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Items: 1 to 20 of 89


Regulated CRISPR Modules Exploit a Dual Defense Strategy of Restriction and Abortive Infection in a Model of Prokaryote-Phage Coevolution.

Kumar MS, Plotkin JB, Hannenhalli S.

PLoS Comput Biol. 2015 Nov 6;11(11):e1004603. doi: 10.1371/journal.pcbi.1004603. eCollection 2015 Nov.


Coordinated Evolution of Influenza A Surface Proteins.

Neverov AD, Kryazhimskiy S, Plotkin JB, Bazykin GA.

PLoS Genet. 2015 Aug 6;11(8):e1005404. doi: 10.1371/journal.pgen.1005404. eCollection 2015 Aug.


Detecting epistasis from an ensemble of adapting populations.

McCandlish DM, Otwinowski J, Plotkin JB.

Evolution. 2015 Sep;69(9):2359-70. doi: 10.1111/evo.12735. Epub 2015 Aug 20.


Contingency and entrenchment in protein evolution under purifying selection.

Shah P, McCandlish DM, Plotkin JB.

Proc Natl Acad Sci U S A. 2015 Jun 23;112(25):E3226-35. doi: 10.1073/pnas.1412933112. Epub 2015 Jun 8.


Experimentally guided models reveal replication principles that shape the mutation distribution of RNA viruses.

Schulte MB, Draghi JA, Plotkin JB, Andino R.

Elife. 2015 Jan 30;4. doi: 10.7554/eLife.03753.


Formal properties of the probability of fixation: identities, inequalities and approximations.

McCandlish DM, Epstein CL, Plotkin JB.

Theor Popul Biol. 2015 Feb;99:98-113. doi: 10.1016/j.tpb.2014.11.004. Epub 2014 Nov 20.


Collapse of cooperation in evolving games.

Stewart AJ, Plotkin JB.

Proc Natl Acad Sci U S A. 2014 Dec 9;111(49):17558-63. doi: 10.1073/pnas.1408618111. Epub 2014 Nov 24.


Inferring fitness landscapes by regression produces biased estimates of epistasis.

Otwinowski J, Plotkin JB.

Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):E2301-9. doi: 10.1073/pnas.1400849111. Epub 2014 May 19.


The equilibrium allele frequency distribution for a population with reproductive skew.

Der R, Plotkin JB.

Genetics. 2014 Apr;196(4):1199-216. doi: 10.1534/genetics.114.161422. Epub 2014 Jan 28.


The inevitability of unconditionally deleterious substitutions during adaptation.

McCandlish DM, Epstein CL, Plotkin JB.

Evolution. 2014 May;68(5):1351-64. doi: 10.1111/evo.12350. Epub 2014 Mar 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.


Selection biases the prevalence and type of epistasis along adaptive trajectories.

Draghi JA, Plotkin JB.

Evolution. 2013 Nov;67(11):3120-31. doi: 10.1111/evo.12192. Epub 2013 Jul 4.


From extortion to generosity, evolution in the Iterated Prisoner's Dilemma.

Stewart AJ, Plotkin JB.

Proc Natl Acad Sci U S A. 2013 Sep 17;110(38):15348-53. doi: 10.1073/pnas.1306246110. Epub 2013 Sep 3.


The evolution of genetic architectures underlying quantitative traits.

Rajon E, Plotkin JB.

Proc Biol Sci. 2013 Aug 28;280(1769):20131552. doi: 10.1098/rspb.2013.1552. Print 2013 Oct 22.


Plaque disruption during transcatheter aortic valve replacement.

Plotkin JB, Siegel RJ, Beigel R.

Eur Heart J Cardiovasc Imaging. 2014 Jan;15(1):117. doi: 10.1093/ehjci/jet151. Epub 2013 Aug 22. No abstract available.


The evolution of complex gene regulation by low-specificity binding sites.

Stewart AJ, Plotkin JB.

Proc Biol Sci. 2013 Aug 14;280(1768):20131313. doi: 10.1098/rspb.2013.1313. Print 2013 Oct 7.


Misdiagnosis by transoesophageal echo of post-operative cardiac thrombus and tamponade due to Surgicel® Fibrillar.

Dela Cruz SG, Plotkin JB, Esmailian F, Beigel R, Siegel RJ.

Eur Heart J Cardiovasc Imaging. 2014 Jan;15(1):114. doi: 10.1093/ehjci/jet126. Epub 2013 Aug 2. No abstract available.


Immune history shapes specificity of pandemic H1N1 influenza antibody responses.

Li Y, Myers JL, Bostick DL, Sullivan CB, Madara J, Linderman SL, Liu Q, Carter DM, Wrammert J, Esposito S, Principi N, Plotkin JB, Ross TM, Ahmed R, Wilson PC, Hensley SE.

J Exp Med. 2013 Jul 29;210(8):1493-500. doi: 10.1084/jem.20130212. Epub 2013 Jul 15.


Single hemagglutinin mutations that alter both antigenicity and receptor binding avidity influence influenza virus antigenic clustering.

Li Y, Bostick DL, Sullivan CB, Myers JL, Griesemer SB, Stgeorge K, Plotkin JB, Hensley SE.

J Virol. 2013 Sep;87(17):9904-10. doi: 10.1128/JVI.01023-13. Epub 2013 Jul 3.


Rate-limiting steps in yeast protein translation.

Shah P, Ding Y, Niemczyk M, Kudla G, Plotkin JB.

Cell. 2013 Jun 20;153(7):1589-601. doi: 10.1016/j.cell.2013.05.049.

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