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Results: 1 to 20 of 110

1.

Estimating the rate of irreversibility in protein evolution.

Soylemez O, Kondrashov FA.

Genome Biol Evol. 2012;4(12):1213-22. doi: 10.1093/gbe/evs096.

PMID:
23132897
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Compensated deleterious mutations in insect genomes.

Kulathinal RJ, Bettencourt BR, Hartl DL.

Science. 2004 Nov 26;306(5701):1553-4. Epub 2004 Oct 21.

PMID:
15498973
[PubMed - indexed for MEDLINE]
Free Article
3.

Epistasis as the primary factor in molecular evolution.

Breen MS, Kemena C, Vlasov PK, Notredame C, Kondrashov FA.

Nature. 2012 Oct 25;490(7421):535-8. doi: 10.1038/nature11510. Epub 2012 Oct 14.

PMID:
23064225
[PubMed - indexed for MEDLINE]
4.

Pervasive cryptic epistasis in molecular evolution.

Lunzer M, Golding GB, Dean AM.

PLoS Genet. 2010 Oct 21;6(10):e1001162. doi: 10.1371/journal.pgen.1001162. Erratum in: PLoS Genet. 2010;6(11). doi: 10.1371/annotation/d618ce28-5010-47df-a44e-148ecdc0fef6.

PMID:
20975933
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Advantages of a mechanistic codon substitution model for evolutionary analysis of protein-coding sequences.

Miyazawa S.

PLoS One. 2011;6(12):e28892. doi: 10.1371/journal.pone.0028892. Epub 2011 Dec 29.

PMID:
22220197
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Mechanisms and convergence of compensatory evolution in mammalian mitochondrial tRNAs.

Kern AD, Kondrashov FA.

Nat Genet. 2004 Nov;36(11):1207-12. Epub 2004 Oct 24.

PMID:
15502829
[PubMed - indexed for MEDLINE]
7.

Crystal structure of an ancient protein: evolution by conformational epistasis.

Ortlund EA, Bridgham JT, Redinbo MR, Thornton JW.

Science. 2007 Sep 14;317(5844):1544-8. Epub 2007 Aug 16.

PMID:
17702911
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

An epistatic ratchet constrains the direction of glucocorticoid receptor evolution.

Bridgham JT, Ortlund EA, Thornton JW.

Nature. 2009 Sep 24;461(7263):515-9. doi: 10.1038/nature08249.

PMID:
19779450
[PubMed - indexed for MEDLINE]
9.
10.

Parallel functional changes in the digestive RNases of ruminants and colobines by divergent amino acid substitutions.

Zhang J.

Mol Biol Evol. 2003 Aug;20(8):1310-7. Epub 2003 May 30.

PMID:
12777504
[PubMed - indexed for MEDLINE]
Free Article
11.

Mitochondrial-nuclear interactions and accelerated compensatory evolution: evidence from the primate cytochrome C oxidase complex.

Osada N, Akashi H.

Mol Biol Evol. 2012 Jan;29(1):337-46. doi: 10.1093/molbev/msr211. Epub 2011 Sep 1.

PMID:
21890478
[PubMed - indexed for MEDLINE]
Free Article
12.
13.

Probabilistic reconstruction of ancestral protein sequences.

Koshi JM, Goldstein RA.

J Mol Evol. 1996 Feb;42(2):313-20.

PMID:
8919883
[PubMed - indexed for MEDLINE]
14.

A functional test of Neandertal and modern human mitochondrial targeting sequences.

Gralle M, Schäfer I, Seibel P, Pääbo S.

Biochem Biophys Res Commun. 2010 Nov 26;402(4):747-9. doi: 10.1016/j.bbrc.2010.10.099. Epub 2010 Oct 25.

PMID:
20977882
[PubMed - indexed for MEDLINE]
15.

Selective pressures at a codon-level predict deleterious mutations in human disease genes.

Arbiza L, Duchi S, Montaner D, Burguet J, Pantoja-Uceda D, Pineda-Lucena A, Dopazo J, Dopazo H.

J Mol Biol. 2006 May 19;358(5):1390-404. Epub 2006 Mar 15.

PMID:
16584746
[PubMed - indexed for MEDLINE]
16.

Homoplasy in genome-wide analysis of rare amino acid replacements: the molecular-evolutionary basis for Vavilov's law of homologous series.

Rogozin IB, Thomson K, Csürös M, Carmel L, Koonin EV.

Biol Direct. 2008 Mar 17;3:7. doi: 10.1186/1745-6150-3-7.

PMID:
18346278
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

A protein evolution model with independent sites that reproduces site-specific amino acid distributions from the Protein Data Bank.

Bastolla U, Porto M, Roman HE, Vendruscolo M.

BMC Evol Biol. 2006 May 31;6:43.

PMID:
16737532
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Evolutionary patterns of amino acid substitutions in 12 Drosophila genomes.

Yampolsky LY, Bouzinier MA.

BMC Genomics. 2010 Dec 2;11 Suppl 4:S10. doi: 10.1186/1471-2164-11-S4-S10.

PMID:
21143793
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

A novel method for estimating ancestral amino acid composition and its application to proteins of the Last Universal Ancestor.

Brooks DJ, Fresco JR, Singh M.

Bioinformatics. 2004 Sep 22;20(14):2251-7. Epub 2004 Apr 8.

PMID:
15073018
[PubMed - indexed for MEDLINE]
Free Article
20.

Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences.

Fukami-Kobayashi K, Schreiber DR, Benner SA.

J Mol Biol. 2002 Jun 7;319(3):729-43.

PMID:
12054866
[PubMed - indexed for MEDLINE]

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