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Items: 1 to 20 of 32


Estimating the contribution of folding stability to nonspecific epistasis in protein evolution.

Dasmeh P, Serohijos AWR.

Proteins. 2018 Jul 24. doi: 10.1002/prot.25588. [Epub ahead of print]


Evolution on the Biophysical Fitness Landscape of an RNA Virus.

Rotem A, Serohijos AWR, Chang CB, Wolfe JT, Fischer AE, Mehoke TS, Zhang H, Tao Y, Lloyd Ung W, Choi JM, Rodrigues JV, Kolawole AO, Koehler SA, Wu S, Thielen PM, Cui N, Demirev PA, Giacobbi NS, Julian TR, Schwab K, Lin JS, Smith TJ, Pipas JM, Wobus CE, Feldman AB, Weitz DA, Shakhnovich EI.

Mol Biol Evol. 2018 Oct 1;35(10):2390-2400. doi: 10.1093/molbev/msy131.


Stability of the Influenza Virus Hemagglutinin Protein Correlates with Evolutionary Dynamics.

Klein EY, Blumenkrantz D, Serohijos A, Shakhnovich E, Choi JM, Rodrigues JV, Smith BD, Lane AP, Feldman A, Pekosz A.

mSphere. 2018 Jan 3;3(1). pii: e00554-17. doi: 10.1128/mSphereDirect.00554-17. eCollection 2018 Jan-Feb.


Highly expressed genes evolve under strong epistasis from a proteome-wide scan in E. coli.

Dasmeh P, Girard É, Serohijos AWR.

Sci Rep. 2017 Nov 20;7(1):15844. doi: 10.1038/s41598-017-16030-z.


Molecular basis of interactions between SH3 domain-containing proteins and the proline-rich region of the ubiquitin ligase Itch.

Desrochers G, Cappadocia L, Lussier-Price M, Ton AT, Ayoubi R, Serohijos A, Omichinski JG, Angers A.

J Biol Chem. 2017 Apr 14;292(15):6325-6338. doi: 10.1074/jbc.M116.754440. Epub 2017 Feb 24.


Bridging the physical scales in evolutionary biology: from protein sequence space to fitness of organisms and populations.

Bershtein S, Serohijos AW, Shakhnovich EI.

Curr Opin Struct Biol. 2017 Feb;42:31-40. doi: 10.1016/ Epub 2016 Oct 31. Review.


Evolutionary dynamics of viral escape under antibodies stress: A biophysical model.

Chéron N, Serohijos AW, Choi JM, Shakhnovich EI.

Protein Sci. 2016 Jul;25(7):1332-40. doi: 10.1002/pro.2915. Epub 2016 Mar 24.


Protein Homeostasis Imposes a Barrier on Functional Integration of Horizontally Transferred Genes in Bacteria.

Bershtein S, Serohijos AW, Bhattacharyya S, Manhart M, Choi JM, Mu W, Zhou J, Shakhnovich EI.

PLoS Genet. 2015 Oct 20;11(10):e1005612. doi: 10.1371/journal.pgen.1005612. eCollection 2015 Oct.


Isolation and Analysis of Rare Norovirus Recombinants from Coinfected Mice Using Drop-Based Microfluidics.

Zhang H, Cockrell SK, Kolawole AO, Rotem A, Serohijos AW, Chang CB, Tao Y, Mehoke TS, Han Y, Lin JS, Giacobbi NS, Feldman AB, Shakhnovich E, Weitz DA, Wobus CE, Pipas JM.

J Virol. 2015 Aug;89(15):7722-34. doi: 10.1128/JVI.01137-15. Epub 2015 May 13.


Minimalistic predictor of protein binding energy: contribution of solvation factor to protein binding.

Choi JM, Serohijos AWR, Murphy S, Lucarelli D, Lofranco LL, Feldman A, Shakhnovich EI.

Biophys J. 2015 Feb 17;108(4):795-798. doi: 10.1016/j.bpj.2015.01.001.


The influence of selection for protein stability on dN/dS estimations.

Dasmeh P, Serohijos AW, Kepp KP, Shakhnovich EI.

Genome Biol Evol. 2014 Oct 28;6(10):2956-67. doi: 10.1093/gbe/evu223.


Merging molecular mechanism and evolution: theory and computation at the interface of biophysics and evolutionary population genetics.

Serohijos AW, Shakhnovich EI.

Curr Opin Struct Biol. 2014 Jun;26:84-91. doi: 10.1016/ Epub 2014 Jun 19. Review.


Influenza A H1N1 pandemic strain evolution--divergence and the potential for antigenic drift variants.

Klein EY, Serohijos AW, Choi JM, Shakhnovich EI, Pekosz A.

PLoS One. 2014 Apr 3;9(4):e93632. doi: 10.1371/journal.pone.0093632. eCollection 2014.


Contribution of selection for protein folding stability in shaping the patterns of polymorphisms in coding regions.

Serohijos AW, Shakhnovich EI.

Mol Biol Evol. 2014 Jan;31(1):165-76. doi: 10.1093/molbev/mst189. Epub 2013 Oct 11.


Positively selected sites in cetacean myoglobins contribute to protein stability.

Dasmeh P, Serohijos AW, Kepp KP, Shakhnovich EI.

PLoS Comput Biol. 2013;9(3):e1002929. doi: 10.1371/journal.pcbi.1002929. Epub 2013 Mar 7.


Highly abundant proteins favor more stable 3D structures in yeast.

Serohijos AW, Lee SY, Shakhnovich EI.

Biophys J. 2013 Feb 5;104(3):L1-3. doi: 10.1016/j.bpj.2012.11.3838.


Protein quality control acts on folding intermediates to shape the effects of mutations on organismal fitness.

Bershtein S, Mu W, Serohijos AW, Zhou J, Shakhnovich EI.

Mol Cell. 2013 Jan 10;49(1):133-44. doi: 10.1016/j.molcel.2012.11.004. Epub 2012 Dec 6.


Protein biophysics explains why highly abundant proteins evolve slowly.

Serohijos AW, Rimas Z, Shakhnovich EI.

Cell Rep. 2012 Aug 30;2(2):249-56. doi: 10.1016/j.celrep.2012.06.022. Epub 2012 Aug 2.


The Streptomyces-produced antibiotic fosfomycin is a promiscuous substrate for archaeal isopentenyl phosphate kinase.

Mabanglo MF, Serohijos AW, Poulter CD.

Biochemistry. 2012 Jan 31;51(4):917-25. doi: 10.1021/bi201662k. Epub 2012 Jan 11.


Structural basis for μ-opioid receptor binding and activation.

Serohijos AW, Yin S, Ding F, Gauthier J, Gibson DG, Maixner W, Dokholyan NV, Diatchenko L.

Structure. 2011 Nov 9;19(11):1683-90. doi: 10.1016/j.str.2011.08.003.

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