
-
Didelot, X.1
-
7
-
-
75849146491
-
Efficient estimation of pairwise distances between genomes
-
Domazet-Lošo,M. and Haubold,B. (2009) Efficient estimation of pairwise distances between genomes. Bioinformatics, 25, 3221-3227.
-
(2009)
Bioinformatics
, vol.25
, pp. 3221-3227
-
-
Domazet-Lošo, M.1
Haubold, B.2
-
8
-
-
0000122573
-
PHYLIP - phylogeny inference package (Version 3.2)
-
Felsenstein,J. (1989) PHYLIP - phylogeny inference package (Version 3.2). Cladistics, 5, 164-166.
-
(1989)
Cladistics
, vol.5
, pp. 164-166
-
-
Felsenstein, J.1
-
9
-
-
84979917497
-
Compressed text indexes: from theory to practice
-
Ferragina,P. et al. (2008) Compressed text indexes: from theory to practice. ACMJ.Exp. Algorithmics, 13, 1.12:1-1.12:31.
-
(2008)
ACMJ.Exp. Algorithmics
, vol.13
-
-
Ferragina, P.1
-
10
-
-
79951527464
-
Alignment-free estimation of nucleotide diversity
-
Haubold,B. (2011) Alignment-free estimation of nucleotide diversity. Bioinformatics, 17, 449-455.
-
(2011)
Bioinformatics
, vol.17
, pp. 449-455
-
-
Haubold, B.1
-
12
-
-
25444513996
-
Genome comparison without alignment using shortest unique substrings
-
Haubold,B. et al. (2005) Genome comparison without alignment using shortest unique substrings. BMC Bioinformatics, 6, 123.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 123
-
-
Haubold, B.1
-
13
-
-
70349789710
-
Estimating mutation distances from unaligned genomes
-
Haubold,B. et al. (2009) Estimating mutation distances from unaligned genomes. J. Comput. Biol., 16, 1487-1500.
-
(2009)
J. Comput. Biol.
, vol.16
, pp. 1487-1500
-
-
Haubold, B.1
-
14
-
-
34247846229
-
The genome sequence of avian pathogenic Escherichia coli strain O1:K1:H7 shares strong similarities with human extraintestinal pathogenic E.coli genomes
-
Johnson,T. et al. (2007) The genome sequence of avian pathogenic Escherichia coli strain O1:K1:H7 shares strong similarities with human extraintestinal pathogenic E.coli genomes. J. Bacteriol., 189, 3228-3236.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 3228-3236
-
-
Johnson, T.1
-
15
-
-
73449085165
-
An evolutionary model-based algorithm for accurate phylogenetic breakpoint mapping and subtype prediction in HIV-1
-
Kosakovsky Pond,S.L. et al. (2009) An evolutionary model-based algorithm for accurate phylogenetic breakpoint mapping and subtype prediction in HIV-1. PLoS Comput. Biol., 5, e1000581.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Kosakovsky Pond, S.L.1
-
16
-
-
77951115860
-
Detecting genomic islands using bioinformatics approaches
-
Langille,M.G.I. (2010) Detecting genomic islands using bioinformatics approaches.Nat. Rev. Microbiol., 8, 373-382.
-
(2010)
Nat. Rev. Microbiol.
, vol.8
, pp. 373-382
-
-
Langille, M.G.I.1
-
17
-
-
25144458435
-
-
Technical Report LA-UR 06-0680, Theoretical Biology and Biophysics Group, Los Alamos National Laboratory, NM
-
Leitner,T. et al. (2005) HIV sequence compendium. Technical Report LA-UR 06-0680, Theoretical Biology and Biophysics Group, Los Alamos National Laboratory, NM.
-
(2005)
HIV sequence compendium
-
-
Leitner, T.1
-
18
-
-
77953537274
-
A multiplex PCR method to detect 14 Escherichia coli serogroups associated with urinary tract infectcions
-
Li,D. et al. (2010) A multiplex PCR method to detect 14 Escherichia coli serogroups associated with urinary tract infectcions. J. Microbiol. Methods, 82, 71-77.
-
(2010)
J. Microbiol. Methods
, vol.82
, pp. 71-77
-
-
Li, D.1
-
19
-
-
84938081427
-
Engineering a lightweight suffix array construction algorithm
-
Springer, London, UK
-
Manzini,G. and Ferragina,P. (2002) Engineering a lightweight suffix array construction algorithm. In ESA '02: Proceedings of the 10th Annual European Symposium on Algorithms. Springer, London, UK, pp. 698-710.
-
(2002)
ESA '02: Proceedings of the 10th Annual European Symposium on Algorithms
, pp. 698-710
-
-
Manzini, G.1
Ferragina, P.2
-
20
-
-
0026025364
-
Localized sex in bacteria
-
Maynard Smith,J. et al. (1991) Localized sex in bacteria. Nature, 349, 29-31.
-
(1991)
Nature
, vol.349
, pp. 29-31
-
-
Maynard Smith, J.1
-
21
-
-
0025133386
-
Molecular evolution of the Escherichia coli chromosome. III. Clonal frames
-
Milkman,R. and McKane Bridges,M. (1990) Molecular evolution of the Escherichia coli chromosome. III. Clonal frames. Genetics, 126, 505-517.
-
(1990)
Genetics
, vol.126
, pp. 505-517
-
-
Milkman, R.1
McKane Bridges, M.2
-
22
-
-
0014757386
-
Ageneral method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman,S.B. and Wunsch,C.D. (1970)Ageneral method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol., 48, 443-453.
-
(1970)
J. Mol. Biol.
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
23
-
-
34147144193
-
A taxonomy of suffix array construction algorithms
-
Puglisi,S.J. et al. (2007) A taxonomy of suffix array construction algorithms. ACM Comput. Surv., 39,4.
-
(2007)
ACM Comput. Surv.
, vol.39
, pp. 4
-
-
Puglisi, S.J.1
-
24
-
-
75149164526
-
Alignment-free sequence comparison (i): statistics and power
-
Reinert,G. et al. (2009) Alignment-free sequence comparison (i): statistics and power. J. Comput. Biol., 16, 1615-1634.
-
(2009)
J. Comput. Biol.
, vol.16
, pp. 1615-1634
-
-
Reinert, G.1
-
25
-
-
3142681466
-
Aweb-based genotyping resource for viral sequences
-
Rozanov,M. et al. (2004)Aweb-based genotyping resource for viral sequences. Nucleic Acids Res., 32, W654-W659.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Rozanov, M.1
-
26
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith,T.F. and Waterman,M.S. (1981) Identification of common molecular subsequences. J. Mol. Biol., 147, 195-197.
-
(1981)
J. Mol. Biol.
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
27
-
-
25444524604
-
Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial 'pan-genome'
-
Tettelin,H. et al. (2005) Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial 'pan-genome'. Proc. Natl Acad. Sci. USA, 102, 13950-13955.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 13950-13955
-
-
Tettelin, H.1
-
28
-
-
0037342499
-
Alignment-free sequence comparison-a review
-
Vinga,S. and Almeida,J. (2003) Alignment-free sequence comparison-a review. Bioinformatics, 19, 513-523.
-
(2003)
Bioinformatics
, vol.19
, pp. 513-523
-
-
Vinga, S.1
Almeida, J.2
-
29
-
-
63549098393
-
Accurate detection of recombinant breakpoints in whole-genome alignments
-
Westesson,O. and Holmes,I. (2009) Accurate detection of recombinant breakpoints in whole-genome alignments. PLoS Comput. Biol., 5, e1000318-e1000318.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Westesson, O.1
Holmes, I.2
-
30
-
-
34547886848
-
Nucleotide composition string selection in HIV-1 subtyping using whole genomes
-
Wu,X. et al. (2007) Nucleotide composition string selection in HIV-1 subtyping using whole genomes. Bioinformatics, 23, 1744-1752.
-
(2007)
Bioinformatics
, vol.23
, pp. 1744-1752
-
-
Wu, X.1
|