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Results: 17

1.

Microbial evolution. Global epistasis makes adaptation predictable despite sequence-level stochasticity.

Kryazhimskiy S, Rice DP, Jerison ER, Desai MM.

Science. 2014 Jun 27;344(6191):1519-22. doi: 10.1126/science.1250939.

PMID:
24970088
[PubMed - indexed for MEDLINE]
2.

Loss and recovery of genetic diversity in adapting populations of HIV.

Pennings PS, Kryazhimskiy S, Wakeley J.

PLoS Genet. 2014 Jan;10(1):e1004000. doi: 10.1371/journal.pgen.1004000. Epub 2014 Jan 23.

PMID:
24465214
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Refining a key metabolic innovation in Escherichia coli.

Kryazhimskiy S, Desai MM.

Proc Natl Acad Sci U S A. 2014 Feb 11;111(6):2056-7. doi: 10.1073/pnas.1323189111. Epub 2014 Jan 23. No abstract available.

PMID:
24459186
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Identifying signatures of selection in genetic time series.

Feder AF, Kryazhimskiy S, Plotkin JB.

Genetics. 2014 Feb;196(2):509-22. doi: 10.1534/genetics.113.158220. Epub 2013 Dec 6.

PMID:
24318534
[PubMed - in process]
5.

Multidrug therapy and evolution of antibiotic resistance: when order matters.

Perron GG, Kryazhimskiy S, Rice DP, Buckling A.

Appl Environ Microbiol. 2012 Sep;78(17):6137-42. doi: 10.1128/AEM.01078-12. Epub 2012 Jun 22. Retraction in: Appl Environ Microbiol. 2013 Oct;79(20):6521.

PMID:
22729549
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Population subdivision and adaptation in asexual populations of Saccharomyces cerevisiae.

Kryazhimskiy S, Rice DP, Desai MM.

Evolution. 2012 Jun;66(6):1931-41. doi: 10.1111/j.1558-5646.2011.01569.x. Epub 2012 Feb 17.

PMID:
22671557
[PubMed - indexed for MEDLINE]
7.

POPULATION SUBDIVISION AND ADAPTATION IN ASEXUAL POPULATIONS OF SACCHAROMYCES CEREVISIAE.

Kryazhimskiy S, Rice DP, Desai MM.

Evolution. 2012 Jan 18. doi: 10.1111/j.1558-5646.2012.01569.x. [Epub ahead of print]

PMID:
24341481
[PubMed - as supplied by publisher]
8.

The dynamics of social networks among female Asian elephants.

de Silva S, Ranjeewa AD, Kryazhimskiy S.

BMC Ecol. 2011 Jul 27;11:17. doi: 10.1186/1472-6785-11-17.

PMID:
21794147
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Evolution. In evolution, the sum is less than its parts.

Kryazhimskiy S, Draghi JA, Plotkin JB.

Science. 2011 Jun 3;332(6034):1160-1. doi: 10.1126/science.1208072. No abstract available.

PMID:
21636764
[PubMed - indexed for MEDLINE]
10.

Prevalence of epistasis in the evolution of influenza A surface proteins.

Kryazhimskiy S, Dushoff J, Bazykin GA, Plotkin JB.

PLoS Genet. 2011 Feb;7(2):e1001301. doi: 10.1371/journal.pgen.1001301. Epub 2011 Feb 17.

PMID:
21390205
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Young proteins experience more variable selection pressures than old proteins.

Vishnoi A, Kryazhimskiy S, Bazykin GA, Hannenhalli S, Plotkin JB.

Genome Res. 2010 Nov;20(11):1574-81. doi: 10.1101/gr.109595.110. Epub 2010 Oct 4.

PMID:
20921233
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The dynamics of adaptation on correlated fitness landscapes.

Kryazhimskiy S, Tkacik G, Plotkin JB.

Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18638-43. doi: 10.1073/pnas.0905497106. Epub 2009 Oct 26.

PMID:
19858497
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Isolation and characterization of adenoviruses persistently shed from the gastrointestinal tract of non-human primates.

Roy S, Vandenberghe LH, Kryazhimskiy S, Grant R, Calcedo R, Yuan X, Keough M, Sandhu A, Wang Q, Medina-Jaszek CA, Plotkin JB, Wilson JM.

PLoS Pathog. 2009 Jul;5(7):e1000503. doi: 10.1371/journal.ppat.1000503. Epub 2009 Jul 3.

PMID:
19578438
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The population genetics of dN/dS.

Kryazhimskiy S, Plotkin JB.

PLoS Genet. 2008 Dec;4(12):e1000304. doi: 10.1371/journal.pgen.1000304. Epub 2008 Dec 12.

PMID:
19081788
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Directionality in the evolution of influenza A haemagglutinin.

Kryazhimskiy S, Bazykin GA, Plotkin JB, Dushoff J.

Proc Biol Sci. 2008 Nov 7;275(1650):2455-64. doi: 10.1098/rspb.2008.0521. Erratum in: Proc Biol Sci. 2209 Aug 22;276(1669):3035. Plotkin, Joshua [corrected to Plotkin Joshua B].

PMID:
18647721
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Natural selection for nucleotide usage at synonymous and nonsynonymous sites in influenza A virus genes.

Kryazhimskiy S, Bazykin GA, Dushoff J.

J Virol. 2008 May;82(10):4938-45. doi: 10.1128/JVI.02415-07. Epub 2008 Mar 5.

PMID:
18321967
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

On state-space reduction in multi-strain pathogen models, with an application to antigenic drift in influenza A.

Kryazhimskiy S, Dieckmann U, Levin SA, Dushoff J.

PLoS Comput Biol. 2007 Aug;3(8):e159. Epub 2007 Jun 22.

PMID:
17708677
[PubMed - indexed for MEDLINE]
Free PMC Article

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