-
1
-
-
77249102545
-
Comparing models of evolution for ordered and disordered proteins
-
Brown CJ, Johnson AK, Daughdrill GW. 2010. Comparing models of evolution for ordered and disordered proteins. Mol Biol Evol. 27:609-621.
-
(2010)
Mol Biol Evol.
, vol.27
, pp. 609-621
-
-
Brown, C.J.1
Johnson, A.K.2
Daughdrill, G.W.3
-
2
-
-
0036017388
-
Evolutionary rate heterogeneity in proteins with long disordered regions
-
DOI 10.1007/s00239-001-2309-6
-
Brown CJ, Takayama S, Campen AM, Vise P, Marshall TW, Oldfield CJ, Williams CJ, Dunker AK. 2002. Evolutionary rate heterogeneity in proteins with long disordered regions. J Mol Evol. 55:104-110. (Pubitemid 34634364)
-
(2002)
Journal of Molecular Evolution
, vol.55
, Issue.1
, pp. 104-110
-
-
Brown, C.J.1
Takayama, S.2
Campen, A.M.3
Vise, P.4
Marshall, T.W.5
Oldfield, C.J.6
Williams, C.J.7
Keith Dunker, A.8
-
3
-
-
34547657299
-
Opposite evolutionary effects between different alternative splicing patterns
-
Chen FC, Chaw SM, Tzeng YH, Wang SS, Chuang TJ. 2007. Opposite evolutionary effects between different alternative splicing patterns. Mol Biol Evol. 24:1443-1446.
-
(2007)
Mol Biol Evol.
, vol.24
, pp. 1443-1446
-
-
Chen, F.C.1
Chaw, S.M.2
Tzeng, Y.H.3
Wang, S.S.4
Chuang, T.J.5
-
4
-
-
33745106263
-
Identification and evolutionary analysis of novel exons and alternative splicing events using cross-species EST-To-genome comparisons in human, mouse and rat
-
Chen FC, Chen CJ, Ho JY, Chuang TJ. 2006. Identification and evolutionary analysis of novel exons and alternative splicing events using cross-species EST-To-genome comparisons in human, mouse and rat. BMC Bioinformatics. 7:136.
-
(2006)
BMC Bioinformatics.
, vol.7
, pp. 136
-
-
Chen, F.C.1
Chen, C.J.2
Ho, J.Y.3
Chuang, T.J.4
-
5
-
-
35948982990
-
Different alternative splicing patterns are subject to opposite selection pressure for protein reading frame preservation
-
Chen FC, Chuang TJ. 2007. Different alternative splicing patterns are subject to opposite selection pressure for protein reading frame preservation. BMC Evol Biol. 7:179.
-
(2007)
BMC Evol Biol.
, vol.7
, pp. 179
-
-
Chen, F.C.1
Chuang, T.J.2
-
6
-
-
33244483948
-
Alternatively and constitutively spliced exons are subject to different evolutionary forces
-
Chen FC, Wang SS, Chen CJ, Li WH, Chuang TJ. 2006. Alternatively and constitutively spliced exons are subject to different evolutionary forces. Mol Biol Evol. 23:675-682.
-
(2006)
Mol Biol Evol.
, vol.23
, pp. 675-682
-
-
Chen, F.C.1
Wang, S.S.2
Chen, C.J.3
Li, W.H.4
Chuang, T.J.5
-
7
-
-
75149164436
-
PreDisorder: Ab initio sequencebased prediction of protein disordered regions
-
Deng X, Eickholt J, Cheng J. 2009. PreDisorder: Ab initio sequencebased prediction of protein disordered regions. BMC Bioinformatics. 10:436.
-
(2009)
BMC Bioinformatics.
, vol.10
, pp. 436
-
-
Deng, X.1
Eickholt, J.2
Cheng, J.3
-
8
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
DOI 10.1093/nar/gkh340
-
Edgar RC. 2004. MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32:1792-1797. (Pubitemid 38832724)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
9
-
-
33646538440
-
Fast rate of evolution in alternatively spliced coding regions of mammalian genes
-
Ermakova EO, Nurtdinov RN, Gelfand MS. 2006. Fast rate of evolution in alternatively spliced coding regions of mammalian genes. BMC Genomics. 7:84.
-
(2006)
BMC Genomics.
, vol.7
, pp. 84
-
-
Ermakova, E.O.1
Nurtdinov, R.N.2
Gelfand, M.S.3
-
10
-
-
75549090603
-
The Pfam protein families database
-
(14 co-Authors
-
Finn RD, Mistry J, Tate J, et al. (14 co-Authors). 2010. The Pfam protein families database. Nucleic Acids Res. 38:D211-D222.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Finn, R.D.1
Mistry, J.2
Tate, J.3
-
11
-
-
58149328496
-
GC-biased gene conversion promotes the fixation of deleterious amino acid changes in primates
-
Galtier N, Duret L, Glemin S, Ranwez V. 2009. GC-biased gene conversion promotes the fixation of deleterious amino acid changes in primates. Trends Genet. 25:1-5.
-
(2009)
Trends Genet.
, vol.25
, pp. 1-5
-
-
Galtier, N.1
Duret, L.2
Glemin, S.3
Ranwez, V.4
-
12
-
-
76149130971
-
Alternative splicing: Global insights
-
Hallegger M, Llorian M, Smith CW. 2010. Alternative splicing: Global insights. FEBS J. 277:856-866.
-
(2010)
FEBS J.
, vol.277
, pp. 856-866
-
-
Hallegger, M.1
Llorian, M.2
Smith, C.W.3
-
13
-
-
57049156519
-
Exploring the evolutionary rate differences of party hub and date hub proteins in Saccharomyces cerevisiae protein-protein interaction network
-
Kahali B, Ahmad S, Ghosh TC. 2009. Exploring the evolutionary rate differences of party hub and date hub proteins in Saccharomyces cerevisiae protein-protein interaction network. Gene 429:18-22.
-
(2009)
Gene
, vol.429
, pp. 18-22
-
-
Kahali, B.1
Ahmad, S.2
Ghosh, T.C.3
-
14
-
-
77951120000
-
Alternative splicing and evolution: Diversification, exon definition and function
-
Keren H, Lev-Maor G, Ast G. 2010. Alternative splicing and evolution: Diversification, exon definition and function. Nat Rev Genet. 11:345-355.
-
(2010)
Nat Rev Genet.
, vol.11
, pp. 345-355
-
-
Keren, H.1
Lev-Maor, G.2
Ast, G.3
-
15
-
-
34548539463
-
Understanding relationship between sequence and functional evolution in yeast proteins
-
DOI 10.1007/s10709-006-9125-2
-
Kim SH, Yi SV. 2007. Understanding relationship between sequence and functional evolution in yeast proteins. Genetica 131:151-156. (Pubitemid 47383175)
-
(2007)
Genetica
, vol.131
, Issue.2
, pp. 151-156
-
-
Kim, S.-H.1
Yi, S.V.2
-
16
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
DOI 10.1093/bioinformatics/btm404
-
Larkin MA, Blackshields G, Brown NP, et al. (13 co-Authors). 2007. Clustal W and Clustal X version 2.0. Bioinformatics 23:2947-2948. (Pubitemid 350162903)
-
(2007)
Bioinformatics
, vol.23
, Issue.21
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
Mcgettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
Thompson, J.D.11
Gibson, T.J.12
Higgins, D.G.13
-
17
-
-
17744376961
-
Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions
-
DOI 10.1093/molbev/msi122
-
Lemos B, Bettencourt BR, Meiklejohn CD, Hartl DL. 2005. Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions. Mol Biol Evol. 22:1345-1354. (Pubitemid 40577773)
-
(2005)
Molecular Biology and Evolution
, vol.22
, Issue.5
, pp. 1345-1354
-
-
Lemos, B.1
Bettencourt, B.R.2
Meiklejohn, C.D.3
Hartl, D.L.4
-
18
-
-
62549149803
-
The rapid evolution of signal peptides is mainly caused by relaxed selection on non-synonymous and synonymous sites
-
Li YD, Xie ZY, Du YL, Zhou Z, Mao XM, Lv LX, Li YQ. 2009. The rapid evolution of signal peptides is mainly caused by relaxed selection on non-synonymous and synonymous sites. Gene 436:8-11.
-
(2009)
Gene
, vol.436
, pp. 8-11
-
-
Li, Y.D.1
Xie, Z.Y.2
Du, Y.L.3
Zhou, Z.4
Mao, X.M.5
Lv, L.X.6
Li, Y.Q.7
-
20
-
-
0038617729
-
Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss
-
DOI 10.1038/ng1159
-
Modrek B, Lee CJ. 2003. Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss. Nat Genet. 34:177-180. (Pubitemid 36666928)
-
(2003)
Nature Genetics
, vol.34
, Issue.2
, pp. 177-180
-
-
Modrek, B.1
Lee, C.J.2
-
21
-
-
0036144777
-
S ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study
-
DOI 10.1101/gr.200901
-
Nekrutenko A, Makova KD , Li WH. 2002. The K(A)/K(S) ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study. Genome Res. 12: 198-202. (Pubitemid 34065602)
-
(2002)
Genome Research
, vol.12
, Issue.1
, pp. 198-202
-
-
Nekrutenko, A.1
Makova, K.D.2
Li, W.-H.3
-
22
-
-
0037669010
-
Low conservation of alternative splicing patterns in the human and mouse genomes
-
DOI 10.1093/hmg/ddg137
-
Nurtdinov RN, Artamonova II, Mironov AA, Gelfand MS. 2003. Low conservation of alternative splicing patterns in the human and mouse genomes. Hum Mol Genet. 12:1313-1320. (Pubitemid 36722611)
-
(2003)
Human Molecular Genetics
, vol.12
, Issue.11
, pp. 1313-1320
-
-
Nurtdinov, R.N.1
Artamonova, I.I.2
Mironov, A.A.3
Gelfand, M.S.4
-
23
-
-
77949360998
-
Modularity of intrinsic disorder in the human proteome
-
Pentony MM, Jones DT. 2009. Modularity of intrinsic disorder in the human proteome. Proteins. 78:212-221.
-
(2009)
Proteins.
, vol.78
, pp. 212-221
-
-
Pentony, M.M.1
Jones, D.T.2
-
25
-
-
46149101497
-
Positive selection in alternatively spliced exons of human genes
-
Ramensky VE, Nurtdinov RN, Neverov AD, Mironov AA, Gelfand MS. 2008. Positive selection in alternatively spliced exons of human genes. Am J Hum Genet. 83:94-98.
-
(2008)
Am J Hum Genet.
, vol.83
, pp. 94-98
-
-
Ramensky, V.E.1
Nurtdinov, R.N.2
Neverov, A.D.3
Mironov, A.A.4
Gelfand, M.S.5
-
26
-
-
33744814686
-
Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms
-
DOI 10.1073/pnas.0507916103
-
Romero PR, Zaidi S, Fang YY, et al. (11 co-Authors). 2006. Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms. Proc Natl Acad Sci U S A. 103:8390-8395. (Pubitemid 43838465)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.22
, pp. 8390-8395
-
-
Romero, P.R.1
Zaidi, S.2
Fang, Y.Y.3
Uversky, V.N.4
Radivojac, P.5
Oldfield, C.J.6
Cortese, M.S.7
Sickmeier, M.8
LeGall, T.9
Obradovic, Z.10
Dunker, A.K.11
-
29
-
-
3242891318
-
The DISOPRED server for the prediction of protein disorder
-
DOI 10.1093/bioinformatics/bth195
-
Ward JJ, McGuffin LJ, Bryson K, Buxton BF, Jones DT. 2004. The DISOPRED server for the prediction of protein disorder. Bioinformatics. 20:2138-2139. (Pubitemid 39236567)
-
(2004)
Bioinformatics
, vol.20
, Issue.13
, pp. 2138-2139
-
-
Ward, J.J.1
McGuffin, L.J.2
Bryson, K.3
Buxton, B.F.4
Jones, D.T.5
-
30
-
-
4444365702
-
Negative selection pressure against premature protein truncation is reduced by alternative splicing and diploidy
-
DOI 10.1016/j.tig.2004.07.009, PII S0168952504002094
-
Xing Y, Lee CJ. 2004. Negative selection pressure against premature protein truncation is reduced by alternative splicing and diploidy. Trends Genet. 20:472-475. (Pubitemid 39201065)
-
(2004)
Trends in Genetics
, vol.20
, Issue.10
, pp. 472-475
-
-
Xing, Y.1
Lee, C.J.2
-
31
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z. 1997. PAML: A program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci. 13:555-556. (Pubitemid 27480216)
-
(1997)
Computer Applications in the Biosciences
, vol.13
, Issue.5
, pp. 555-556
-
-
Yang, Z.1
|