-
1
-
-
0030007094
-
Large-scale search for genes on which positive selection may operate
-
Endo T, Ikeo K, Gojobori T (1996) Large-scale search for genes on which positive selection may operate. Mol Biol Evol 13: 685-690.
-
(1996)
Mol Biol Evol
, vol.13
, pp. 685-690
-
-
Endo, T.1
Ikeo, K.2
Gojobori, T.3
-
2
-
-
0031021191
-
Rapid evolution of immunoglobulin superfamily C2 domains expressed in immune system cells
-
Hughes AL (1997) Rapid evolution of immunoglobulin superfamily C2 domains expressed in immune system cells. Mol Biol Evol 14: 1-5.
-
(1997)
Mol Biol Evol
, vol.14
, pp. 1-5
-
-
Hughes, A.L.1
-
3
-
-
19344362934
-
Ancient adaptive evolution of the primate antiviral DNA-editing enzyme APOBEC3G
-
DOI:10.1371/journal.pbio.0020275
-
Sawyer, SL, Emerman, M, Malik, HS (2004) Ancient adaptive evolution of the primate antiviral DNA-editing enzyme APOBEC3G. PLoS Biol 2: e275. DOI:10.1371/journal.pbio.0020275
-
(2004)
PLoS Biol
, vol.2
-
-
Sawyer, S.L.1
Emerman, M.2
Malik, H.S.3
-
5
-
-
0032736987
-
Positive selection on the H3 hemagglutinin gene of human influenza virus A
-
Bush RM, Fitch WM, Bender CA, Cox NJ (1999) Positive selection on the H3 hemagglutinin gene of human influenza virus A. Mol Biol Evol 16: 1457-1465.
-
(1999)
Mol Biol Evol
, vol.16
, pp. 1457-1465
-
-
Bush, R.M.1
Fitch, W.M.2
Bender, C.A.3
Cox, N.J.4
-
6
-
-
0031972161
-
Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene
-
Nielsen R, Yang Z (1998) Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics 148: 929-936.
-
(1998)
Genetics
, vol.148
, pp. 929-936
-
-
Nielsen, R.1
Yang, Z.2
-
7
-
-
0035912788
-
Evolutionary EST analysis identifies rapidly evolving male reproductive proteins in Drosophila
-
Swanson WJ, Clark AG, Waldrip-Dail HM, Wolfner MF, Aquadro CF (2000) Evolutionary EST analysis identifies rapidly evolving male reproductive proteins in Drosophila. Proc Natl Acad Sci U S A 98: 7375-7379.
-
(2000)
Proc Natl Acad Sci U S A
, vol.98
, pp. 7375-7379
-
-
Swanson, W.J.1
Clark, A.G.2
Waldrip-Dail, H.M.3
Wolfner, M.F.4
Aquadro, C.F.5
-
8
-
-
0037230001
-
Pervasive adaptive evolution in mammalian fertilization proteins
-
Swanson WJ, Nielsen R, Yang Q (2003) Pervasive adaptive evolution in mammalian fertilization proteins. Mol Biol Evol 20: 18-20.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 18-20
-
-
Swanson, W.J.1
Nielsen, R.2
Yang, Q.3
-
9
-
-
0033779877
-
Dichotomy of single-nucleotide polymorphism haplotypes in olfactory receptor genes and pseudogenes
-
Gilad Y, Segre D, Skorecki K, Nachman MW, Lancet D, et al. (2000) Dichotomy of single-nucleotide polymorphism haplotypes in olfactory receptor genes and pseudogenes. Nat Genet 26: 221-224.
-
(2000)
Nat Genet
, vol.26
, pp. 221-224
-
-
Gilad, Y.1
Segre, D.2
Skorecki, K.3
Nachman, M.W.4
Lancet, D.5
-
10
-
-
0346243805
-
Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios
-
Clark AG, Glanowski S, Nielsen R, Thomas PD, Kejariwal A, et al. (2003) Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios. Science 302: 1960-1963.
-
(2003)
Science
, vol.302
, pp. 1960-1963
-
-
Clark, A.G.1
Glanowski, S.2
Nielsen, R.3
Thomas, P.D.4
Kejariwal, A.5
-
11
-
-
67649345185
-
An improved Bonferroni procedure for multiple tests of significance
-
Simes RJ, (1986) An improved Bonferroni procedure for multiple tests of significance. Biometrika 73: 751-754.
-
(1986)
Biometrika
, vol.73
, pp. 751-754
-
-
Simes, R.J.1
-
12
-
-
0023764283
-
Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection
-
Hughes AL, Nei M (1988) Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 335: 167-170.
-
(1988)
Nature
, vol.335
, pp. 167-170
-
-
Hughes, A.L.1
Nei, M.2
-
13
-
-
0033639150
-
Statistical methods for detecting molecular adaptation
-
Yang Z, Bielawski J (2000) Statistical methods for detecting molecular adaptation. Trends Ecol Evol 15: 496-503.
-
(2000)
Trends Ecol Evol
, vol.15
, pp. 496-503
-
-
Yang, Z.1
Bielawski, J.2
-
14
-
-
0036094907
-
Genomewide comparison of DNA sequences between humans and chimpanzees
-
Ebersberger I, Metzler D, Schwarz C, Pääbo S (2002) Genomewide comparison of DNA sequences between humans and chimpanzees. Am J Hum Genet 70: 1490-1497.
-
(2002)
Am J Hum Genet
, vol.70
, pp. 1490-1497
-
-
Ebersberger, I.1
Metzler, D.2
Schwarz, C.3
Pääbo, S.4
-
15
-
-
2642575083
-
DNA sequence and comparative analysis of chimpanzee chromosome 22
-
Watanabe H, Fujiyama A, Hattori M, Taylor TD, Toyoda A, et al. (2004) DNA sequence and comparative analysis of chimpanzee chromosome 22. Nature 429: 382-388.
-
(2004)
Nature
, vol.429
, pp. 382-388
-
-
Watanabe, H.1
Fujiyama, A.2
Hattori, M.3
Taylor, T.D.4
Toyoda, A.5
-
16
-
-
0037249501
-
PANTHER: A browsable database of gene products organized by biological function, using curated protein family and subfamily classification
-
Thomas PD, Kejariwal A, Campbell MJ, Mi H, Diemer K, et al. (2003) PANTHER: A browsable database of gene products organized by biological function, using curated protein family and subfamily classification. Nucleic Acids Res 31: 334-341.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 334-341
-
-
Thomas, P.D.1
Kejariwal, A.2
Campbell, M.J.3
Mi, H.4
Diemer, K.5
-
17
-
-
0141742293
-
PANTHER: A library of protein families and subfamilies indexed by function
-
Thomas PD, Campbell MJ, Kejariwal A, Mi H, Karlak B, et al. (2003) PANTHER: A library of protein families and subfamilies indexed by function. Genome Res 13: 2129-2141.
-
(2003)
Genome Res
, vol.13
, pp. 2129-2141
-
-
Thomas, P.D.1
Campbell, M.J.2
Kejariwal, A.3
Mi, H.4
Karlak, B.5
-
18
-
-
0025255468
-
Allelic genealogy under overdominant and frequency-dependent selection and polymorphism of major histocompatibility complex loci
-
Takahata N, Nei M (1990) Allelic genealogy under overdominant and frequency-dependent selection and polymorphism of major histocompatibility complex loci. Genetics 124: 967-978.
-
(1990)
Genetics
, vol.124
, pp. 967-978
-
-
Takahata, N.1
Nei, M.2
-
19
-
-
0031738381
-
Eukaryotic transcription factors: Identification, characterization and functions
-
Yang VW (1998) Eukaryotic transcription factors: Identification, characterization and functions. J Nutr 128: 2045-2051.
-
(1998)
J Nutr
, vol.128
, pp. 2045-2051
-
-
Yang, V.W.1
-
20
-
-
0037007048
-
Large-scale analysis of the human and mouse transcriptomes
-
Su AI, Cooke MP, Ching KA, Hakak Y, Walker JR, et al. (2002) Large-scale analysis of the human and mouse transcriptomes. Proc Natl Acad Sci U S A 99: 4465-4470.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 4465-4470
-
-
Su, A.I.1
Cooke, M.P.2
Ching, K.A.3
Hakak, Y.4
Walker, J.R.5
-
21
-
-
2142757232
-
Progress in the use of microarray technology to study the neurobiology of disease
-
Mirnics K, Pevsner J (2004) Progress in the use of microarray technology to study the neurobiology of disease. Nat Neurosci 7: 434-439.
-
(2004)
Nat Neurosci
, vol.7
, pp. 434-439
-
-
Mirnics, K.1
Pevsner, J.2
-
22
-
-
0037066542
-
Intra- and interspecific variation in primate gene expression patterns
-
Enard W, Khaitovich P, Klose J, Zollner S, Heissig F, et al. (2002) Intra- and interspecific variation in primate gene expression patterns. Science 296: 340-343.
-
(2002)
Science
, vol.296
, pp. 340-343
-
-
Enard, W.1
Khaitovich, P.2
Klose, J.3
Zollner, S.4
Heissig, F.5
-
23
-
-
19344366754
-
Lineage-specific gene duplication and loss in human and great ape evolution
-
DOI:10.1371/journal.pbio.0020207
-
Fortna A, Kim Y, MacLaren E, Marshall K, Hahn G, et al. (2004) Lineage-specific gene duplication and loss in human and great ape evolution. PLoS Biol 2: e207. DOI:10.1371/journal.pbio.0020207
-
(2004)
PLoS Biol
, vol.2
-
-
Fortna, A.1
Kim, Y.2
MacLaren, E.3
Marshall, K.4
Hahn, G.5
-
24
-
-
11144331051
-
Accelerated evolution of nervous system genes in the origin of Homo sapiens
-
Dorus S, Vallender EJ, Evans PD, Anderson JR, Gilbert SL, et al. (2004) Accelerated evolution of nervous system genes in the origin of Homo sapiens. Cell 199: 1027-1040.
-
(2004)
Cell
, vol.199
, pp. 1027-1040
-
-
Dorus, S.1
Vallender, E.J.2
Evans, P.D.3
Anderson, J.R.4
Gilbert, S.L.5
-
25
-
-
0023501735
-
The relative rates of evolution of sex chromosomes and autosomes
-
Charlesworth B, Coyne JA, Barton NH (1987) The relative rates of evolution of sex chromosomes and autosomes. Am Nat 130: 113-146.
-
(1987)
Am Nat
, vol.130
, pp. 113-146
-
-
Charlesworth, B.1
Coyne, J.A.2
Barton, N.H.3
-
26
-
-
3142699709
-
Sex-linked mammalian sperm proteins evolve faster than autosomal ones
-
Torgerson DG, Singh RS (2003) Sex-linked mammalian sperm proteins evolve faster than autosomal ones. Mol Biol Evol 20: 1705-1709.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 1705-1709
-
-
Torgerson, D.G.1
Singh, R.S.2
-
27
-
-
0035071815
-
An abundance of X-linked genes expressed in spermatogonia
-
Wang PJ, McCarrey JR, Yang F, Page DC (2001) An abundance of X-linked genes expressed in spermatogonia. Nat Genet 27: 422-426.
-
(2001)
Nat Genet
, vol.27
, pp. 422-426
-
-
Wang, P.J.1
McCarrey, J.R.2
Yang, F.3
Page, D.C.4
-
28
-
-
0037061501
-
Strong male-driven evolution of DNA sequences in humans and apes
-
Makova KD, Li WH (2002) Strong male-driven evolution of DNA sequences in humans and apes. Nature 416: 624-626.
-
(2002)
Nature
, vol.416
, pp. 624-626
-
-
Makova, K.D.1
Li, W.H.2
-
29
-
-
11244324004
-
A pseudohitchhiking model of X vs. autosomal diversity
-
Betancourt AJ, Kim Y, Orr HA (2004) A pseudohitchhiking model of X vs. autosomal diversity. Genetics 168: 2261-2269.
-
(2004)
Genetics
, vol.168
, pp. 2261-2269
-
-
Betancourt, A.J.1
Kim, Y.2
Orr, H.A.3
-
30
-
-
0038015586
-
A neutral explanation for the correlation of diversity with recombination rates in humans
-
Hellmann I, Ebersberger I, Ptak SE, Paabo S, Przeworski M (2003) A neutral explanation for the correlation of diversity with recombination rates in humans. Am J Hum Genet 72: 1527-1535.
-
(2003)
Am J Hum Genet
, vol.72
, pp. 1527-1535
-
-
Hellmann, I.1
Ebersberger, I.2
Ptak, S.E.3
Paabo, S.4
Przeworski, M.5
-
31
-
-
0034688140
-
Rapid evolution of male reproductive genes in the descent of man
-
Wyckoff GJ, Wang W, Wu CI (2000) Rapid evolution of male reproductive genes in the descent of man. Nature 403: 304-309.
-
(2000)
Nature
, vol.403
, pp. 304-309
-
-
Wyckoff, G.J.1
Wang, W.2
Wu, C.I.3
-
32
-
-
0034688242
-
Evolutionary biology: Protamine wars
-
Clark AG, Civetta A (2000) Evolutionary biology: Protamine wars. Nature 403: 261-263.
-
(2000)
Nature
, vol.403
, pp. 261-263
-
-
Clark, A.G.1
Civetta, A.2
-
34
-
-
0029030962
-
Involvement of apoptosis in the induction of germ cell degeneration in adult rats after gonadotropin-releasing hormone antagonist treatment
-
Sinha Hikim AP, Wang C, Leung A, Swerdloff RS (1995) Involvement of apoptosis in the induction of germ cell degeneration in adult rats after gonadotropin-releasing hormone antagonist treatment. Endocrinology 136: 2770-2775.
-
(1995)
Endocrinology
, vol.136
, pp. 2770-2775
-
-
Sinha Hikim, A.P.1
Wang, C.2
Leung, A.3
Swerdloff, R.S.4
-
35
-
-
0030975776
-
An early and massive wave of germinal cell apoptosis is required for the development of functional spermatogenesis
-
Rodriquez I, Ody C, Araki K, Garcia I, Vassalli P (1997) An early and massive wave of germinal cell apoptosis is required for the development of functional spermatogenesis. EMBO J 16: 2262-2270.
-
(1997)
EMBO J
, vol.16
, pp. 2262-2270
-
-
Rodriquez, I.1
Ody, C.2
Araki, K.3
Garcia, I.4
Vassalli, P.5
-
36
-
-
0036187867
-
Fas expression correlates with human germ cell degeneration in meiotic and post-meiotic arrest of spermatogenesis
-
Francavilla S, D'Abrizio P, Cordeschi G, Pelliccione F, Necozione S, et al. (2002) Fas expression correlates with human germ cell degeneration in meiotic and post-meiotic arrest of spermatogenesis. Mol Hum Reprod 8: 213-220.
-
(2002)
Mol Hum Reprod
, vol.8
, pp. 213-220
-
-
Francavilla, S.1
D'Abrizio, P.2
Cordeschi, G.3
Pelliccione, F.4
Necozione, S.5
-
37
-
-
0030683599
-
PAML: A program for package for phylogenetic analysis by maximum likelihood
-
Yang Z (1997) PAML: A program for package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 15: 555-556.
-
(1997)
Comput Appl Biosci
, vol.15
, pp. 555-556
-
-
Yang, Z.1
-
38
-
-
0001935493
-
Gene genealogies and the coalescent process
-
Harvey PH, Partridge L, editors. New York: Oxford University Press
-
Hudson RR (1990) Gene genealogies and the coalescent process. In: Harvey PH, Partridge L, editors. Oxford surveys in evolutionary biology, Volume 7. New York: Oxford University Press. pp. 1-44.
-
(1990)
Oxford Surveys in Evolutionary Biology
, vol.7
, pp. 1-44
-
-
Hudson, R.R.1
-
39
-
-
0141566652
-
New explicit expressions for relative frequencies of single-nucleotide polymorphisms with application to statistical inference on population growth
-
Polanski A, Kimmel M (2003) New explicit expressions for relative frequencies of single-nucleotide polymorphisms with application to statistical inference on population growth. Genetics 165: 427-436.
-
(2003)
Genetics
, vol.165
, pp. 427-436
-
-
Polanski, A.1
Kimmel, M.2
-
40
-
-
1642282195
-
The allele frequency spectrum in genome-wide human variation data reveals signals of differential demographic history in three large world populations
-
Marth GT, Czabarka E, Murvai J, Sherry ST (2004) The allele frequency spectrum in genome-wide human variation data reveals signals of differential demographic history in three large world populations. Genetics 166: 351-372.
-
(2004)
Genetics
, vol.166
, pp. 351-372
-
-
Marth, G.T.1
Czabarka, E.2
Murvai, J.3
Sherry, S.T.4
-
41
-
-
0034809334
-
Statistical tests of neutrality in the age of genomics
-
Nielsen R (2001) Statistical tests of neutrality in the age of genomics. Heredity 86: 641-647.
-
(2001)
Heredity
, vol.86
, pp. 641-647
-
-
Nielsen, R.1
-
42
-
-
0036196885
-
The signature of positive selection at randomly chosen loci
-
Przeworski M (2002) The signature of positive selection at randomly chosen loci. Genetics 60: 1179-1189.
-
(2002)
Genetics
, vol.60
, pp. 1179-1189
-
-
Przeworski, M.1
-
43
-
-
0032053856
-
Characterization of SCML1, a new gene in Xp22, with homology to developmental polycomb genes
-
van de Vosse E, Walpole SM, Nicolaou A, van der Bent P, Cahn A, et al. (1998) Characterization of SCML1, a new gene in Xp22, with homology to developmental polycomb genes. Genomics 49: 96-102.
-
(1998)
Genomics
, vol.49
, pp. 96-102
-
-
Van De Vosse, E.1
Walpole, S.M.2
Nicolaou, A.3
Van Der Bent, P.4
Cahn, A.5
-
44
-
-
0026460082
-
Population genetics of polymorphism and divergence
-
Sawyer SA, Hartl DL (1992) Population genetics of polymorphism and divergence. Genetics 132: 1161-1176.
-
(1992)
Genetics
, vol.132
, pp. 1161-1176
-
-
Sawyer, S.A.1
Hartl, D.L.2
-
46
-
-
3042637218
-
Frequent false detection of positive selection by the likelihood method with branch-site models
-
Zhang J (2004) Frequent false detection of positive selection by the likelihood method with branch-site models. Mol Biol Evol 21: 1332-1339.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1332-1339
-
-
Zhang, J.1
-
47
-
-
8544225780
-
Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites
-
Wong W, Yang Z, Goldman N, Nielsen R (2004) Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics 168: 1041-1051.
-
(2004)
Genetics
, vol.168
, pp. 1041-1051
-
-
Wong, W.1
Yang, Z.2
Goldman, N.3
Nielsen, R.4
-
48
-
-
0030872838
-
PolyPhred: Automating the detection and genotyping of single nucleotide substitutions using fluorescence-based resequencing
-
Nickerson DA, Tobe VO, Taylor SL (1997) PolyPhred: Automating the detection and genotyping of single nucleotide substitutions using fluorescence-based resequencing. Nucleic Acids Res 25: 2745-2751.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 2745-2751
-
-
Nickerson, D.A.1
Tobe, V.O.2
Taylor, S.L.3
-
49
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
50
-
-
0033979433
-
Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models
-
Yang Z, Nielsen R (2000) Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol Biol Evol 17: 32-43.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 32-43
-
-
Yang, Z.1
Nielsen, R.2
|