-
1
-
-
0034980876
-
Ecological fitness, genomic islands and bacterial pathogenicity. A Darwinian view of the evolution of microbes
-
Hacker J, Carniel E: Ecological fitness, genomic islands and bacterial pathogenicity. A Darwinian view of the evolution of microbes. EMBO Rep 2000, 2(5):376-81.
-
(2000)
EMBO Rep
, vol.2
, Issue.5
, pp. 376-381
-
-
Hacker, J.1
Carniel, E.2
-
2
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman S, Wunsch C: A general method applicable to the search for similarities in the amino acid sequence of two proteins. J Mol Biol 1970, 48:443-453.
-
(1970)
J Mol Biol
, vol.48
, pp. 443-453
-
-
Needleman, S.1
Wunsch, C.2
-
3
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith T, Waterman M: Identification of common molecular subsequences. J Mol Biol 1981, 147:195-197.
-
(1981)
J Mol Biol
, vol.147
, pp. 195-197
-
-
Smith, T.1
Waterman, M.2
-
4
-
-
0033153375
-
Alignment of whole genomes
-
Delcher AL, Kasif S, Fleischmann RD, Peterson J, White O, Salzberg SL: Alignment of whole genomes. Nucleic Acids Res 1999, 27(11):2369-2376.
-
(1999)
Nucleic Acids Res
, vol.27
, Issue.11
, pp. 2369-2376
-
-
Delcher, A.L.1
Kasif, S.2
Fleischmann, R.D.3
Peterson, J.4
White, O.5
Salzberg, S.L.6
-
5
-
-
0033832676
-
Conservation, Regulation, Synteny, and Introns in a Large-scale C. briggsae-C. elegans Genomic Alignment
-
Kent WJ, Zahler AM: Conservation, Regulation, Synteny, and Introns in a Large-scale C. briggsae-C. elegans Genomic Alignment. Genome Res 2000, 10(8):1115-25.
-
(2000)
Genome Res
, vol.10
, Issue.8
, pp. 1115-1125
-
-
Kent, W.J.1
Zahler, A.M.2
-
6
-
-
0037270315
-
AVID: A Global Alignment Program
-
Bray N, Dubchak I, Pachter L: AVID: A Global Alignment Program. Genome Res 2003, 13(1):97-102.
-
(2003)
Genome Res
, vol.13
, Issue.1
, pp. 97-102
-
-
Bray, N.1
Dubchak, I.2
Pachter, L.3
-
7
-
-
3543051830
-
Mauve: Multiple Alignment of Conserved Genomic Sequence with Rearrangements
-
Darling ACE, Mau B, Frederick RB, Perna NT: Mauve: Multiple Alignment of Conserved Genomic Sequence with Rearrangements. Genome Research 2004, 14(7):1394-1403.
-
(2004)
Genome Research
, vol.14
, Issue.7
, pp. 1394-1403
-
-
Darling, A.C.E.1
Mau, B.2
Frederick, R.B.3
Perna, N.T.4
-
8
-
-
24044433279
-
ACT: The Artemis Comparison Tool
-
Carver TJ, Rutherford KM, Berriman M, Rajandream MA, Barrell BG, Parkhill J: ACT: the Artemis Comparison Tool. Bioinformatics 2005, 21(16):3422-3.
-
(2005)
Bioinformatics
, vol.21
, Issue.16
, pp. 3422-3423
-
-
Carver, T.J.1
Rutherford, K.M.2
Berriman, M.3
Rajandream, M.A.4
Barrell, B.G.5
Parkhill, J.6
-
9
-
-
0030990949
-
A tool for aligning very similar DNA sequences
-
Chao KM, Zhang J, Ostell J, Miller W: A tool for aligning very similar DNA sequences. Comput Appl Biosci 1997, 13(1):75-80.
-
(1997)
Comput Appl Biosci
, vol.13
, Issue.1
, pp. 75-80
-
-
Chao, K.M.1
Zhang, J.2
Ostell, J.3
Miller, W.4
-
10
-
-
0037398368
-
Efficient tools for large-scale multiple alignment of genomic DNA
-
ISC Comparative Sequencing Program, reen ED, Sidow A, Batzoglou S: LAGAN and multi-LAGAN
-
Brudno M, Do CB, Cooper GM, Kim MF, Davydov E, ISC Comparative Sequencing Program, reen ED, Sidow A, Batzoglou S: LAGAN and multi-LAGAN: Efficient tools for large-scale multiple alignment of genomic DNA. Genome Res 2003, 13:721-31.
-
(2003)
Genome Res
, vol.13
, pp. 721-731
-
-
Brudno, M.1
Do, C.B.2
Cooper, G.M.3
Kim, M.F.4
Davydov, E.5
-
11
-
-
4944262040
-
Global alignment: Finding rearrangements during alignment
-
Brudno M, Malde S, Poliakov A, Do CB, Couronne O, Dubchak I, Batzoglou S: Global alignment: Finding rearrangements during alignment. Bioinformatics 2003, 19(suppl 1):i54-62.
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Brudno, M.1
Malde, S.2
Poliakov, A.3
Do, C.B.4
Couronne, O.5
Dubchak, I.6
Batzoglou, S.7
-
12
-
-
0042490659
-
MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences
-
NISC Comparative Sequencing Program, Green ED, Hardison RC, Miller W
-
Schwartz S, Elnitski L, Li M, Weirauch M, Riemer C, Smit A, NISC Comparative Sequencing Program, Green ED, Hardison RC, Miller W: MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences. Nucleic Acids Res 2003, 31:3518-3524.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3518-3524
-
-
Schwartz, S.1
Elnitski, L.2
Li, M.3
Weirauch, M.4
Riemer, C.5
Smit, A.6
-
13
-
-
1842845736
-
The Bio toolkits - A brief overview
-
Mangalam H: The Bio toolkits - a brief overview. Brief Bioinformatics 2002, 3(3):296-302.
-
(2002)
Brief Bioinformatics
, vol.3
, Issue.3
, pp. 296-302
-
-
Mangalam, H.1
-
14
-
-
84874648814
-
-
HSQLDB
-
HSQLDB [http://www.hsqldb.org]
-
-
-
-
15
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, Salzberg SL: Versatile and open software for comparing large genomes. Genome Biol 2004, 5(2):R12.
-
(2004)
Genome Biol
, vol.5
, Issue.2
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
Salzberg, S.L.7
-
16
-
-
0038634988
-
MuGeN: Simultaneous exploration of multiple genomes and analysis results
-
Hoebeke M, Nicolas P, Bessières P: MuGeN: simultaneous exploration of multiple genomes and analysis results. Bioinformatics 2003, 19(7):859-864.
-
(2003)
Bioinformatics
, vol.19
, Issue.7
, pp. 859-864
-
-
Hoebeke, M.1
Nicolas, P.2
Bessières, P.3
-
17
-
-
33747891100
-
Combo: A whole genome comparative browser
-
in press. May 18
-
Engels R, Yu T, Burge C, Mesirov JP, Decaprio D, Galagan JE: Combo: a whole genome comparative browser. Bioinformatics in press. 2006, May 18;
-
(2006)
Bioinformatics
-
-
Engels, R.1
Yu, T.2
Burge, C.3
Mesirov, J.P.4
Decaprio, D.5
Galagan, J.E.6
-
18
-
-
0035955375
-
Comparative genomics of Listeria species
-
Glaser P, Frangeul L, Buchrieser C, Rusniok C, Amend A, Baquero F, Berche P, Bloecker H, Brandt P, Chakraborty T, Charbit A, Chetouani F, Couve E, de Daruvar A, Dehoux P, Domann E, Dominguez-Bernal G, Duchaud E, Durant L, Dussurget O, Entian KD, Fsihi H, Garcia-del Portillo F, Garrido P, Gautier L, Goebel W, Gomez-Lopez N, Hain T, Hauf J, Jackson D, Jones LM, Kaerst U, Kreft J, Kuhn M, Kunst F, Kurapkat G, Madueno E, Maitournam A, Vicente JM, Ng E, Nedjari H, Nordsiek G, Novella S, de Pablos B, Perez-Diaz JC, Purcell R, Remmel B, Rose M, Schlueter T, Simoes N, Tierrez A, Vazquez-Boland JA, Voss H, Wehland J, Cossart P: Comparative genomics of Listeria species. Science 2001, 294(5543):849-852.
-
(2001)
Science
, vol.294
, Issue.5543
, pp. 849-852
-
-
Glaser, P.1
Frangeul, L.2
Buchrieser, C.3
Rusniok, C.4
Amend, A.5
Baquero, F.6
Berche, P.7
Bloecker, H.8
Brandt, P.9
Chakraborty, T.10
Charbit, A.11
Chetouani, F.12
Couve, E.13
de Daruvar, A.14
Dehoux, P.15
Domann, E.16
Dominguez-Bernal, G.17
Duchaud, E.18
Durant, L.19
Dussurget, O.20
Entian, K.D.21
Fsihi, H.22
Garcia-del Portillo, F.23
Garrido, P.24
Gautier, L.25
Goebel, W.26
Gomez-Lopez, N.27
Hain, T.28
Hauf, J.29
Jackson, D.30
Jones, L.M.31
Kaerst, U.32
Kreft, J.33
Kuhn, M.34
Kunst, F.35
Kurapkat, G.36
Madueno, E.37
Maitournam, A.38
Vicente, J.M.39
Ng, E.40
Nedjari, H.41
Nordsiek, G.42
Novella, S.43
de Pablos, B.44
Perez-Diaz, J.C.45
Purcell, R.46
Remmel, B.47
Rose, M.48
Schlueter, T.49
Simoes, N.50
Tierrez, A.51
Vazquez-Boland, J.A.52
Voss, H.53
Wehland, J.54
Cossart, P.55
more..
-
19
-
-
0037376106
-
Comparison of the genome sequences of Listeria monocytogenes and Listeria innocua: Clues for evolution and pathogenicity
-
Listeria Consortium
-
Buchrieser C, Rusniok C, Kunst F, Cossart P, Glaser P, Listeria Consortium: Comparison of the genome sequences of Listeria monocytogenes and Listeria innocua: clues for evolution and pathogenicity. FEMS Immunology and Medical Microbiology 2003, 35:207-13.
-
(2003)
FEMS Immunology and Medical Microbiology
, vol.35
, pp. 207-213
-
-
Buchrieser, C.1
Rusniok, C.2
Kunst, F.3
Cossart, P.4
Glaser, P.5
-
21
-
-
0034971856
-
Pathogenicity islands and virulence evolution in Listeria
-
Vazquez-Boland JA, Dominguez-Bernal G, Gonzalez-Zorn B, Kreft J, Goebel W: Pathogenicity islands and virulence evolution in Listeria. Microbes and Infection 2001, 3:571-584.
-
(2001)
Microbes and Infection
, vol.3
, pp. 571-584
-
-
Vazquez-Boland, J.A.1
Dominguez-Bernal, G.2
Gonzalez-Zorn, B.3
Kreft, J.4
Goebel, W.5
-
22
-
-
0034934605
-
Listeria pathogenesis and molecular virulence determinants
-
Vazquez-Boland JA, Kuhn M, Berche P, Chakraborty T, Dominguez-Bernal G, Goebel W, Gonzalez-Zorn B, Wehland J, Kreft J: Listeria pathogenesis and molecular virulence determinants. Clinical Microbiol Reviews 2001, 14(3):584-640.
-
(2001)
Clinical Microbiol Reviews
, vol.14
, Issue.3
, pp. 584-640
-
-
Vazquez-Boland, J.A.1
Kuhn, M.2
Berche, P.3
Chakraborty, T.4
Dominguez-Bernal, G.5
Goebel, W.6
Gonzalez-Zorn, B.7
Wehland, J.8
Kreft, J.9
-
23
-
-
31544443526
-
Escherichia coli K-12: A cooperatively developed annotation snapshot-2005
-
Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G 3rd, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL: Escherichia coli K-12: a cooperatively developed annotation snapshot-2005. Nucleic acids Res 2006, 34:1-9.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 1-9
-
-
Riley, M.1
Abe, T.2
Arnaud, M.B.3
Berlyn, M.K.4
Blattner, F.R.5
Chaudhuri, R.R.6
Glasner, J.D.7
Horiuchi, T.8
Keseler, I.M.9
Kosuge, T.10
Mori, H.11
Perna, N.T.12
Plunkett III, G.13
Rudd, K.E.14
Serres, M.H.15
Thomas, G.H.16
Thomson, N.R.17
Wishart, D.18
Wanner, B.L.19
-
24
-
-
31544438578
-
Highly accurate genome sequence of Escherichia coli K-12 strains MG1655 and W3110
-
msb4100049:E1-4
-
Hayashi K, Morooka N, Yamamoto Y, Fujita K, Isono K, Choi S, Ohtsubo E, Baba T, Wanner BL, Mori H, Horiuchi T: Highly accurate genome sequence of Escherichia coli K-12 strains MG1655 and W3110. Molecular Systems Biology 2006, msb4100049:E1-4.
-
(2006)
Molecular Systems Biology
-
-
Hayashi, K.1
Morooka, N.2
Yamamoto, Y.3
Fujita, K.4
Isono, K.5
Choi, S.6
Ohtsubo, E.7
Baba, T.8
Wanner, B.L.9
Mori, H.10
Horiuchi, T.11
-
25
-
-
0035961748
-
Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12
-
Hayashi T, Makino K, Ohnishi M, Kurokawa K, Ishii K, Yokoyama K, Han CG, Ohtsubo E, Nakayama K, Murata T, Tanaka M, Tobe T, Iida T, Takami H, Honda T, Sasakawa C, Ogasawara N, Yasunaga T, Kuhara S, Shiba T, Hattori M, Shinagawa H: Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res 2001, 8:11-22.
-
(2001)
DNA Res
, vol.8
, pp. 11-22
-
-
Hayashi, T.1
Makino, K.2
Ohnishi, M.3
Kurokawa, K.4
Ishii, K.5
Yokoyama, K.6
Han, C.G.7
Ohtsubo, E.8
Nakayama, K.9
Murata, T.10
Tanaka, M.11
Tobe, T.12
Iida, T.13
Takami, H.14
Honda, T.15
Sasakawa, C.16
Ogasawara, N.17
Yasunaga, T.18
Kuhara, S.19
Shiba, T.20
Hattori, M.21
Shinagawa, H.22
more..
-
26
-
-
33645762261
-
Human serum amyloid P component protects against Escherichia coli O157:H7 Shiga toxin 2 in vivo: Therapeutic implications for hemolytic-uremic syndrome
-
Armstrong GD, Mulvey GL, Marcato P, Griener TP, Kahan MC, Tennent GA, Sabin CA, Chart H, Pepys MB: Human serum amyloid P component protects against Escherichia coli O157:H7 Shiga toxin 2 in vivo: Therapeutic implications for hemolytic-uremic syndrome. The Journal of Infectious Diseases 2006, 193:1120-1124.
-
(2006)
The Journal of Infectious Diseases
, vol.193
, pp. 1120-1124
-
-
Armstrong, G.D.1
Mulvey, G.L.2
Marcato, P.3
Griener, T.P.4
Kahan, M.C.5
Tennent, G.A.6
Sabin, C.A.7
Chart, H.8
Pepys, M.B.9
|