Key papers

Kryazhimskiy S*,†, Rice DP*, Jerison ER, Desai MM (2014). Global epistasis makes adaptation predictable despite sequence-level stochasticity. Science 344: 1519–1522 (Covered in Quanta Magazine)
Kryazhimskiy S, Rice DP, Desai MM (2012). Population subdivision and adaptation in asexual populations of Saccharomyces cerevisiae. Evolution 66: 1931–1941
Kryazhimskiy S*, Tkačik G*, Plotkin JB (2009). The dynamics of adaptation on correlated fitness landscapes. Proc Natl Acad Sci USA 106: 18638–18643
*Equal contribution; Corresponding author

Papers in preparation/ submitted/ in review

Jerison ER*, Kryazhimskiy S*, Mitchell J, Bloom JS, Kruglyak L, Desai MM (2017). Genetic variation in adaptability and pleiotropy in budding yeast. bioRxiv:121749
Kryazhimskiy S (2015). Propagation of epistasis through metabolic networks. In preparation

All publications

Neverov AD*, Kryazhimskiy S*, Plotkin JB, Bazykin GA (2015). Coordinated evolution of influenza A surface proteins. PLoS Genetics 11: e1005404
Baym M*, Kryazhimskiy S*, Lieberman T*, Chung H*, Desai MM, Kishony R (2015). Inexpensive multiplexed library preparation for megabase-sized genomes. PLoS One 10: e0128036
Kryazhimskiy S*,†, Rice DP, Jerison ER, Desai MM (2014). Global epistasis makes adaptation predictable despite sequence-level stochasticity. Science 344: 1519–1522 (Covered in Quanta Magazine)
Feder AF*Kryazhimskiy S*, Plotkin JB (2014). Identifying signatures of selection in time-series allele-frequency data. Genetics 196: 509–522
Pennings P, Kryazhimskiy S, Wakeley J (2014). Loss and recovery of genetic diversity in adapting populations of HIV. PLoS Genetics 10: e1004000 (Perspective by Rouzine, Coffin, Weinberger
Kryazhimskiy S, Desai MM (2014). Refining a key metabolic innovation in Escherichia coli. Proc Natl Acad Sci USA 111: 2056–2057
Kryazhimskiy S, Rice DP, Desai MM (2012). Population subdivision and adaptation in asexual populations of Saccharomyces cerevisiae. Evolution 66: 1931–1941
de Silva S*,†, Ranjeewa AD, Kryazhimskiy S*,† (2011). The dynamics of social networks among female Asian elephants. BMC Ecol 11:17 (Covered in Science Now; New York Times)
Kryazhimskiy S, Draghi JA, Plotkin JP (2011). In evolution, the sum is less than its parts. Science 332: 1160–1161
Kryazhimskiy S, Dushoff J, Bazykin GA, Plotkin JB (2011). Prevalence of epistasis in the evolution of influenza A surface proteins. PLoS Genet 7: e1001301 (Research highlight in Nat Rev Genet)
Vishnoi A, Kryazhimskiy S, Bazykin GA, Hannenhalli S, Plotkin JB (2010). Young proteins experience more variable selection pressure than old proteins. Genome Res 20: 1574–1581
Kryazhimskiy S*, Tkačik G*, Plotkin JB (2009). The dynamics of adaptation on correlated fitness landscapes. Proc Natl Acad Sci USA 106: 18638–18643
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 (2009). Isolation and characterization of adenoviruses persistently shed from the gastrointestinal tract of non-human primates. PLoS Pathog 5: e1000503
Kryazhimskiy S, Plotkin JB (2008). The population genetics of dN/dS. PLoS Genet 4: e1000304 (Research highlight in Nat Rev Genet)
Kryazhimskiy S, Bazykin GA, Plotkin JB, Dushoff J (2008). Directionality in the evolution of influenza A haemagglutinin. Proc R Soc B 275: 2455–2464
Kryazhimskiy S, Bazykin GA, Dushoff J (2008). Natural selection for nucleotide usage at synonymous and non-synonymous sites in the influenza A genes. J Virol 82: 4938–4945
Kryazhimskiy S, Dieckmann U, Levin SA, Dushoff J (2007). On state-space reduction in multi-strain pathogen models, with an application to antigenic drift in influenza A. PLoS Comp Biol 3: e159
Logginov AS, Mayorov AS, Kryazhimskiy SA (2005). Modeling of the characteristics of the ring resonator selective optical elements by solving the wave equation (in Russian), Radiotehnika 1
Butuzov VF, Kryazhimskiy SA, Nedel'ko IV (2004). On global domain of attraction of a step-like contrast structure in the critical case. J Comp Math and Math Phys 44: 1410–1431
Butuzov VF, Kryazhimskiy SA, Nedel'ko IV (2004). Global domain of attraction of stable step-like contrast structures in Dirichlet problem. J Comp Math and Math Phys 44: 985−1006