-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (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
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
2
-
-
0032952229
-
Pfam 3.1: 1313 Multiple alignments and profile HMMs match the majority of proteins
-
Bateman, A., Birney, E., Durbin, R., Eddy, S. R., Finn, R. D., and Sonnhammer, E. L. (1999) Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins. Nucleic Acids Res. 27, 260-262.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 260-262
-
-
Bateman, A.1
Birney, E.2
Durbin, R.3
Eddy, S.R.4
Finn, R.D.5
Sonnhammer, E.L.6
-
3
-
-
0030045003
-
Structure and mechanism of DNA topoisomerase II
-
Berger, J. M., Gamblin, S. J., Harrison, S. C., and Wang, J. C. (1996) Structure and mechanism of DNA topoisomerase II. Nature 379, 225-232
-
(1996)
Nature
, vol.379
, pp. 225-232
-
-
Berger, J.M.1
Gamblin, S.J.2
Harrison, S.C.3
Wang, J.C.4
-
4
-
-
0035161543
-
Genomes OnLine Database (GOLD): A monitor of genome projects world-wide
-
Bernal, A., Ear, U., and Kyrpides, N. (2001) Genomes OnLine Database (GOLD): a monitor of genome projects world-wide. Nucleic Acids Res. 29, 126-127.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 126-127
-
-
Bernal, A.1
Ear, U.2
Kyrpides, N.3
-
5
-
-
0035023445
-
Predicting protein-protein interactions from primary structure
-
Bock, J. R. and Gough, D. A. (2001) Predicting protein-protein interactions from primary structure. Bioinformatics 17, 455-460.
-
(2001)
Bioinformatics
, vol.17
, pp. 455-460
-
-
Bock, J.R.1
Gough, D.A.2
-
6
-
-
0032169271
-
Conservation of gene order: A fingerprint of proteins that physically interact
-
Dandekar, T., Snel, B., Huynen, M., and Bork, P. (1998) Conservation of gene order: a fingerprint of proteins that physically interact. Trends Biochem. Sci. 23, 324-328.
-
(1998)
Trends Biochem. Sci.
, vol.23
, pp. 324-328
-
-
Dandekar, T.1
Snel, B.2
Huynen, M.3
Bork, P.4
-
7
-
-
0033523989
-
Protein interaction maps for complete genomes based on gene fusion events
-
Enright, A. J., Iliopoulos, I., Kyrpides, N. C., and Ouzounis, C. A. (1999) Protein interaction maps for complete genomes based on gene fusion events. Nature 402, 86-90.
-
(1999)
Nature
, vol.402
, pp. 86-90
-
-
Enright, A.J.1
Iliopoulos, I.2
Kyrpides, N.C.3
Ouzounis, C.A.4
-
8
-
-
0037015614
-
Genome sequence of the human malaria parasite Plasmodium falciparum
-
Gardner, M. J., Hall, N., Fung, E., White, O., Berriman, M., Hyman, R. W., Carlton, J. M., Pain, A., Nelson, K. E., Bowman, S., Paulsen, I. T., James, K., Eisen, J. A., Rutherford, K., Salzberg, S. L., Craig, A., Kyes, S., Chan, M. S., Nene, V., Shallom, S. J., Suh, B., Peterson, J., Angiuoli, S., Pertea, M., Allen, J., Selengut, J., Haft, D., Mather, M. W., Vaidya, A. B., Martin, D. M., Fairlamb, A. H., Fraunholz, M. J., Roos, D. S., Ralph, S. A., McFadden, G. I., Cummings, L. M., Subramanian, G. M., Mungall, C., Venter, J. C., Carucci, D. J., Hoffman, S. L., Newbold, C., Davis, R. W., Fraser, C. M., and Barrell, B. (2002) Genome sequence of the human malaria parasite Plasmodium falciparum. Nature 419, 498-511.
-
(2002)
Nature
, vol.419
, pp. 498-511
-
-
Gardner, M.J.1
Hall, N.2
Fung, E.3
White, O.4
Berriman, M.5
Hyman, R.W.6
Carlton, J.M.7
Pain, A.8
Nelson, K.E.9
Bowman, S.10
Paulsen, I.T.11
James, K.12
Eisen, J.A.13
Rutherford, K.14
Salzberg, S.L.15
Craig, A.16
Kyes, S.17
Chan, M.S.18
Nene, V.19
Shallom, S.J.20
Suh, B.21
Peterson, J.22
Angiuoli, S.23
Pertea, M.24
Allen, J.25
Selengut, J.26
Haft, D.27
Mather, M.W.28
Vaidya, A.B.29
Martin, D.M.30
Fairlamb, A.H.31
Fraunholz, M.J.32
Roos, D.S.33
Ralph, S.A.34
McFadden, G.I.35
Cummings, L.M.36
Subramanian, G.M.37
Mungall, C.38
Venter, J.C.39
Carucci, D.J.40
Hoffman, S.L.41
Newbold, C.42
Davis, R.W.43
Fraser, C.M.44
Barrell, B.45
more..
-
9
-
-
0036360139
-
Towards the prediction of complete protein-protein interaction networks
-
Gomez, S. M. and Rzhetsky, A. (2002) Towards the prediction of complete protein-protein interaction networks. Pac. Symp. Biocomput. 413-424.
-
(2002)
Pac. Symp. Biocomput.
, pp. 413-424
-
-
Gomez, S.M.1
Rzhetsky, A.2
-
10
-
-
0035672003
-
Probabilistic prediction of unknown metabolic and signal-transduction networks
-
Gomez, S. M., Lo, S. H., and Rzhetsky, A. (2001) Probabilistic prediction of unknown metabolic and signal-transduction networks. Genetics 159, 1291-1298.
-
(2001)
Genetics
, vol.159
, pp. 1291-1298
-
-
Gomez, S.M.1
Lo, S.H.2
Rzhetsky, A.3
-
11
-
-
0033429460
-
Genomic analysis of human and mouse TCL1 loci reveals a complex of tightly clustered genes
-
Hallas, C., Pekarsky, Y., Itoyama, T., Varnum, J., Bichi, R., Rothstein, J. L., and Croce, C. M. (1999) Genomic analysis of human and mouse TCL1 loci reveals a complex of tightly clustered genes. Proc. Natl. Acad. Sci. USA 96, 14418-14423.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 14418-14423
-
-
Hallas, C.1
Pekarsky, Y.2
Itoyama, T.3
Varnum, J.4
Bichi, R.5
Rothstein, J.L.6
Croce, C.M.7
-
12
-
-
0037020114
-
The genome sequence of the malaria mosquito Anopheles gambiae
-
Holt, R. A., Subramanian, G. M., Halpern, A., Sutton, G. G., Charlab, R., Nusskern, D. R., Wincker, P., Clark, A. G., Ribeiro, J. M., Wides, R., Salzberg, S. L., Loftus, B., Yandell, M., Majoros, W. H., Rusch, D. B., Lai, Z., Kraft, C. L., Abril, J. F., Anthouard, V., Arensburger, P., Atkinson, P. W., Baden, H., de Berardinis, V., Baldwin, D., Benes, V., Biedler, J., Blass, C., Bolanos, R., Boscus, D., Barnstead, M., Cai, S., Center, A., Chatuverdi, K., Christophides, G. K., Chrystal, M. A., Clamp, M., Cravchik, A., Curwen, V., Dana, A., Delcher, A., Dew, I., Evans, C. A., Flanigan, M., Grundschober- Freimoser, A., Friedli, L., Gu, Z., Guan, P., Guigo, R., Hillenmeyer, M. E., Hladun, S. L., Hogan, J. R., Hong, Y. S., Hoover, J., Jaillon, O., Ke, Z., Kodira, C., Kokoza, E., Koutsos, A., Letunic, I., Levitsky, A., Liang, Y., Lin, J. J., Lobo, N. F., Lopez, J. R., Malek, J. A., McIntosh, T. C., Meister, S., Miller, J., Mobarry, C., Mongin, E., Murphy, S. D., O'Brochta, D. A., Pfannkoch, C., Qi, R., Regier, M. A., Remington, K., Shao, H., Sharakhova, M. V., Sitter, C. D., Shetty, J., Smith, T. J., Strong, R., Sun, J., Thomasova, D., Ton, L. Q., Topalis, P., Tu, Z., Unger, M. F., Walenz, B., Wang, A., Wang, J., Wang, M., Wang, X., Woodford, K. J., Wortman, J. R., Wu, M., Yao, A., Zdobnov, E. M., Zhang, H., Zhao, Q., Zhao, S., Zhu, S. C., Zhimulev, I., Coluzzi, M., della Torre, A., Roth, C. W., Louis, C., Kalush, F., Mural, R. J., Myers, E. W., Adams, M. D., Smith, H. O., Broder, S., Gardner, M. J., Fraser, C. M., Birney, E., Bork, P., Brey, P. T., Venter, J. C., Weissenbach, J., Kafatos, F. C., Collins, F. H., and Hoffman, S. L. (2002) The genome sequence of the malaria mosquito Anopheles gambiae. Science 298, 129-149.
-
(2002)
Science
, vol.298
, pp. 129-149
-
-
Holt, R.A.1
Subramanian, G.M.2
Halpern, A.3
Sutton, G.G.4
Charlab, R.5
Nusskern, D.R.6
Wincker, P.7
Clark, A.G.8
Ribeiro, J.M.9
Wides, R.10
Salzberg, S.L.11
Loftus, B.12
Yandell, M.13
Majoros, W.H.14
Rusch, D.B.15
Lai, Z.16
Kraft, C.L.17
Abril, J.F.18
Anthouard, V.19
Arensburger, P.20
Atkinson, P.W.21
Baden, H.22
De Berardinis, V.23
Baldwin, D.24
Benes, V.25
Biedler, J.26
Blass, C.27
Bolanos, R.28
Boscus, D.29
Barnstead, M.30
Cai, S.31
Center, A.32
Chatuverdi, K.33
Christophides, G.K.34
Chrystal, M.A.35
Clamp, M.36
Cravchik, A.37
Curwen, V.38
Dana, A.39
Delcher, A.40
Dew, I.41
Evans, C.A.42
Flanigan, M.43
Grundschober-Freimoser, A.44
Friedli, L.45
Gu, Z.46
Guan, P.47
Guigo, R.48
Hillenmeyer, M.E.49
Hladun, S.L.50
Hogan, J.R.51
Hong, Y.S.52
Hoover, J.53
Jaillon, O.54
Ke, Z.55
Kodira, C.56
Kokoza, E.57
Koutsos, A.58
Letunic, I.59
Levitsky, A.60
Liang, Y.61
Lin, J.J.62
Lobo, N.F.63
Lopez, J.R.64
Malek, J.A.65
McIntosh, T.C.66
Meister, S.67
Miller, J.68
Mobarry, C.69
Mongin, E.70
Murphy, S.D.71
O'Brochta, D.A.72
Pfannkoch, C.73
Qi, R.74
Regier, M.A.75
Remington, K.76
Shao, H.77
Sharakhova, M.V.78
Sitter, C.D.79
Shetty, J.80
Smith, T.J.81
Strong, R.82
Sun, J.83
more..
-
13
-
-
0032873141
-
Genomes OnLine Database (GOLD 1.0): A monitor of complete and ongoing genome projects worldwide
-
Kyrpides, N. C. (1999) Genomes OnLine Database (GOLD 1.0): a monitor of complete and ongoing genome projects worldwide. Bioinformatics 15, 773-774.
-
(1999)
Bioinformatics
, vol.15
, pp. 773-774
-
-
Kyrpides, N.C.1
-
14
-
-
0037162695
-
Shared strategies in gene organization among prokaryotes and eukaryotes
-
Lawrence, J. G. (2002) Shared strategies in gene organization among prokaryotes and eukaryotes. Cell 110, 407-413.
-
(2002)
Cell
, vol.110
, pp. 407-413
-
-
Lawrence, J.G.1
-
15
-
-
0033618555
-
Detecting protein function and protein-protein interactions from genome sequences
-
Marcotte, E. M., Pellegrini, M., Ng, H. L., Rice, D. W., Yeates, T. O., and Eisenberg, D. (1999) Detecting protein function and protein-protein interactions from genome sequences. Science 285, 751-753.
-
(1999)
Science
, vol.285
, pp. 751-753
-
-
Marcotte, E.M.1
Pellegrini, M.2
Ng, H.L.3
Rice, D.W.4
Yeates, T.O.5
Eisenberg, D.6
-
16
-
-
0037251964
-
The InterPro Database, 2003 brings increased coverage and new features
-
Mulder, N. J., Apweiler, R., Attwood, T. K., Bairoch, A., Barrell, D., Bateman, A., Binns, D., Biswas, M., Bradley, P., Bork, P., Bucher, P., Copley, R. R., Courcelle, E., Das, U., Durbin, R., Falquet, L., Fleischmann, W., Griffiths-Jones, S., Haft, D., Harte, N., Hulo, N., Kahn, D., Kanapin, A., Krestyaninova, M., Lopez, R., Letunic, I., Lonsdale, D., Silventoinen, V., Orchard, S. E., Pagni, M., Peyruc, D., Ponting, C. P., Selengut, J. D., Servant, F., Sigrist, C. J., Vaughan, R., and Zdobnov, E. M. (2003) The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res. 31, 315-318.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 315-318
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Barrell, D.5
Bateman, A.6
Binns, D.7
Biswas, M.8
Bradley, P.9
Bork, P.10
Bucher, P.11
Copley, R.R.12
Courcelle, E.13
Das, U.14
Durbin, R.15
Falquet, L.16
Fleischmann, W.17
Griffiths-Jones, S.18
Haft, D.19
Harte, N.20
Hulo, N.21
Kahn, D.22
Kanapin, A.23
Krestyaninova, M.24
Lopez, R.25
Letunic, I.26
Lonsdale, D.27
Silventoinen, V.28
Orchard, S.E.29
Pagni, M.30
Peyruc, D.31
Ponting, C.P.32
Selengut, J.D.33
Servant, F.34
Sigrist, C.J.35
Vaughan, R.36
Zdobnov, E.M.37
more..
-
17
-
-
0033055062
-
The use of gene clusters to infer functional coupling
-
Overbeek, R., Fonstein, M., D'Souza, M., Pusch, G. D., and-Maltsev, N. (1999) The use of gene clusters to infer functional coupling. Proc. Natl. Acad. Sci. USA 96, 2896-2901.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 2896-2901
-
-
Overbeek, R.1
Fonstein, M.2
D'Souza, M.3
Pusch, G.D.4
And-Maltsev, N.5
-
18
-
-
0033551248
-
Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles
-
Pellegrini, M., Marcotte, E. M., Thompson, M. J., Eisenberg, D., and Yeates, T. O. (1999) Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc. Natl. Acad. Sci. USA 96, 4285-4288.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 4285-4288
-
-
Pellegrini, M.1
Marcotte, E.M.2
Thompson, M.J.3
Eisenberg, D.4
Yeates, T.O.5
-
19
-
-
0037204930
-
Chimps and fungi make genome "top six"
-
Pennisi, E. (2002) Chimps and fungi make genome "top six". Science 296, 1589-1590.
-
(2002)
Science
, vol.296
, pp. 1589-1590
-
-
Pennisi, E.1
-
20
-
-
0034708613
-
A brief history of Drosophila's contributions to genome research
-
Rubin, G. M. and Lewis, E. B. (2000) A brief history of Drosophila's contributions to genome research. Science 287, 2216-2218.
-
(2000)
Science
, vol.287
, pp. 2216-2218
-
-
Rubin, G.M.1
Lewis, E.B.2
-
21
-
-
0035943340
-
Correlated sequence-signatures as markers of protein-protein interaction
-
Sprinzak, E. and Margalit, H. (2001) Correlated sequence-signatures as markers of protein-protein interaction. J. Mol. Biol. 311, 681-692.
-
(2001)
J. Mol. Biol.
, vol.311
, pp. 681-692
-
-
Sprinzak, E.1
Margalit, H.2
-
22
-
-
0037020194
-
Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster
-
Zdobnov, E. M., von Mering, C., Letunic, I., Torrents, D., Suyama, M., Copley, R. R., Christophides, G. K., Thomasova, D., Holt, R. A., Subramanian, G. M., Mueller, H. M., Dimopoulos, G., Law, J. H., Wells, M. A., Birney, E., Charlab, R., Halpern, A. L., Kokoza, E., Kraft, C. L., Lai, Z., Lewis, S., Louis, C., Barillas-Mury, C., Nusskern, D., Rubin, G. M., Salzberg, S. L., Sutton, G. G., Topalis, P., Wides, R., Wincker, P., Yandell, M., Collins, F. H., Ribeiro, J., Gelbart, W. M., Kafatos, F. C., and Bork, P. (2002) Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science 298, 149-159.
-
(2002)
Science
, vol.298
, pp. 149-159
-
-
Zdobnov, E.M.1
Von Mering, C.2
Letunic, I.3
Torrents, D.4
Suyama, M.5
Copley, R.R.6
Christophides, G.K.7
Thomasova, D.8
Holt, R.A.9
Subramanian, G.M.10
Mueller, H.M.11
Dimopoulos, G.12
Law, J.H.13
Wells, M.A.14
Birney, E.15
Charlab, R.16
Halpern, A.L.17
Kokoza, E.18
Kraft, C.L.19
Lai, Z.20
Lewis, S.21
Louis, C.22
Barillas-Mury, C.23
Nusskern, D.24
Rubin, G.M.25
Salzberg, S.L.26
Sutton, G.G.27
Topalis, P.28
Wides, R.29
Wincker, P.30
Yandell, M.31
Collins, F.H.32
Ribeiro, J.33
Gelbart, W.M.34
Kafatos, F.C.35
Bork, P.36
more..
|