-
1
-
-
0042208362
-
Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites
-
M Anisimova R Nielsen Z Yang 2003 Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites Genetics 164 1229 1236
-
(2003)
Genetics
, vol.164
, pp. 1229-1236
-
-
Anisimova, M.1
Nielsen, R.2
Yang, Z.3
-
2
-
-
20444396509
-
Directed mutagenesis confirms the functional importance of positively selected sites in polygalacturonase inhibitor protein
-
JG Bishop 2005 Directed mutagenesis confirms the functional importance of positively selected sites in polygalacturonase inhibitor protein Mol Biol Evol 22 1531 1534
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1531-1534
-
-
Bishop, J.G.1
-
3
-
-
0034115566
-
Phylogeny of taxaceae and cephalotaxaceae genera inferred from chloroplast matK gene and nuclear rDNA ITS region
-
Y Cheng RG Nicolson K Tripp SM Chaw 2000 Phylogeny of taxaceae and cephalotaxaceae genera inferred from chloroplast matK gene and nuclear rDNA ITS region Mol Phylogenet Evol 14 353 365
-
(2000)
Mol Phylogenet Evol
, vol.14
, pp. 353-365
-
-
Cheng, Y.1
Nicolson, R.G.2
Tripp, K.3
Chaw, S.M.4
-
4
-
-
33846818777
-
Combined empirical and mechanistic codon model
-
A Doron-Faigenboim TA Pupko 2007 Combined empirical and mechanistic codon model Mol Biol Evol 24 388 397
-
(2007)
Mol Biol Evol
, vol.24
, pp. 388-397
-
-
Doron-Faigenboim, A.1
Pupko, T.A.2
-
5
-
-
0016197604
-
Amino-acid difference formula to help explain protein evolution
-
R Grantham 1974 Amino-acid difference formula to help explain protein evolution Science 185 862 864
-
(1974)
Science
, vol.185
, pp. 862-864
-
-
Grantham, R.1
-
7
-
-
0028964563
-
Cyclization of geranylgeranyl diphosphate to taxa-4(5),11(12)-diene is the committed step of Taxol biosynthesis in Pacific yew
-
E Koepp M Hezari J Zajicek 1995 Cyclization of geranylgeranyl diphosphate to taxa-4(5),11(12)-diene is the committed step of Taxol biosynthesis in Pacific yew J Biol Chem 270 8686 8690
-
(1995)
J Biol Chem
, vol.270
, pp. 8686-8690
-
-
Koepp, E.1
Hezari, M.2
Zajicek, J.3
-
8
-
-
17744396121
-
Not so different after All: A comparison of methods for detecting amino acid sites under selection
-
SL Kosakovsky Pond SD Frost 2005 Not so different after All: a comparison of methods for detecting amino acid sites under selection Mol Biol Evol 22 1208 1222
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1208-1222
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
9
-
-
17744395033
-
Datamonkey: Rapid detection of selective pressure on individual sites of codon alignments
-
SL Kosakovsky Pond SD Frost 2005 Datamonkey: rapid detection of selective pressure on individual sites of codon alignments Bioinformatics 21 2531 2533
-
(2005)
Bioinformatics
, vol.21
, pp. 2531-2533
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
10
-
-
14544275616
-
A genetic algorithm approach to detecting lineage-specific variation in selection pressure
-
SL Kosakovsky Pond SD Frost 2005 A genetic algorithm approach to detecting lineage-specific variation in selection pressure Mol Biol Evol 22 478 485
-
(2005)
Mol Biol Evol
, vol.22
, pp. 478-485
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
12
-
-
0021710490
-
Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications
-
WH Li CI Wu CC Luo 1984 Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications J Mol Evol 21 58 71
-
(1984)
J Mol Evol
, vol.21
, pp. 58-71
-
-
Li, W.H.1
Wu, C.I.2
Luo, C.C.3
-
13
-
-
0842263293
-
Phylogeny and biogeography of Taxus (Taxaceae) inferred from sequences of the internal transcribed spacer region of nuclear ribosomal DNA
-
J Li CC Davis PD Tredici 2001 Phylogeny and biogeography of Taxus (Taxaceae) inferred from sequences of the internal transcribed spacer region of nuclear ribosomal DNA Harvard Papers Bot 6 267 274
-
(2001)
Harvard Papers Bot
, vol.6
, pp. 267-274
-
-
Li, J.1
Davis, C.C.2
Tredici, P.D.3
-
14
-
-
20044368434
-
Patterns of diversifying selection in the phytotoxin-like scr74 gene family of Phytophthora infestans
-
Z Liu JIB Bos M Armstrong 2005 Patterns of diversifying selection in the phytotoxin-like scr74 gene family of Phytophthora infestans Mol Biol Evol 22 659 672
-
(2005)
Mol Biol Evol
, vol.22
, pp. 659-672
-
-
Liu, Z.1
Bos, J.I.B.2
Armstrong, M.3
-
15
-
-
0027328291
-
Chloroplast DNA codon use: Evidence for selection at the psbA locus based on tRNA availability
-
BR Morton 1993 Chloroplast DNA codon use: evidence for selection at the psbA locus based on tRNA availability J Mol Evol 37 273 280
-
(1993)
J Mol Evol
, vol.37
, pp. 273-280
-
-
Morton, B.R.1
-
16
-
-
20444430245
-
A scan for positively selected genes in the genomes of Humans and Chimpanzees
-
R Nielsen C Bustamante AG Clark 2005 A scan for positively selected genes in the genomes of Humans and Chimpanzees PloS Biol 3 976 985
-
(2005)
PloS Biol
, vol.3
, pp. 976-985
-
-
Nielsen, R.1
Bustamante, C.2
Clark, A.G.3
-
17
-
-
33747828694
-
ModelTest Server: A web-based tool for the statistical selection of models of nucleotide substitution online
-
D Posada 2006 ModelTest Server: a web-based tool for the statistical selection of models of nucleotide substitution online Nucleic Acids Res 34 W700 703
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 700-703
-
-
Posada, D.1
-
18
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
F Ronquist JP Huelsenbeck 2003 MrBayes 3: Bayesian phylogenetic inference under mixed models Bioinformatics 19 1572 1574
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
19
-
-
0347513220
-
DnaSP, DNA polymorphism analyses by the coalescent and other methods
-
J Rozas JC Sánchez-DelBarrio X Messeguer 2003 DnaSP, DNA polymorphism analyses by the coalescent and other methods Bioinformatics 19 2496 2497
-
(2003)
Bioinformatics
, vol.19
, pp. 2496-2497
-
-
Rozas, J.1
Sánchez-Delbarrio, J.C.2
Messeguer, X.3
-
20
-
-
0026002819
-
Determinants of DNA sequence divergence between Escherichia coli and Salmonella typhimurium: Codon usage, map position, and concerted evolution
-
PM Sharp 1991 Determinants of DNA sequence divergence between Escherichia coli and Salmonella typhimurium: codon usage, map position, and concerted evolution J Mol Evol 33 23 33
-
(1991)
J Mol Evol
, vol.33
, pp. 23-33
-
-
Sharp, P.M.1
-
21
-
-
35848934793
-
Taxonomy and nomenclature of Taxus
-
RW Spjut 2007 Taxonomy and nomenclature of Taxus J Bot Res Inst Texas 23 203 289
-
(2007)
J Bot Res Inst Texas
, vol.23
, pp. 203-289
-
-
Spjut, R.W.1
-
22
-
-
37349038628
-
A phytogeographical analysis of Taxus (Taxaceae) based on leaf anatomical characters
-
RW Spjut 2007 A phytogeographical analysis of Taxus (Taxaceae) based on leaf anatomical characters J Bot Res Inst Texas 23 291 332
-
(2007)
J Bot Res Inst Texas
, vol.23
, pp. 291-332
-
-
Spjut, R.W.1
-
23
-
-
0035957018
-
Positive darwinian selection in the evolution of mammalian female reproductive proteins
-
WJ Swanson Z Yang MF Wolfner 2001 Positive darwinian selection in the evolution of mammalian female reproductive proteins Proc Natl Acad Sci USA 98 2509 2514
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 2509-2514
-
-
Swanson, W.J.1
Yang, Z.2
Wolfner, M.F.3
-
24
-
-
59449085316
-
-
Sinauer Associates Sunderland, Massachusetts
-
Swofford DL (2002) PAUP*. Phylogenetic analysis using parsimony (*and other methods). Version 4. Sinauer Associates, Sunderland, Massachusetts
-
(2002)
-
-
Swofford, D.L.1
-
25
-
-
0034980234
-
Genomic organization of plant terpene synthases and molecular evolutionary implications
-
SC Trapp RB Croteau 2001 Genomic organization of plant terpene synthases and molecular evolutionary implications Genetics 158 811 832
-
(2001)
Genetics
, vol.158
, pp. 811-832
-
-
Trapp, S.C.1
Croteau, R.B.2
-
26
-
-
0034142272
-
Screening of the needles of different yew species and cultivars for paclitaxel and related taxoids
-
EL van Rozendaal GP Lelyveld TA van Beek 2000 Screening of the needles of different yew species and cultivars for paclitaxel and related taxoids Phytochemistry 53 383 389
-
(2000)
Phytochemistry
, vol.53
, pp. 383-389
-
-
Van Rozendaal, E.L.1
Lelyveld, G.P.2
Van Beek, T.A.3
-
27
-
-
0034681193
-
Molecular cloning of a 10-deacetylbaccatin III-10-O-acetyl transferase cDNA from Taxus and functional expression in Escherichia coli
-
K Walker RB Croteau 2000 Molecular cloning of a 10-deacetylbaccatin III-10-O-acetyl transferase cDNA from Taxus and functional expression in Escherichia coli Proc Natl Acad Sci USA 97 583 587
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 583-587
-
-
Walker, K.1
Croteau, R.B.2
-
29
-
-
0029873176
-
A cDNA clone for taxadiene synthase, the diterpene cyclase that catalyzes the committed step of Taxol biosynthesis
-
MR Wildung RB Croteau 1996 A cDNA clone for taxadiene synthase, the diterpene cyclase that catalyzes the committed step of Taxol biosynthesis J Biol Chem 271 9201 9204
-
(1996)
J Biol Chem
, vol.271
, pp. 9201-9204
-
-
Wildung, M.R.1
Croteau, R.B.2
-
30
-
-
0034234699
-
Heterologous expression and characterization of a " pseudomature" form of taxadiene synthase involved in paclitaxel (Taxol) biosynthesis and evaluation of a potential intermediate and inhibitors of the multistep diterpene cyclization reaction
-
DC Williams MR Wildung AQ Jin 2000 Heterologous expression and characterization of a "Pseudomature" form of taxadiene synthase involved in paclitaxel (Taxol) biosynthesis and evaluation of a potential intermediate and inhibitors of the multistep diterpene cyclization reaction Arch Biochem Biophys 379 137 146
-
(2000)
Arch Biochem Biophys
, vol.379
, pp. 137-146
-
-
Williams, D.C.1
Wildung, M.R.2
Jin, A.Q.3
-
31
-
-
0025318864
-
The "effective number of codons" used in a gene
-
F Wright 1990 The "effective number of codons" used in a gene Gene 87 23 29
-
(1990)
Gene
, vol.87
, pp. 23-29
-
-
Wright, F.1
-
32
-
-
34547803197
-
PAML 4: A program package for phylogenetic analysis by maximum likelihood
-
Z Yang 2007 PAML 4: a program package for phylogenetic analysis by maximum likelihood Mol Biol Evol 24 1586 1591
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1586-1591
-
-
Yang, Z.1
-
33
-
-
0028820333
-
A new method of inference of ancestral nucleotide and amino acid sequences
-
Z Yang S Kumar M Nei 1995 A new method of inference of ancestral nucleotide and amino acid sequences Genetics 141 1641 1650
-
(1995)
Genetics
, vol.141
, pp. 1641-1650
-
-
Yang, Z.1
Kumar, S.2
Nei, M.3
-
34
-
-
0034097381
-
Codon-substitution models for heterogeneous selection pressure at amino acid sites
-
Z Yang R Nielsen N Goldman 2000 Codon-substitution models for heterogeneous selection pressure at amino acid sites Genetics 155 431 449
-
(2000)
Genetics
, vol.155
, pp. 431-449
-
-
Yang, Z.1
Nielsen, R.2
Goldman, N.3
-
35
-
-
0041571683
-
Parallel functional changes in the digestive RNases of ruminants and colobines by divergent amino acid substitutions
-
J Zhang 2003 Parallel functional changes in the digestive RNases of ruminants and colobines by divergent amino acid substitutions Mol Biol Evol 20 1310 1317
-
(2003)
Mol Biol Evol
, vol.20
, pp. 1310-1317
-
-
Zhang, J.1
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