-
1
-
-
0345316714
-
Increase of functional diversity by alternative splicing
-
Kriventseva EV, Koch I, Apweiler R, Vingron M, Bork P, Gelfand MS, Sunyaev S: Increase of functional diversity by alternative splicing. Trends Genet 2003, 19:124-128.
-
(2003)
Trends Genet
, vol.19
, pp. 124-128
-
-
Kriventseva, E.V.1
Koch, I.2
Apweiler, R.3
Vingron, M.4
Bork, P.5
Gelfand, M.S.6
Sunyaev, S.7
-
2
-
-
0038617729
-
Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss
-
Modrek B, Lee CJ: Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/ or loss. Nat Genet 2003, 34:177-180.
-
(2003)
Nat Genet
, vol.34
, pp. 177-180
-
-
Modrek, B.1
Lee, C.J.2
-
3
-
-
33646577619
-
Computational analysis of alternative splicing
-
Chapman & Hall/CRC Computer & Information Science Series Volume 9. Edited by: Alluru S. New York. Chapman & Hall/CRC
-
Gelfand MS: Computational analysis of alternative splicing. In Handbook of Computational Molecular Biology, Chapman & Hall/CRC Computer & Information Science Series Volume 9. Edited by: Alluru S. New York. Chapman & Hall/CRC; 2005.
-
(2005)
Handbook of Computational Molecular Biology
-
-
Gelfand, M.S.1
-
4
-
-
20044383938
-
Alternative splicing and gene duplication are inversely correlated evolutionary mechanisms
-
Kopelman NM, Lancet D, Yanai I: Alternative splicing and gene duplication are inversely correlated evolutionary mechanisms. Nature Genet 2005, 37:588-589.
-
(2005)
Nature Genet
, vol.37
, pp. 588-589
-
-
Kopelman, N.M.1
Lancet, D.2
Yanai, I.3
-
5
-
-
32044443159
-
Evolution of alternative splicing after gene duplication
-
Su Z, Wang J, Yu J, Huang X, Gu X: Evolution of alternative splicing after gene duplication. Genome Res 2006, 16:182-189.
-
(2006)
Genome Res
, vol.16
, pp. 182-189
-
-
Su, Z.1
Wang, J.2
Yu, J.3
Huang, X.4
Gu, X.5
-
6
-
-
0037308625
-
Translational control by the 3′-UTR: The ends specify the means
-
Mazumder B, Seshadri V, Fox PL: Translational control by the 3′-UTR: the ends specify the means. Trends Biochem Sci 2003, 28:91-98.
-
(2003)
Trends Biochem Sci
, vol.28
, pp. 91-98
-
-
Mazumder, B.1
Seshadri, V.2
Fox, P.L.3
-
7
-
-
1942467065
-
Genomic variants in exons and introns: Identifying the splicing spoilers
-
Pagani F, Baralle FE: Genomic variants in exons and introns: identifying the splicing spoilers. Nat Rev Genet 2004, 5:389-396.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 389-396
-
-
Pagani, F.1
Baralle, F.E.2
-
8
-
-
16344362654
-
The evolution of transcription-initiation sites
-
Lynch M, Scofield DG, Hong X: The evolution of transcription-initiation sites. Mol Biol Evol 2005, 22:1137-1146.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1137-1146
-
-
Lynch, M.1
Scofield, D.G.2
Hong, X.3
-
10
-
-
0037669010
-
Low conservation of alternative splicing patterns in the human and mouse genomes
-
Nurtdinov RN, Artamonova II, Mironov AA, Gelfand MS: Low conservation of alternative splicing patterns in the human and mouse genomes. Hum Mol Genet 2003, 12:1313-1320.
-
(2003)
Hum Mol Genet
, vol.12
, pp. 1313-1320
-
-
Nurtdinov, R.N.1
Artamonova, I.I.2
Mironov, A.A.3
Gelfand, M.S.4
-
11
-
-
0037084825
-
Categorization and characterization of transcript-confirmed constitutively and alternatively spliced introns and exons from human
-
Clark F, Thanaraj TA: Categorization and characterization of transcript-confirmed constitutively and alternatively spliced introns and exons from human. Hum Mol Genet 2001, 11:451-464.
-
(2001)
Hum Mol Genet
, vol.11
, pp. 451-464
-
-
Clark, F.1
Thanaraj, T.A.2
-
12
-
-
0034326362
-
Analysis of canonical and non-canonical splice sites in mammalian genomes
-
Burset M, Seledtsov IA, Solovyev VV: Analysis of canonical and non-canonical splice sites in mammalian genomes. Nucleic Acids Res 2000, 28:4364-4375.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 4364-4375
-
-
Burset, M.1
Seledtsov, I.A.2
Solovyev, V.V.3
-
13
-
-
0038486897
-
Intronic sequences flanking alternatively spliced exons are conserved between human and mouse
-
Sorek R, Ast G: Intronic sequences flanking alternatively spliced exons are conserved between human and mouse. Genome Res 2003, 13:1631-1637.
-
(2003)
Genome Res
, vol.13
, pp. 1631-1637
-
-
Sorek, R.1
Ast, G.2
-
14
-
-
4444291467
-
A non-EST-based method for exon-skipping prediction
-
Sorek R, Shemesh R, Cohen Y, Basechess O, Ast G, Shamir R: A non-EST-based method for exon-skipping prediction. Genome Res 2004, 14:1617-1623.
-
(2004)
Genome Res
, vol.14
, pp. 1617-1623
-
-
Sorek, R.1
Shemesh, R.2
Cohen, Y.3
Basechess, O.4
Ast, G.5
Shamir, R.6
-
15
-
-
14544277546
-
Identification and analysis of alternative splicing events conserved in human and mouse
-
Yeo GW, Van Nostrand E, Holste D, Poggio T, Burge CB: Identification and analysis of alternative splicing events conserved in human and mouse. Proc Natl Acad Sci U S A 2005, 102:2850-2855.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 2850-2855
-
-
Yeo, G.W.1
Van Nostrand, E.2
Holste, D.3
Poggio, T.4
Burge, C.B.5
-
16
-
-
27544498768
-
Assessing the application of Ka/Ks ratio test to alternatively spliced exons
-
Xing Y, Lee C: Assessing the application of Ka/Ks ratio test to alternatively spliced exons. Bioinformatics 2005, 21:3701-3797.
-
(2005)
Bioinformatics
, vol.21
, pp. 3701-3797
-
-
Xing, Y.1
Lee, C.2
-
17
-
-
0034736528
-
A test of translational selection at 'silent' sites in the human genome: Base composition comparisons in alternatively spliced genes
-
Iida K, Akashi H: A test of translational selection at 'silent' sites in the human genome: base composition comparisons in alternatively spliced genes. Gene 2000, 261:93-105.
-
(2000)
Gene
, vol.261
, pp. 93-105
-
-
Iida, K.1
Akashi, H.2
-
18
-
-
3242811414
-
Rapid evolution by positive Darwinian selection in the extracellular domain of the abundant lymphocyte protein CD45 in primates
-
Filip LC, Mundy NI: Rapid evolution by positive Darwinian selection in the extracellular domain of the abundant lymphocyte protein CD45 in primates. Mol Biol Evol 2004, 21:1504-1511.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1504-1511
-
-
Filip, L.C.1
Mundy, N.I.2
-
19
-
-
0035252561
-
Evidence for purifying selection acting on silent sites in BRCAI
-
Hurst LD, Pál C: Evidence for purifying selection acting on silent sites in BRCAI. Trends Genet 2001, 17:62-65.
-
(2001)
Trends Genet
, vol.17
, pp. 62-65
-
-
Hurst, L.D.1
Pál, C.2
-
20
-
-
0035340508
-
Purifying selection on silent sites - A constraint from splicing regulation?
-
Orban TI, Olah E: Purifying selection on silent sites - a constraint from splicing regulation? Trends Genet 2001, 17:252-253.
-
(2001)
Trends Genet
, vol.17
, pp. 252-253
-
-
Orban, T.I.1
Olah, E.2
-
21
-
-
26444593981
-
Evidence of functional selection pressure for, alternative splicing events that accelerate evolution of protein subsequences
-
Xing Y, Lee C: Evidence of functional selection pressure for, alternative splicing events that accelerate evolution of protein subsequences. Proc Natl Acad Sci U S A 2005, 102:13526-13531.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 13526-13531
-
-
Xing, Y.1
Lee, C.2
-
22
-
-
19344363466
-
Preferential duplication of conserved proteins in eukaryotic genomes
-
Davis JC, Petrov DA: Preferential duplication of conserved proteins in eukaryotic genomes. PLoS Biol 2004, 2:318-326.
-
(2004)
PLoS Biol
, vol.2
, pp. 318-326
-
-
Davis, J.C.1
Petrov, D.A.2
-
24
-
-
0141853996
-
Asymmetric sequence divergence of duplicate genes
-
Conant GC, Wagner A: Asymmetric sequence divergence of duplicate genes. Genome Res 2003, 13:2052-2058.
-
(2003)
Genome Res
, vol.13
, pp. 2052-2058
-
-
Conant, G.C.1
Wagner, A.2
-
25
-
-
0642373709
-
Different evolutionary patterns between young duplicate genes in the human genome
-
Zhang P, Gu Z, Li WH: Different evolutionary patterns between young duplicate genes in the human genome. Genome Biol 2003, 4:R56.
-
(2003)
Genome Biol
, vol.4
-
-
Zhang, P.1
Gu, Z.2
Li, W.H.3
-
26
-
-
0033977618
-
Determinants of substitution rates in mammalian genes: Expression pattern affects selection intensity but not mutation rate
-
Duret L, Mouchiroud D: Determinants of substitution rates in mammalian genes: expression pattern affects selection intensity but not mutation rate. Mol Biol Evol 2000, 17:68-74.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 68-74
-
-
Duret, L.1
Mouchiroud, D.2
-
27
-
-
0034978556
-
Highly expressed genes in yeast evolve slowly
-
Pal C, Papp B, Hurst LD: Highly expressed genes in yeast evolve slowly. Genetics 2001, 158:927-931.
-
(2001)
Genetics
, vol.158
, pp. 927-931
-
-
Pal, C.1
Papp, B.2
Hurst, L.D.3
-
28
-
-
8744268628
-
Duplicated genes evolve slower than singletons despite the initial rate increase
-
Jordan IK, Wolf YI, Koonin EV: Duplicated genes evolve slower than singletons despite the initial rate increase. BMC Evol Biol 2004, 4:22.
-
(2004)
BMC Evol Biol
, vol.4
, pp. 22
-
-
Jordan, I.K.1
Wolf, Y.I.2
Koonin, E.V.3
-
29
-
-
55449137900
-
Protein Modularity of Alternatively Spliced Exons Is Associated with Tissue-Specific Regulation of Alternative Splicing
-
Xing Y, Lee CJ: Protein Modularity of Alternatively Spliced Exons Is Associated with Tissue-Specific Regulation of Alternative Splicing. PLoS Genet 2005, 1:e34.
-
(2005)
PLoS Genet
, vol.1
-
-
Xing, Y.1
Lee, C.J.2
-
30
-
-
30744469841
-
Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers
-
Parmley JL, Chamary JV, Hurst LD: Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers. Mol Biol Evol 2006, 23:301-309.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 301-309
-
-
Parmley, J.L.1
Chamary, J.V.2
Hurst, L.D.3
-
31
-
-
33644853819
-
Can RNA selection pressure distort the measurement of Ka/Ks?
-
in press. Feb 16
-
Xing Y, Lee C: Can RNA selection pressure distort the measurement of Ka/ Ks? Gene in press. 2006, Feb 16
-
(2006)
Gene
-
-
Xing, Y.1
Lee, C.2
-
32
-
-
0028906291
-
New methods for estimating the numbers of synonymous and nonsynonymous substitutions
-
Ina Y: New methods for estimating the numbers of synonymous and nonsynonymous substitutions. J Mol Evol 1995, 40:190-226.
-
(1995)
J Mol Evol
, vol.40
, pp. 190-226
-
-
Ina, Y.1
-
33
-
-
0030683599
-
PAML: A program package for phylogenetics analysis by maximum likelyhood
-
Yang Z: PAML: a program package for phylogenetics analysis by maximum likelyhood. Comput Appl Biosci 1997, 13:555-556.
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
34
-
-
84872268583
-
Evolutionary differences between alternative and constant protein-coding regions of alternatively spliced Drosophila genes
-
in press
-
Ermakova EO, Malko DB, Gelfand MS: Evolutionary differences between alternative and constant protein-coding regions of alternatively spliced Drosophila genes. Biofizika in press.
-
Biofizika
-
-
Ermakova, E.O.1
Malko, D.B.2
Gelfand, M.S.3
-
35
-
-
33645521073
-
Evolution of the exon-intron structure and alternative splicing in fruit flies and malarial mosquito genomes
-
Malko DB, Makeev VJ, Mironov AA, Gelfand MS: Evolution of the exon-intron structure and alternative splicing in fruit flies and malarial mosquito genomes. Genome Res 2006, 16(4):505-9.
-
(2006)
Genome Res
, vol.16
, Issue.4
, pp. 505-509
-
-
Malko, D.B.1
Makeev, V.J.2
Mironov, A.A.3
Gelfand, M.S.4
-
36
-
-
26444473715
-
Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons
-
Cusack BP, Wolfe KH: Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons. Mol Biol Evol 2005, 22:2198-2208.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2198-2208
-
-
Cusack, B.P.1
Wolfe, K.H.2
-
37
-
-
33646537955
-
Human SNPs and alternative splicing
-
18-21 July 2005; Moscow
-
Ramensky V, Neverov AD, Nurtdinov RN, Mironov AA, Gelfand MS: Human SNPs and alternative splicing. Proceedings of the Second International Moscow Conference on Computational Molecular Biology: 18-21 July 2005; Moscow 2005:317-318.
-
(2005)
Proceedings of the Second International Moscow Conference on Computational Molecular Biology
, pp. 317-318
-
-
Ramensky, V.1
Neverov, A.D.2
Nurtdinov, R.N.3
Mironov, A.A.4
Gelfand, M.S.5
-
38
-
-
84872266578
-
-
NCBI Reference Sequence (RefSeq)
-
NCBI Reference Sequence (RefSeq) [http://www.ncbi.nlm.nih.gov/RefSeq/]
-
-
-
-
39
-
-
0035748444
-
Constant relative rate of protein evolution and detection of functional diversification among bacterial, archaeal and eukaryotic proteins
-
research0053.1-0053.9
-
Jordan IK, Kondrashov FA, Rogozin IB, Tatusov RL, Wolf YI, Koonin EV: Constant relative rate of protein evolution and detection of functional diversification among bacterial, archaeal and eukaryotic proteins. Genome Biol 2001, 2:research0053.1-0053.9.
-
(2001)
Genome Biol
, vol.2
-
-
Jordan, I.K.1
Kondrashov, F.A.2
Rogozin, I.B.3
Tatusov, R.L.4
Wolf, Y.I.5
Koonin, E.V.6
-
40
-
-
84872277078
-
-
EDAS: EST-Derived Alternative Splicing Database
-
EDAS: EST-Derived Alternative Splicing Database [http://www.belozersky.msu.ru/edas/]
-
-
-
-
41
-
-
0035113035
-
Pro-Frame: Similarity-based gene recognition in eukaryotic DNA sequences with errors
-
Mironov AA, Novichkov PS, Gelfand MS: Pro-Frame: similarity-based gene recognition in eukaryotic DNA sequences with errors. Bioinformatics 2001, 17:13-15.
-
(2001)
Bioinformatics
, vol.17
, pp. 13-15
-
-
Mironov, A.A.1
Novichkov, P.S.2
Gelfand, M.S.3
|