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Variance in epistasis links gene regulation and evolutionary rate in the yeast genetic interaction network.

Fierst JL, Phillips PC.

Genome Biol Evol. 2012;4(11):1080-7. doi: 10.1093/gbe/evs083.


Network of epistatic interactions within a yeast snoRNA.

Puchta O, Cseke B, Czaja H, Tollervey D, Sanguinetti G, Kudla G.

Science. 2016 May 13;352(6287):840-4. doi: 10.1126/science.aaf0965. Epub 2016 Apr 14. Erratum in: Science. 2016 May 6;352(6286). pii: aaf9112. doi: 10.1126/science.aaf9112.


Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks.

He X, Qian W, Wang Z, Li Y, Zhang J.

Nat Genet. 2010 Mar;42(3):272-6. doi: 10.1038/ng.524. Epub 2010 Jan 24.


Robustness and evolvability in natural chemical resistance: identification of novel systems properties, biochemical mechanisms and regulatory interactions.

Venancio TM, Balaji S, Geetha S, Aravind L.

Mol Biosyst. 2010 Aug;6(8):1475-91. doi: 10.1039/c002567b. Epub 2010 Jun 2.


The genetic landscape of a cell.

Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M, Deshpande R, Li Z, Lin ZY, Liang W, Marback M, Paw J, San Luis BJ, Shuteriqi E, Tong AH, van Dyk N, Wallace IM, Whitney JA, Weirauch MT, Zhong G, Zhu H, Houry WA, Brudno M, Ragibizadeh S, Papp B, Pál C, Roth FP, Giaever G, Nislow C, Troyanskaya OG, Bussey H, Bader GD, Gingras AC, Morris QD, Kim PM, Kaiser CA, Myers CL, Andrews BJ, Boone C.

Science. 2010 Jan 22;327(5964):425-31. doi: 10.1126/science.1180823.


Network hubs buffer environmental variation in Saccharomyces cerevisiae.

Levy SF, Siegal ML.

PLoS Biol. 2008 Nov 4;6(11):e264. doi: 10.1371/journal.pbio.0060264.


Dynamic epistasis under varying environmental perturbations.

Barker B, Xu L, Gu Z.

PLoS One. 2015 Jan 27;10(1):e0114911. doi: 10.1371/journal.pone.0114911. eCollection 2015.


Intersecting transcription networks constrain gene regulatory evolution.

Sorrells TR, Booth LN, Tuch BB, Johnson AD.

Nature. 2015 Jul 16;523(7560):361-5. doi: 10.1038/nature14613. Epub 2015 Jul 8.


Evolutionary rates and centrality in the yeast gene regulatory network.

Jovelin R, Phillips PC.

Genome Biol. 2009;10(4):R35. doi: 10.1186/gb-2009-10-4-r35. Epub 2009 Apr 9.


The extensive and condition-dependent nature of epistasis among whole-genome duplicates in yeast.

Musso G, Costanzo M, Huangfu M, Smith AM, Paw J, San Luis BJ, Boone C, Giaever G, Nislow C, Emili A, Zhang Z.

Genome Res. 2008 Jul;18(7):1092-9. doi: 10.1101/gr.076174.108. Epub 2008 May 7.


Identification of response-modulated genetic interactions by sensitivity-based epistatic analysis.

Batenchuk C, Tepliakova L, Kaern M.

BMC Genomics. 2010 Sep 10;11:493. doi: 10.1186/1471-2164-11-493.


Evidence of association between nucleosome occupancy and the evolution of transcription factor binding sites in yeast.

Swamy KB, Chu WY, Wang CY, Tsai HK, Wang D.

BMC Evol Biol. 2011 May 31;11:150. doi: 10.1186/1471-2148-11-150.


Epistatic interaction maps relative to multiple metabolic phenotypes.

Snitkin ES, Segrè D.

PLoS Genet. 2011 Feb 10;7(2):e1001294. doi: 10.1371/journal.pgen.1001294.


A systematic survey of an intragenic epistatic landscape.

Bank C, Hietpas RT, Jensen JD, Bolon DN.

Mol Biol Evol. 2015 Jan;32(1):229-38. doi: 10.1093/molbev/msu301. Epub 2014 Nov 3.


Genes confer similar robustness to environmental, stochastic, and genetic perturbations in yeast.

Lehner B.

PLoS One. 2010 Feb 3;5(2):e9035. doi: 10.1371/journal.pone.0009035. Erratum in: PLoS One. 2010;5(2) doi: 10.1371/annotation/1f52efd2-4d54-428c-9e03-42f1b2b03af0.


Mapping genetically compensatory pathways from synthetic lethal interactions in yeast.

Ma X, Tarone AM, Li W.

PLoS One. 2008 Apr 9;3(4):e1922. doi: 10.1371/journal.pone.0001922.


Transcriptional regulatory networks in Saccharomyces cerevisiae.

Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA.

Science. 2002 Oct 25;298(5594):799-804.


Accelerating Mutational Load Is Not Due to Synergistic Epistasis or Mutator Alleles in Mutation Accumulation Lines of Yeast.

Jasmin JN, Lenormand T.

Genetics. 2016 Feb;202(2):751-63. doi: 10.1534/genetics.115.182774. Epub 2015 Nov 23.


Prediction of phenotype and gene expression for combinations of mutations.

Carter GW, Prinz S, Neou C, Shelby JP, Marzolf B, Thorsson V, Galitski T.

Mol Syst Biol. 2007;3:96. Epub 2007 Mar 27.

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