-
1
-
-
0035161543
-
Genomes OnLine Database (GOLD): A monitor of genome projects world-wide
-
Bernal A, Ear U, Kyrpides N: Genomes OnLine Database (GOLD): a monitor of genome projects world-wide. Nucleic Acids Res 2001, 29:126-127.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 126-127
-
-
Bernal, A.1
Ear, U.2
Kyrpides, N.3
-
2
-
-
0038518196
-
Phylogenomics: Intersection of evolution and genomics
-
Eisen JA, Fraser CM: Phylogenomics: intersection of evolution and genomics. Science 2003, 300:1706-1707.
-
(2003)
Science
, vol.300
, pp. 1706-1707
-
-
Eisen, J.A.1
Fraser, C.M.2
-
3
-
-
0030660581
-
A genomic perspective on protein families
-
Tatusov RL, Koonin EV, Lipman DJ: A genomic perspective on protein families. Science 1997, 278:631-637.
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.V.2
Lipman, D.J.3
-
4
-
-
0141815541
-
Analysis of singleton ORFans in fully sequenced microbial genomes
-
Siew N, Fischer D: Analysis of singleton ORFans in fully sequenced microbial genomes. Proteins 2003, 53:241-251.
-
(2003)
Proteins
, vol.53
, pp. 241-251
-
-
Siew, N.1
Fischer, D.2
-
6
-
-
17444374963
-
Procom: A web-based tool to compare multiple eukaryotic proteomes
-
Li JB, Zhang M, Dutcher SK, Stormo GD: Procom: a web-based tool to compare multiple eukaryotic proteomes. Bioinformatics 2005, 21:1693-1694.
-
(2005)
Bioinformatics
, vol.21
, pp. 1693-1694
-
-
Li, J.B.1
Zhang, M.2
Dutcher, S.K.3
Stormo, G.D.4
-
7
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
8
-
-
84885680950
-
WU-BLASTP
-
Gish W: WU-BLASTP http://blast.wustl.edu. 1996-2004.
-
(1996)
-
-
Gish, W.1
-
9
-
-
0037246063
-
The Protein Information Resource
-
Wu CH, Yeh LS, Huang H, Arminski L, Castro-Alvear J, Chen Y, Hu Z, Kourtesis P, Ledley RS, Suzek BE, Vinayaka CR, Zhang J, Barker WC: The Protein Information Resource. Nucleic Acids Res 2003, 31:345-347.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 345-347
-
-
Wu, C.H.1
Yeh, L.S.2
Huang, H.3
Arminski, L.4
Castro-Alvear, J.5
Chen, Y.6
Hu, Z.7
Kourtesis, P.8
Ledley, R.S.9
Suzek, B.E.10
Vinayaka, C.R.11
Zhang, J.12
Barker, W.C.13
-
10
-
-
0036920683
-
Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily
-
Mazumder R, Iyer LM, Vasudevan S, Aravind L: Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily. Nucleic Acids Res 2002, 30:5229-5243.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 5229-5243
-
-
Mazumder, R.1
Iyer, L.M.2
Vasudevan, S.3
Aravind, L.4
-
11
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
Notredame C, Higgins DG, Heringa J: T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Biol 2000, 302:205-217.
-
(2000)
J. Mol. Biol.
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
12
-
-
0031743421
-
Profile hidden Markov models
-
Eddy SR: Profile hidden Markov models. Bioinformatics 1998, 14:755-763.
-
(1998)
Bioinformatics
, vol.14
, pp. 755-763
-
-
Eddy, S.R.1
-
13
-
-
0642342573
-
CoreGenes: A computational tool for identifying and cataloging "core" genes in a set of small genomes
-
Zafar N, Mazumder R, Seto D: CoreGenes: a computational tool for identifying and cataloging "core" genes in a set of small genomes. BMC Bioinformatics 2002, 3:12.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 12
-
-
Zafar, N.1
Mazumder, R.2
Seto, D.3
-
14
-
-
0035098916
-
GeneOrder: Comparing the order of genes in small genomes
-
Mazumder R, Kolaskar A, Seto D: GeneOrder: comparing the order of genes in small genomes. Bioinformatics 2001, 17:162-166.
-
(2001)
Bioinformatics
, vol.17
, pp. 162-166
-
-
Mazumder, R.1
Kolaskar, A.2
Seto, D.3
-
15
-
-
0027516090
-
A protein alignment scoring system sensitive at all evolutionary distances
-
Altschul SF: A protein alignment scoring system sensitive at all evolutionary distances. J Mol Evol 1993, 36:290-300.
-
(1993)
J. Mol. Evol.
, vol.36
, pp. 290-300
-
-
Altschul, S.F.1
-
16
-
-
13444273448
-
The Universal Protein Resource (UniProt)
-
DATABASE ISSUE
-
Bairoch A, Apweiler R, Wu CH, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Natale DA, O'Donovan C, Redaschi N, Yeh LS: The Universal Protein Resource (UniProt). Nucleic Acids Res 2005, 33 Database Issue:D154-159.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Bairoch, A.1
Apweiler, R.2
Wu, C.H.3
Barker, W.C.4
Boeckmann, B.5
Ferro, S.6
Gasteiger, E.7
Huang, H.8
Lopez, R.9
Magrane, M.10
Martin, M.J.11
Natale, D.A.12
O'Donovan, C.13
Redaschi, N.14
Yeh, L.S.15
-
17
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner FR, Plunkett G, 3rd, Bloch CA, Perna NT, Burland V, Riley M, Collado-Vides J, Glasner JD, Rode CK, Mayhew GF, Gregor J, Davis NW, Kirkpatrick HA, Goeden MA, Rose DJ, Mau B, Shao Y: The complete genome sequence of Escherichia coli K-12. Science 1997, 277:1453-1474.
-
(1997)
Science
, vol.277
, pp. 1453-1474
-
-
Blattner, F.R.1
Plunkett III, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
Collado-Vides, J.7
Glasner, J.D.8
Rode, C.K.9
Mayhew, G.F.10
Gregor, J.11
Davis, N.W.12
Kirkpatrick, H.A.13
Goeden, M.A.14
Rose, D.J.15
Mau, B.16
Shao, Y.17
-
18
-
-
0042622254
-
PSORT-B: Improving protein subcellular localization prediction for Gram-negative bacteria
-
Gardy JL, Spencer C, Wang K, Ester M, Tusnady GE, Simon I, Hua S, deFays K, Lambert C, Nakai K, Brinkman FS: PSORT-B: Improving protein subcellular localization prediction for Gram-negative bacteria. Nucleic Acids Res 2003, 31:3613-3617.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3613-3617
-
-
Gardy, J.L.1
Spencer, C.2
Wang, K.3
Ester, M.4
Tusnady, G.E.5
Simon, I.6
Hua, S.7
deFays, K.8
Lambert, C.9
Nakai, K.10
Brinkman, F.S.11
-
19
-
-
0034641731
-
Multiple independent origins of Shigella clones of Escherichia coli and convergent evolution of many of their characteristics
-
Pupo GM, Lan R, Reeves PR: Multiple independent origins of Shigella clones of Escherichia coli and convergent evolution of many of their characteristics. Proc Natl Acad Sci U S A 2000, 97:10567-10572.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 10567-10572
-
-
Pupo, G.M.1
Lan, R.2
Reeves, P.R.3
-
20
-
-
0035504408
-
Strain-specific genes of Helicobacter pylori: Distribution, function and dynamics
-
Janssen PJ, Audit B, Ouzounis CA: Strain-specific genes of Helicobacter pylori: distribution, function and dynamics. Nucleic Acids Res 2001, 29:4395-4404.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 4395-4404
-
-
Janssen, P.J.1
Audit, B.2
Ouzounis, C.A.3
-
21
-
-
0642333696
-
Characterization of species-specific genes using a flexible, web-based querying system
-
Charlebois RL, Clarke GD, Beiko RG, St Jean A: Characterization of species-specific genes using a flexible, web-based querying system. FEMS Microbiol Lett 2003, 225:213-220.
-
(2003)
FEMS Microbiol. Lett
, vol.225
, pp. 213-220
-
-
Charlebois, R.L.1
Clarke, G.D.2
Beiko, R.G.3
St Jean, A.4
-
22
-
-
0141610658
-
Role of horizontal gene transfer by bacteriophages in the origin of pathogenic bacteria
-
Krylov VN: Role of horizontal gene transfer by bacteriophages in the origin of pathogenic bacteria. Genetika 2003, 39:595-620.
-
(2003)
Genetika
, vol.39
, pp. 595-620
-
-
Krylov, V.N.1
-
23
-
-
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..
-
24
-
-
0842330093
-
The iProClass integrated database for protein functional analysis
-
Wu CH, Huang H, Nikolskaya A, Hu Z, Barker WC: The iProClass integrated database for protein functional analysis. Comput Biol Chem 2004, 28:87-96.
-
(2004)
Comput. Biol. Chem.
, vol.28
, pp. 87-96
-
-
Wu, C.H.1
Huang, H.2
Nikolskaya, A.3
Hu, Z.4
Barker, W.C.5
-
25
-
-
2142657817
-
A combined transmembrane topology and signal peptide prediction method
-
Kall L, Krogh A, Sonnhammer EL: A combined transmembrane topology and signal peptide prediction method. J Mol Biol 2004, 338:1027-1036.
-
(2004)
J. Mol. Biol.
, vol.338
, pp. 1027-1036
-
-
Kall, L.1
Krogh, A.2
Sonnhammer, E.L.3
|