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Results: 1 to 20 of 61

1.

Among-site rate variation and its impact on phylogenetic analyses.

Yang Z.

Trends Ecol Evol. 1996 Sep;11(9):367-72.

PMID:
21237881
[PubMed]
2.

The trouble with sliding windows and the selective pressure in BRCA1.

Schmid K, Yang Z.

PLoS One. 2008;3(11):e3746. doi: 10.1371/journal.pone.0003746. Epub 2008 Nov 18. Erratum in: PLoS ONE. 2008;3(12). doi: 10.1371/annotation/5b41243b-64ba-47ab-bcb7-d45817547a95.

PMID:
19015730
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Likelihood-based clustering (LiBaC) for codon models, a method for grouping sites according to similarities in the underlying process of evolution.

Bao L, Gu H, Dunn KA, Bielawski JP.

Mol Biol Evol. 2008 Sep;25(9):1995-2007. doi: 10.1093/molbev/msn145. Epub 2008 Jun 26.

PMID:
18586695
[PubMed - indexed for MEDLINE]
Free Article
4.

FlyBase: integration and improvements to query tools.

Wilson RJ, Goodman JL, Strelets VB; FlyBase Consortium.

Nucleic Acids Res. 2008 Jan;36(Database issue):D588-93. Epub 2007 Dec 26.

PMID:
18160408
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Comparative genomic analysis of fungal genomes reveals intron-rich ancestors.

Stajich JE, Dietrich FS, Roy SW.

Genome Biol. 2007;8(10):R223.

PMID:
17949488
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Heterogeneous rate of protein evolution in serotonin genes.

Andrés AM, de Hemptinne C, Bertranpetit J.

Mol Biol Evol. 2007 Dec;24(12):2707-15. Epub 2007 Sep 19.

PMID:
17884826
[PubMed - indexed for MEDLINE]
Free Article
7.

Rapid detection of positive selection in genes and genomes through variation clusters.

Wagner A.

Genetics. 2007 Aug;176(4):2451-63. Epub 2007 Jul 1.

PMID:
17603100
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Fast-evolving noncoding sequences in the human genome.

Bird CP, Stranger BE, Liu M, Thomas DJ, Ingle CE, Beazley C, Miller W, Hurles ME, Dermitzakis ET.

Genome Biol. 2007;8(6):R118.

PMID:
17578567
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

KaKs_Calculator: calculating Ka and Ks through model selection and model averaging.

Zhang Z, Li J, Zhao XQ, Wang J, Wong GK, Yu J.

Genomics Proteomics Bioinformatics. 2006 Nov;4(4):259-63.

PMID:
17531802
[PubMed - indexed for MEDLINE]
Free Article
10.

Quantifying the impact of protein tertiary structure on molecular evolution.

Choi SC, Hobolth A, Robinson DM, Kishino H, Thorne JL.

Mol Biol Evol. 2007 Aug;24(8):1769-82. Epub 2007 May 23.

PMID:
17522088
[PubMed - indexed for MEDLINE]
Free Article
11.

GC-Profile: a web-based tool for visualizing and analyzing the variation of GC content in genomic sequences.

Gao F, Zhang CT.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W686-91.

PMID:
16845098
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

SWAKK: a web server for detecting positive selection in proteins using a sliding window substitution rate analysis.

Liang H, Zhou W, Landweber LF.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W382-4.

PMID:
16845032
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Testing for spatial clustering of amino acid replacements within protein tertiary structure.

Yu J, Thorne JL.

J Mol Evol. 2006 Jun;62(6):682-92. Epub 2006 Apr 25.

PMID:
16752209
[PubMed - indexed for MEDLINE]
14.

Model selection in ecology and evolution.

Johnson JB, Omland KS.

Trends Ecol Evol. 2004 Feb;19(2):101-8.

PMID:
16701236
[PubMed]
15.

Molecular signatures of natural selection.

Nielsen R.

Annu Rev Genet. 2005;39:197-218. Review.

PMID:
16285858
[PubMed - indexed for MEDLINE]
16.

Site-to-site variation of synonymous substitution rates.

Pond SK, Muse SV.

Mol Biol Evol. 2005 Dec;22(12):2375-85. Epub 2005 Aug 17.

PMID:
16107593
[PubMed - indexed for MEDLINE]
Free Article
17.

Substantial regional variation in substitution rates in the human genome: importance of GC content, gene density, and telomere-specific effects.

Arndt PF, Hwa T, Petrov DA.

J Mol Evol. 2005 Jun;60(6):748-63. Epub 2005 May 31.

PMID:
15959677
[PubMed - indexed for MEDLINE]
18.

Identification of cell cycle-regulated genes in fission yeast.

Peng X, Karuturi RK, Miller LD, Lin K, Jia Y, Kondu P, Wang L, Wong LS, Liu ET, Balasubramanian MK, Liu J.

Mol Biol Cell. 2005 Mar;16(3):1026-42. Epub 2004 Dec 22.

PMID:
15616197
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Drosophila alcohol dehydrogenase: acetate-enzyme interactions and novel insights into the effects of electrostatics on catalysis.

Benach J, Winberg JO, Svendsen JS, Atrian S, Gonzàlez-Duarte R, Ladenstein R.

J Mol Biol. 2005 Jan 21;345(3):579-98.

PMID:
15581900
[PubMed - indexed for MEDLINE]
20.

Identification of genes with fast-evolving regions in microbial genomes.

Zheng Y, Roberts RJ, Kasif S.

Nucleic Acids Res. 2004 Dec 2;32(21):6347-57. Print 2004.

PMID:
15576679
[PubMed - indexed for MEDLINE]
Free PMC Article

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