-
1
-
-
13444249988
-
STRING: Known and predicted protein-protein associations, integrated and transferred across organisms
-
Database Issue
-
von Mering C, Jensen LJ, Snel B, Hooper SD, Krupp M, Foglierini M, Jouffre N, Huynen MA, Bork P: STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res 2005, 33 Database Issue:D433-7.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
von Mering, C.1
Jensen, L.J.2
Snel, B.3
Hooper, S.D.4
Krupp, M.5
Foglierini, M.6
Jouffre, N.7
Huynen, M.A.8
Bork, P.9
-
2
-
-
0036459745
-
Finding and decrypting of promoters contributes to the elucidation of gene function
-
Werner T: Finding and decrypting of promoters contributes to the elucidation of gene function. In Silico Biol 2002, 2:249-255.
-
(2002)
Silico Biol
, vol.2
, pp. 249-255
-
-
Werner, T.1
-
3
-
-
0032441150
-
Cluster analysis and display of genome-wide expression patterns
-
Eisen MB, Spellman PT, Brown PO, Botstein D: Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A 1998, 95:14863-14868.
-
(1998)
Proc Natl Acad Sci U S A
, vol.95
, pp. 14863-14868
-
-
Eisen, M.B.1
Spellman, P.T.2
Brown, P.O.3
Botstein, D.4
-
4
-
-
19344374050
-
Similarities and differences in genome-wide expression data of six organisms
-
Bergmann S, Ihmels J, Barkai N: Similarities and differences in genome-wide expression data of six organisms. PLoS Biol 2004, 2:E9.
-
(2004)
PLoS Biol
, vol.2
-
-
Bergmann, S.1
Ihmels, J.2
Barkai, N.3
-
5
-
-
0037407924
-
Predicting gene function by conserved co-expression
-
van Noort V, Snel B, Huynen MA: Predicting gene function by conserved co-expression. Trends Genet 2003, 19:238-242.
-
(2003)
Trends Genet
, vol.19
, pp. 238-242
-
-
van Noort, V.1
Snel, B.2
Huynen, M.A.3
-
6
-
-
0141993704
-
A gene-coexpression network for global discovery of conserved genetic modules
-
Stuart JM, Segal E, Koller D, Kim SK: A gene-coexpression network for global discovery of conserved genetic modules. Science 2003, 302:249-255.
-
(2003)
Science
, vol.302
, pp. 249-255
-
-
Stuart, J.M.1
Segal, E.2
Koller, D.3
Kim, S.K.4
-
7
-
-
4444250479
-
Gene co-regulation is highly conserved in the evolution of eukaryotes and prokaryotes
-
Snel B, van Noort V, Huynen MA: Gene co-regulation is highly conserved in the evolution of eukaryotes and prokaryotes. Nucleic Acids Res 2004, 32:4725-4731.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 4725-4731
-
-
Snel, B.1
van Noort, V.2
Huynen, M.A.3
-
8
-
-
6344239412
-
Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse
-
Huminiecki L, Wolfe KH: Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse. Genome Res 2004, 14:1870-1879.
-
(2004)
Genome Res
, vol.14
, pp. 1870-1879
-
-
Huminiecki, L.1
Wolfe, K.H.2
-
9
-
-
0035861990
-
Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
-
Remm M, Storm CE, Sonnhammer EL: Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J Mol Biol 2001, 314:1041-1052.
-
(2001)
J Mol Biol
, vol.314
, pp. 1041-1052
-
-
Remm, M.1
Storm, C.E.2
Sonnhammer, E.L.3
-
10
-
-
16444381885
-
A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes
-
Koonin EV, Fedorova ND, Jackson JD, Jacobs AR, Krylov DM, Makarova KS, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Rogozin IB, Smirnov S, Sorokin AV, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA: A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes. Genome Biol 2004, 5:R7.
-
(2004)
Genome Biol
, vol.5
-
-
Koonin, E.V.1
Fedorova, N.D.2
Jackson, J.D.3
Jacobs, A.R.4
Krylov, D.M.5
Makarova, K.S.6
Mazumder, R.7
Mekhedov, S.L.8
Nikolskaya, A.N.9
Rao, B.S.10
Rogozin, I.B.11
Smirnov, S.12
Sorokin, A.V.13
Sverdlov, A.V.14
Vasudevan, S.15
Wolf, Y.I.16
Yin, J.J.17
Natale, D.A.18
-
11
-
-
17444426730
-
Balancing protein similarity and gene co-expression reveals new links between genetic conservation and developmental diversity in invertebrates
-
Lefebvre C, Aude JC, Glemet E, Neri C: Balancing protein similarity and gene co-expression reveals new links between genetic conservation and developmental diversity in invertebrates. Bioinformatics 2005, 21:1550-1558.
-
(2005)
Bioinformatics
, vol.21
, pp. 1550-1558
-
-
Lefebvre, C.1
Aude, J.C.2
Glemet, E.3
Neri, C.4
-
12
-
-
0033616714
-
Horizontal gene transfer among genomes: The complexity hypothesis
-
Jain R, Rivera MC, Lake JA: Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci U S A 1999, 96:3801-3806.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 3801-3806
-
-
Jain, R.1
Rivera, M.C.2
Lake, J.A.3
-
13
-
-
2342492364
-
The consistent phylogenetic signal in genome trees revealed by reducing the impact of noise
-
Dutilh BE, Huynen MA, Bruno WJ, Snel B: The consistent phylogenetic signal in genome trees revealed by reducing the impact of noise. J Mol Evol 2004, 58:527-539.
-
(2004)
J Mol Evol
, vol.58
, pp. 527-539
-
-
Dutilh, B.E.1
Huynen, M.A.2
Bruno, W.J.3
Snel, B.4
-
14
-
-
0036720020
-
The Ka/Ks ratio: Diagnosing the form of sequence evolution
-
Hurst LD: The Ka/Ks ratio: diagnosing the form of sequence evolution. Trends Genet 2002, 18:486.
-
(2002)
Trends Genet
, vol.18
, pp. 486
-
-
Hurst, L.D.1
-
15
-
-
0028145803
-
Yeast BTF3 protein is encoded by duplicated genes and inhibits the expression of some genes in vivo
-
Hu GZ, Ronne H: Yeast BTF3 protein is encoded by duplicated genes and inhibits the expression of some genes in vivo. Nucleic Acids Res 1994, 22:2740-2743.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 2740-2743
-
-
Hu, G.Z.1
Ronne, H.2
-
17
-
-
13444254287
-
WormBase: A comprehensive data resource for Caenorhabditis biology and genomics
-
Chen N, Harris TW, Antoshechkin I, Bastiani C, Bieri T, Blasiar D, Bradnam K, Canaran P, Chan J, Chen CK, Chen WJ, Cunningham F, Davis P, Kenny E, Kishore R, Lawson D, Lee R, Muller HM, Nakamura C, Pai S, Ozersky P, Petcherski A, Rogers A, Sabo A, Schwarz EM, Van Auken K, Wang Q, Durbin R, Spieth J, Sternberg PW, Stein LD: WormBase: a comprehensive data resource for Caenorhabditis biology and genomics. Nucleic Acids Res 2005, 33:D383-D389.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Chen, N.1
Harris, T.W.2
Antoshechkin, I.3
Bastiani, C.4
Bieri, T.5
Blasiar, D.6
Bradnam, K.7
Canaran, P.8
Chan, J.9
Chen, C.K.10
Chen, W.J.11
Cunningham, F.12
Davis, P.13
Kenny, E.14
Kishore, R.15
Lawson, D.16
Lee, R.17
Muller, H.M.18
Nakamura, C.19
Pai, S.20
Ozersky, P.21
Petcherski, A.22
Rogers, A.23
Sabo, A.24
Schwarz, E.M.25
Van Auken, K.26
Wang, Q.27
Durbin, R.28
Spieth, J.29
Sternberg, P.W.30
Stein, L.D.31
more..
-
18
-
-
13444301461
-
FlyBase: Genes and gene models
-
Database Issue
-
Drysdale RA, Crosby MA, Gelbart W, Campbell K, Emmert D, Matthews B, Russo S, Schroeder A, Smutniak F, Zhang P, Zhou P, Zytkovicz M, Ashburner M, de Grey A, Foulger R, Millburn G, Sutherland D, Yamada C, Kaufman T, Matthews K, DeAngelo A. Cook RK, Gilbert D. Goodman J, Grumbling G, Sheth H, Strelets V, Rubin G, Gibson M, Harris N, Lewis S, Misra S, Shu SQ: FlyBase: genes and gene models. Nucleic Acids Res 2005, 33 Database Issue:D390-5.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Drysdale, R.A.1
Crosby, M.A.2
Gelbart, W.3
Campbell, K.4
Emmert, D.5
Matthews, B.6
Russo, S.7
Schroeder, A.8
Smutniak, F.9
Zhang, P.10
Zhou, P.11
Zytkovicz, M.12
Ashburner, M.13
de Grey, A.14
Foulger, R.15
Millburn, G.16
Sutherland, D.17
Yamada, C.18
Kaufman, T.19
Matthews, K.20
DeAngelo, A.21
Cook, R.K.22
Gilbert, D.23
Goodman, J.24
Grumbling, G.25
Sheth, H.26
Strelets, V.27
Rubin, G.28
Gibson, M.29
Harris, N.30
Lewis, S.31
Misra, S.32
Shu, S.Q.33
more..
-
19
-
-
13444306641
-
NCBI Reference Sequence (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
Pruitt KD, Tatusova T, Maglott DR: NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res 2005, 33:D501-4.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
20
-
-
9144256665
-
Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms
-
Database issue
-
Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM: Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res 2004, 32 Database issue:D311-4.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Christie, K.R.1
Weng, S.2
Balakrishnan, R.3
Costanzo, M.C.4
Dolinski, K.5
Dwight, S.S.6
Engel, S.R.7
Feierbach, B.8
Fisk, D.G.9
Hirschman, J.E.10
Hong, E.L.11
Issel-Tarver, L.12
Nash, R.13
Sethuraman, A.14
Starr, B.15
Theesfeld, C.L.16
Andrada, R.17
Binkley, G.18
Dong, Q.19
Lane, C.20
Schroeder, M.21
Botstein, D.22
Cherry, J.M.23
more..
-
21
-
-
11144355642
-
The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome
-
Dietrich FS, Voegeli S, Brachat S, Lerch A, Gates K, Steiner S, Mohr C, Pohlmann R, Luedi P, Choi S, Wing RA, Flavier A, Gaffney TD, Philippsen P: The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome. Science 2004, 304:304-307.
-
(2004)
Science
, vol.304
, pp. 304-307
-
-
Dietrich, F.S.1
Voegeli, S.2
Brachat, S.3
Lerch, A.4
Gates, K.5
Steiner, S.6
Mohr, C.7
Pohlmann, R.8
Luedi, P.9
Choi, S.10
Wing, R.A.11
Flavier, A.12
Gaffney, T.D.13
Philippsen, P.14
-
22
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith TF, Waterman MS: Identification of common molecular subsequences. J Mol Biol 1981, 147:195-197.
-
(1981)
J Mol Biol
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
24
-
-
0027403961
-
Unbiased estimation of the rates of synonymous and nonsynonymous substitution
-
Li WH: Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J Mol Evol 1993, 36:96-99.
-
(1993)
J Mol Evol
, vol.36
, pp. 96-99
-
-
Li, W.H.1
|