-
2
-
-
14144255920
-
Rapid evolution of expression and regulatory divergences after yeast gene duplication
-
U S A
-
Gu X, Zhang Z, Huang W (2005) Rapid evolution of expression and regulatory divergences after yeast gene duplication. Proc Natl Acad Sci U S A 102: 707-712.
-
(2005)
Proc Natl Acad Sci
, vol.102
, pp. 707-712
-
-
Gu, X.1
Zhang, Z.2
Huang, W.3
-
3
-
-
0037423828
-
How the global structure of protein interaction networks evolves
-
Wagner A (2003) How the global structure of protein interaction networks evolves. Proc R Soc Lond B Biol Sci 270: 457-466.
-
(2003)
Proc R Soc Lond B Biol Sci
, vol.270
, pp. 457-466
-
-
Wagner, A.1
-
4
-
-
0036856356
-
A duplication growth model of gene expression networks
-
Bhan A, Galas DJ, Dewey TG (2002) A duplication growth model of gene expression networks. Bioinformatics 18: 1486-1493.
-
(2002)
Bioinformatics
, vol.18
, pp. 1486-1493
-
-
Bhan, A.1
Galas, D.J.2
Dewey, T.G.3
-
5
-
-
0030947344
-
Molecular evidence for an ancient duplication of the entire yeast genome
-
Wolfe KH, Shields DC (1997) Molecular evidence for an ancient duplication of the entire yeast genome. Nature 387: 708-713.
-
(1997)
Nature
, vol.387
, pp. 708-713
-
-
Wolfe, K.H.1
Shields, D.C.2
-
6
-
-
1942452749
-
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
-
Kellis M, Birren BW, Lander ES (2004) Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature 428: 617-624.
-
(2004)
Nature
, vol.428
, pp. 617-624
-
-
Kellis, M.1
Birren, B.W.2
Lander, E.S.3
-
7
-
-
2442537233
-
Gene regulatory network growth by duplication
-
Teichmann S, Babu MM (2004) Gene regulatory network growth by duplication. Nature Genet 36: 492-496.
-
(2004)
Nature Genet
, vol.36
, pp. 492-496
-
-
Teichmann, S.1
Babu, M.M.2
-
8
-
-
14544273834
-
Divergence pattern of duplicate genes in protein-protein interactions follows the power law
-
Zhang Z, Luo ZW, Kishino H, Kearsey MJ (2005) Divergence pattern of duplicate genes in protein-protein interactions follows the power law. Mol Biol Evol 22: 501-505.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 501-505
-
-
Zhang, Z.1
Luo, Z.W.2
Kishino, H.3
Kearsey, M.J.4
-
9
-
-
12444301754
-
Structure and evolution of protein interaction networks: A statistical model for link dynamics and gene duplications
-
Berg J, Lässig M, Wagner A (2004) Structure and evolution of protein interaction networks: A statistical model for link dynamics and gene duplications. BMC Evol Biol 4: 51.
-
(2004)
BMC Evol Biol
, vol.4
, pp. 51
-
-
Berg, J.1
Lässig, M.2
Wagner, A.3
-
10
-
-
0034943378
-
The yeast protein interaction network evolves rapidly and contains few redundant duplicate genes
-
Wagner A (2001) The yeast protein interaction network evolves rapidly and contains few redundant duplicate genes. Mol Biol Evol 18: 1283-1292.
-
(2001)
Mol Biol Evol
, vol.18
, pp. 1283-1292
-
-
Wagner, A.1
-
11
-
-
4344624948
-
Molecular evolution in the yeast transcriptional regulation network
-
Evangelisti AM, Wagner A (2004) Molecular evolution in the yeast transcriptional regulation network. J Exp Zoolog B Mol Dev Evol 302: 392-411.
-
(2004)
J Exp Zoolog B Mol Dev Evol
, vol.302
, pp. 392-411
-
-
Evangelisti, A.M.1
Wagner, A.2
-
12
-
-
2942615357
-
Upstream plasticity and downstream robustness in evolution of molecular networks
-
Maslov S, Sneppen K, Eriksen KA, Yan K-K (2004) Upstream plasticity and downstream robustness in evolution of molecular networks. BMC Evol Biol 4: 9.
-
(2004)
BMC Evol Biol
, vol.4
, pp. 9
-
-
Maslov, S.1
Sneppen, K.2
Eriksen, K.A.3
Yan, K.-K.4
-
13
-
-
3142700743
-
Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes
-
Blanc G, Wolfe KH (2004) Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16: 1679-1691.
-
(2004)
Plant Cell
, vol.16
, pp. 1679-1691
-
-
Blanc, G.1
Wolfe, K.H.2
-
14
-
-
3242886892
-
Yeast genome sequencing: The power of comparative genomics
-
Piškur J, Langkjær RB (2004) Yeast genome sequencing: The power of comparative genomics. Mol Microbiol 53: 381-389.
-
(2004)
Mol Microbiol
, vol.53
, pp. 381-389
-
-
Piškur, J.1
Langkjær, R.B.2
-
15
-
-
0037407924
-
Predicting gene function by conserved co-expression
-
van Noort V, Snel B, Huynen MA (2003) Predicting gene function by conserved co-expression. Trends Genet 19: 238-242.
-
(2003)
Trends Genet
, vol.19
, pp. 238-242
-
-
Van Noort, V.1
Snel, B.2
Huynen, M.A.3
-
16
-
-
23644461190
-
Transcriptional co-regulation of secondary metabolism enzymes in Arabidopsis: Functional and evolutionary implications
-
Gachon CMM, Langlois-Meurinne M, Henry Y, Saindrenan P (2005) Transcriptional co-regulation of secondary metabolism enzymes in Arabidopsis: Functional and evolutionary implications. Plant Mol Biol 58: 229-245.
-
(2005)
Plant Mol Biol
, vol.58
, pp. 229-245
-
-
Gachon, C.M.M.1
Langlois-Meurinne, M.2
Henry, Y.3
Saindrenan, P.4
-
17
-
-
0032865543
-
Function and regulation of yeast hexose transporters
-
Özcan S, Johnston M (1999) Function and regulation of yeast hexose transporters. Microbiol Mol Biol Rev 63: 554-569.
-
(1999)
Microbiol Mol Biol Rev
, vol.63
, pp. 554-569
-
-
Özcan, S.1
Johnston, M.2
-
18
-
-
0036892455
-
Characterization of glucose transport in Saccharomyces cerevisiae with plasma membrane vesicles (countertransport) and intact cells (initial uptake) with single Hxt1, Hxt2, Hxt3, Hxt4, Hxt6, Hxt7, or Gal2 transporters
-
Maier A, Völker B, Boles E, Fuhrmann GF (2002) Characterization of glucose transport in Saccharomyces cerevisiae with plasma membrane vesicles (countertransport) and intact cells (initial uptake) with single Hxt1, Hxt2, Hxt3, Hxt4, Hxt6, Hxt7, or Gal2 transporters. FEMS Yeast Res 2: 539-550.
-
(2002)
FEMS Yeast Res
, vol.2
, pp. 539-550
-
-
Maier, A.1
Völker, B.2
Boles, E.3
Fuhrmann, G.F.4
-
19
-
-
0028797325
-
Transcriptional regulation of the Saccharomyces cerevisiae HXK1, HXK2, and GLK1 genes
-
Herrero P, Galíndez J, Ruiz N, Martínez-Campa C, Moreno F (1995) Transcriptional regulation of the Saccharomyces cerevisiae HXK1, HXK2, and GLK1 genes. Yeast 11: 137-144.
-
(1995)
Yeast
, vol.11
, pp. 137-144
-
-
Herrero, P.1
Galíndez, J.2
Ruiz, N.3
Martínez-Campa, C.4
Moreno, F.5
-
20
-
-
0032893932
-
Preservation of duplicate genes by complementary, degenerative mutations
-
Force A, Lynch M, Pickett FB, Amores A, Yan Y, et al. (1999) Preservation of duplicate genes by complementary, degenerative mutations. Genet 151: 1531-1545.
-
(1999)
Genet
, vol.151
, pp. 1531-1545
-
-
Force, A.1
Lynch, M.2
Pickett, F.B.3
Amores, A.4
Yan, Y.5
-
21
-
-
0033972072
-
The probability of duplicate gene preservation by subfunctionalization
-
Lynch M, Force A (2000) The probability of duplicate gene preservation by subfunctionalization. Genet 154: 459-473.
-
(2000)
Genet
, vol.154
, pp. 459-473
-
-
Lynch, M.1
Force, A.2
-
22
-
-
25844471721
-
The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species
-
Byrne KP, Wolfe KH (2005) The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res 15: 1456-1461.
-
(2005)
Genome Res
, vol.15
, pp. 1456-1461
-
-
Byrne, K.P.1
Wolfe, K.H.2
-
23
-
-
0141593601
-
Conserved pathways within bacteria and yeast as revealed by global protein network alignment
-
U S A
-
Kelley BP, Sharan R, Karp RM, Sittler T, Root DE, et al. (2003) Conserved pathways within bacteria and yeast as revealed by global protein network alignment. Proc Natl Acad Sci U S A 100: 11394-11399.
-
(2003)
Proc Natl Acad Sci
, vol.100
, pp. 11394-11399
-
-
Kelley, B.P.1
Sharan, R.2
Karp, R.M.3
Sittler, T.4
Root, D.E.5
-
24
-
-
1842507531
-
A statistical framework for combining and interpreting proteomic datasets
-
Gilchrist MA, Salter LA, Wagner A (2004) A statistical framework for combining and interpreting proteomic datasets. Bioinformatics 20: 689-700.
-
(2004)
Bioinformatics
, vol.20
, pp. 689-700
-
-
Gilchrist, M.A.1
Salter, L.A.2
Wagner, A.3
-
25
-
-
0347755535
-
The database of interacting proteins: 2004 update
-
Salwinski L, Miller CS, Smith AJ, Pettit FK, Bowie JU, et al. (2004) The database of interacting proteins: 2004 update. Nucleic Acids Res 32: D449-D451.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Salwinski, L.1
Miller, C.S.2
Smith, A.J.3
Pettit, F.K.4
Bowie, J.U.5
-
26
-
-
0033971642
-
DIP: The database of interacting proteins
-
Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM, et al. (2000) DIP: The database of interacting proteins. Nucleic Acids Res 28: 289-291.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 289-291
-
-
Xenarios, I.1
Rice, D.W.2
Salwinski, L.3
Baron, M.K.4
Marcotte, E.M.5
-
27
-
-
0035836765
-
A comprehensive two-hybrid analysis to explore the yeast protein interactome
-
U S A
-
Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, et al. (2001) A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci U S A 98: 4569-4574.
-
(2001)
Proc Natl Acad Sci
, vol.98
, pp. 4569-4574
-
-
Ito, T.1
Chiba, T.2
Ozawa, R.3
Yoshida, M.4
Hattori, M.5
-
28
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
Uetz P, Giot L, Cagney G, Mansfield TA, Judson RS, et al. (2000) A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403: 623-627.
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.A.4
Judson, R.S.5
-
29
-
-
0037174671
-
Transcriptional regulatory networks in Saccharomyces cerevisiae
-
Lee TI, Rinaldi NJ, Robert F, Odom DT, Joseph Z, et al. (2002) Transcriptional regulatory networks in Saccharomyces cerevisiae. Science 298: 799-804.
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Joseph, Z.5
-
30
-
-
0034616930
-
Functional discovery via a compendium of expression profiles
-
Hughes TR, Marton MJ, Jones AR, Roberts CJ, Stoughton R, et al. (2000) Functional discovery via a compendium of expression profiles. Cell 102: 109-126.
-
(2000)
Cell
, vol.102
, pp. 109-126
-
-
Hughes, T.R.1
Marton, M.J.2
Jones, A.R.3
Roberts, C.J.4
Stoughton, R.5
-
31
-
-
0033637153
-
Genomic expression programs in the response of yeast cells to environmental change
-
Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, et al. (2000) Genomic expression programs in the response of yeast cells to environmental change. Mol Biol Cell 11: 4241-4257.
-
(2000)
Mol Biol Cell
, vol.11
, pp. 4241-4257
-
-
Gasch, A.P.1
Spellman, P.T.2
Kao, C.M.3
Carmel-Harel, O.4
Eisen, M.B.5
-
32
-
-
0036792156
-
Asymmetric functional divergence of duplicate genes in yeast
-
Wagner A (2002) Asymmetric functional divergence of duplicate genes in yeast. Mol Biol Evol 19: 1760-1768.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 1760-1768
-
-
Wagner, A.1
-
33
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
Huh W-K, Falvo JV, Gerke LC, Carroll AS, Howson RW, et al. (2003) Global analysis of protein localization in budding yeast. Nature 425: 686-690.
-
(2003)
Nature
, vol.425
, pp. 686-690
-
-
Huh, W.-K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
Howson, R.W.5
-
34
-
-
0038349948
-
Sequencing and comparison of yeast species to identify genes and regulatory elements
-
Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-254.
-
(2003)
Nature
, vol.423
, pp. 241-254
-
-
Kellis, M.1
Patterson, N.2
Endrizzi, M.3
Birren, B.4
Lander, E.S.5
-
35
-
-
0030971548
-
Characterization of a glucose-repressed pyruvate kinase (Pyk2p) in Saccharomyces cerevisiae that is catalytically insensitive to fructose-1-6-biphosphate
-
Boles E, Schulte F, Miosga T, Freidel K, Schlüter E, et al. (1997) Characterization of a glucose-repressed pyruvate kinase (Pyk2p) in Saccharomyces cerevisiae that is catalytically insensitive to fructose-1-6-biphosphate. J Bacteriol 179: 2987-2993.
-
(1997)
J Bacteriol
, vol.179
, pp. 2987-2993
-
-
Boles, E.1
Schulte, F.2
Miosga, T.3
Freidel, K.4
Schlüter, E.5
-
37
-
-
0035339662
-
The hexokinase 2 protein regulates the expression of the GLK1, HXK1, and HKX2 genes of Saccharomyces cerevisiae
-
Rodríguez A, de la Cera T, Herrero P, Moreno F (2001) The hexokinase 2 protein regulates the expression of the GLK1, HXK1, and HKX2 genes of Saccharomyces cerevisiae. Biochem J 355: 625-631
-
(2001)
Biochem J
, vol.355
, pp. 625-631
-
-
Rodríguez, A.1
De La Cera, T.2
Herrero, P.3
Moreno, F.4
-
38
-
-
25844501539
-
A history of research on yeasts 9: Regulation of sugar metabolism
-
Barnett JA, Entian K-D (2005) A history of research on yeasts 9: Regulation of sugar metabolism. Yeast 22: 835-894.
-
(2005)
Yeast
, vol.22
, pp. 835-894
-
-
Barnett, J.A.1
Entian, K.-D.2
-
39
-
-
23444431650
-
Analysis of the SIP3 protein identified in a two-hybrid screen for interaction with the SNF1 protein kinase
-
Lesage P, Yang X, Carlson M (1994) Analysis of the SIP3 protein identified in a two-hybrid screen for interaction with the SNF1 protein kinase. Nucleic Acids Res 22: 597-603.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 597-603
-
-
Lesage, P.1
Yang, X.2
Carlson, M.3
-
40
-
-
0033909398
-
GUP1 and its close homologue GUP2, encoding multimembrane-spanning proteins involved in active glycerol uptake in Saccharomyces cerevisiae
-
Holst B, Lunde C, Lages F, Oliveira R, Lucas C, et al. (2000) GUP1 and its close homologue GUP2, encoding multimembrane-spanning proteins involved in active glycerol uptake in Saccharomyces cerevisiae. Mol Microbiol 37: 108-124.
-
(2000)
Mol Microbiol
, vol.37
, pp. 108-124
-
-
Holst, B.1
Lunde, C.2
Lages, F.3
Oliveira, R.4
Lucas, C.5
-
41
-
-
0030761248
-
Identification and phenotypic analysis of two glyoxalase II encoding genes from Saccharomyces cerevisiae, GLO2 and GLO4, and intracellular localization of the corresponding proteins
-
Bito A, Haider M, Halder I, Breitenbach M (1997) Identification and phenotypic analysis of two glyoxalase II encoding genes from Saccharomyces cerevisiae, GLO2 and GLO4, and intracellular localization of the corresponding proteins. J Biol Chem 272: 21509-21519.
-
(1997)
J Biol Chem
, vol.272
, pp. 21509-21519
-
-
Bito, A.1
Haider, M.2
Halder, I.3
Breitenbach, M.4
-
42
-
-
0033609823
-
Alternatives to the isomerase-dependant pathway for the B-oxidation of oleic acid are dispensable in Saccharomyces cerevisiae
-
Gurvitz A, Mursula AM, Yagi AI, Hartig A, Ruis H, et al. (1999) Alternatives to the isomerase-dependant pathway for the B-oxidation of oleic acid are dispensable in Saccharomyces cerevisiae. J Biol Chem 274: 24514-24521.
-
(1999)
J Biol Chem
, vol.274
, pp. 24514-24521
-
-
Gurvitz, A.1
Mursula, A.M.2
Yagi, A.I.3
Hartig, A.4
Ruis, H.5
-
43
-
-
33645023614
-
Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts
-
In press
-
Scannell DR, Byrne KP, Gordon JL, Wong S, Wolfe KH (2006) Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts. Nature: In press.
-
(2006)
Nature
-
-
Scannell, D.R.1
Byrne, K.P.2
Gordon, J.L.3
Wong, S.4
Wolfe, K.H.5
-
44
-
-
0037173615
-
Functional profiling of the Saccharomyces cerevisiae genome
-
Giaever G, Chu AM, Ni L, Connelly C, Riles L, et al. (2002) Functional profiling of the Saccharomyces cerevisiae genome. Nature 418: 387-391.
-
(2002)
Nature
, vol.418
, pp. 387-391
-
-
Giaever, G.1
Chu, A.M.2
Ni, L.3
Connelly, C.4
Riles, L.5
-
45
-
-
0036699060
-
Systematic screen for human disease genes in yeast
-
Steinmetz LM, Scharfe C, Deutschbauer AM, Mokranjac D, Herman ZS, et al. (2002) Systematic screen for human disease genes in yeast. Nature Genet 31: 400-404.
-
(2002)
Nature Genet
, vol.31
, pp. 400-404
-
-
Steinmetz, L.M.1
Scharfe, C.2
Deutschbauer, A.M.3
Mokranjac, D.4
Herman, Z.S.5
-
46
-
-
0742324218
-
-
Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, et al. (2005) Saccharomyces Genome Database. Available: http://www.yeastgenome.org. Accessed 22 February 2006.
-
(2005)
Saccharomyces Genome Database
-
-
Balakrishnan, R.1
Christie, K.R.2
Costanzo, M.C.3
Dolinski, K.4
Dwight, S.S.5
-
47
-
-
0032770725
-
On the possibility of constructive neutral evolution
-
Stoltzfus A (1999) On the possibility of constructive neutral evolution. J Mol Evol 49: 169-181.
-
(1999)
J Mol Evol
, vol.49
, pp. 169-181
-
-
Stoltzfus, A.1
-
48
-
-
10944230777
-
Duplication and divergence: The evolution of new genes and old ideas
-
Taylor JS, Raes J (2004) Duplication and divergence: The evolution of new genes and old ideas. Ann Rev Genet 38: 615-643.
-
(2004)
Ann Rev Genet
, vol.38
, pp. 615-643
-
-
Taylor, J.S.1
Raes, J.2
-
49
-
-
0347033256
-
Role of duplicate genes in genetic robustness against null mutations
-
Gu Z, Steinmetz LM, Gu X, Scharfe C, Davis RW, et al. (2003) Role of duplicate genes in genetic robustness against null mutations. Nature 421: 63-66.
-
(2003)
Nature
, vol.421
, pp. 63-66
-
-
Gu, Z.1
Steinmetz, L.M.2
Gu, X.3
Scharfe, C.4
Davis, R.W.5
-
50
-
-
0029661332
-
Complex adaptations and the evolution of evolvability
-
Wagner GP, Altenberg L (1996) Complex adaptations and the evolution of evolvability. Evolution 50: 967-976.
-
(1996)
Evolution
, vol.50
, pp. 967-976
-
-
Wagner, G.P.1
Altenberg, L.2
-
51
-
-
0034609791
-
The large-scale organization of metabolic networks
-
Jeong H, Tombor B, Albert R, Oltvai ZN, Barabási A-L (2000) The large-scale organization of metabolic networks. Nature 407: 651-654.
-
(2000)
Nature
, vol.407
, pp. 651-654
-
-
Jeong, H.1
Tombor, B.2
Albert, R.3
Oltvai, Z.N.4
Barabási, A.-L.5
-
52
-
-
0038483826
-
Emergence of scaling in random networks
-
Barabási A-L, Albert R (1999) Emergence of scaling in random networks. Science 286: 509-512.
-
(1999)
Science
, vol.286
, pp. 509-512
-
-
Barabási, A.-L.1
Albert, R.2
-
53
-
-
0032482432
-
Collective dynamics of 'small-world' networks
-
Watt DJ, Strogatz SH (1998) Collective dynamics of 'small-world' networks. Nature 393: 440-442.
-
(1998)
Nature
, vol.393
, pp. 440-442
-
-
Watt, D.J.1
Strogatz, S.H.2
|