Entries from 2011-08-01 to 1 month

cis-trans compensation

Takahasi KR, Matsuo T & Takano-Shimizu-Kouno T 2011 Two types of cis-trans compensation in the evolution of transcriptional regulation. PNAS, in press. doi:10.1073/pnas.1105814108

neutral network

Marx CJ 2011 Regulatory revolution: evolving the "anti-LacI" repressor. Cell 146:350-352. five mutations in the β-lactamase gene increased bacterial resistance by ∼100,000-fold each mutation's contribution was rather violently affected by …

mutation landscape

Franke J, Klözer A, de Visser JAGM & Krug J 2011 Evolutionary accessibility of mutational pathways. PLoS Comput Biol 7:e1002134. does epistasis make the global fitness optimum selectively inaccessible? this question has a long history in e…

branching process

Uecker H & Hermisson J 2011 On the fixation process of a beneficial mutation in a variable environment. Genetics 188:915-930. Ne,t = Nt / (2ξ(t, Nt) + b(t, Nt) + d(t, Nt) + s(t, Nt)) ... (5) fixation probability dN(t) / dt = r(t, N(t))N(t)…

branching process

Neher RA & Shraiman BI 2011 Genetic draft and quasi-neutrality in large facultatively sexual populations. Genetics 188:975-996. simulation of the branching process the simulation of the population dynamics is complemented by a simulation o…

branching process

Gillespie DT 1977 Exact stochastic simulation of coupled chemical reactions. J Phys Chem 81:2340-2361. in returning to step1 from step 3, notice that it is necessary to recalculate only those quantities aν corresponding to reactions Rν who…