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Discovery of mutations in Saccharomyces cerevisiae by pooled linkage analysis and whole-genome sequencing.

Birkeland SR, Jin N, Ozdemir AC, Lyons RH Jr, Weisman LS, Wilson TE.

Genetics. 2010 Dec;186(4):1127-37. doi: 10.1534/genetics.110.123232. Epub 2010 Oct 5.


Genome sequencing and genetic breeding of a bioethanol Saccharomyces cerevisiae strain YJS329.

Zheng DQ, Wang PM, Chen J, Zhang K, Liu TZ, Wu XC, Li YD, Zhao YH.

BMC Genomics. 2012 Sep 15;13:479. doi: 10.1186/1471-2164-13-479.


Rapid whole-genome mutational profiling using next-generation sequencing technologies.

Smith DR, Quinlan AR, Peckham HE, Makowsky K, Tao W, Woolf B, Shen L, Donahue WF, Tusneem N, Stromberg MP, Stewart DA, Zhang L, Ranade SS, Warner JB, Lee CC, Coleman BE, Zhang Z, McLaughlin SF, Malek JA, Sorenson JM, Blanchard AP, Chapman J, Hillman D, Chen F, Rokhsar DS, McKernan KJ, Jeffries TW, Marth GT, Richardson PM.

Genome Res. 2008 Oct;18(10):1638-42. doi: 10.1101/gr.077776.108. Epub 2008 Sep 4.


A genome-wide view of the spectrum of spontaneous mutations in yeast.

Lynch M, Sung W, Morris K, Coffey N, Landry CR, Dopman EB, Dickinson WJ, Okamoto K, Kulkarni S, Hartl DL, Thomas WK.

Proc Natl Acad Sci U S A. 2008 Jul 8;105(27):9272-7. doi: 10.1073/pnas.0803466105. Epub 2008 Jun 26.


Whole-genome sequencing of a laboratory-evolved yeast strain.

Araya CL, Payen C, Dunham MJ, Fields S.

BMC Genomics. 2010 Feb 3;11:88. doi: 10.1186/1471-2164-11-88.


'PACLIMS': a component LIM system for high-throughput functional genomic analysis.

Donofrio N, Rajagopalon R, Brown D, Diener S, Windham D, Nolin S, Floyd A, Mitchell T, Galadima N, Tucker S, Orbach MJ, Patel G, Farman M, Pampanwar V, Soderlund C, Lee YH, Dean RA.

BMC Bioinformatics. 2005 Apr 12;6:94.


Alport syndrome. Molecular genetic aspects.

Hertz JM.

Dan Med Bull. 2009 Aug;56(3):105-52.


AGAPE (Automated Genome Analysis PipelinE) for pan-genome analysis of Saccharomyces cerevisiae.

Song G, Dickins BJ, Demeter J, Engel S, Gallagher J, Choe K, Dunn B, Snyder M, Cherry JM.

PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. Erratum in: PLoS One. 2015;10(5):e0129184. Gallagher, Jennifer [added]; Choe, Kisurb [added]; Snyder, Michael [added].


Shifts in the intensity of purifying selection: an analysis of genome-wide polymorphism data from two closely related yeast species.

Elyashiv E, Bullaughey K, Sattath S, Rinott Y, Przeworski M, Sella G.

Genome Res. 2010 Nov;20(11):1558-73. doi: 10.1101/gr.108993.110. Epub 2010 Sep 4.


Evolution, selection and isolation: a genomic view of speciation in fungal plant pathogens.

Stukenbrock EH.

New Phytol. 2013 Sep;199(4):895-907. doi: 10.1111/nph.12374. Epub 2013 Jun 19. Review.


Experimental evolution of the model eukaryote Saccharomyces cerevisiae yields insight into the molecular mechanisms underlying adaptation.

Voordeckers K, Verstrepen KJ.

Curr Opin Microbiol. 2015 Dec;28:1-9. doi: 10.1016/j.mib.2015.06.018. Epub 2015 Jul 17. Review.


Molecular basis of a linkage peak: exome sequencing and family-based analysis identify a rare genetic variant in the ADIPOQ gene in the IRAS Family Study.

Bowden DW, An SS, Palmer ND, Brown WM, Norris JM, Haffner SM, Hawkins GA, Guo X, Rotter JI, Chen YD, Wagenknecht LE, Langefeld CD.

Hum Mol Genet. 2010 Oct 15;19(20):4112-20. doi: 10.1093/hmg/ddq327. Epub 2010 Aug 5.


Combined analysis of expression data and transcription factor binding sites in the yeast genome.

Nagaraj VH, O'Flanagan RA, Bruning AR, Mathias JR, Vershon AK, Sengupta AM.

BMC Genomics. 2004 Aug 26;5(1):59.


GONOME: measuring correlations between GO terms and genomic positions.

Stanley SM, Bailey TL, Mattick JS.

BMC Bioinformatics. 2006 Feb 25;7:94.


Applications of yeast in drug discovery.

Ma D.

Prog Drug Res. 2001;57:117-62. Review.


Deep Mutational Scanning: A Highly Parallel Method to Measure the Effects of Mutation on Protein Function.

Starita LM, Fields S.

Cold Spring Harb Protoc. 2015 Aug 3;2015(8):711-4. doi: 10.1101/pdb.top077503.


Identifying cancer driver genes in tumor genome sequencing studies.

Youn A, Simon R.

Bioinformatics. 2011 Jan 15;27(2):175-81. doi: 10.1093/bioinformatics/btq630. Epub 2010 Dec 17.


Identification of putative regulatory upstream ORFs in the yeast genome using heuristics and evolutionary conservation.

Cvijović M, Dalevi D, Bilsland E, Kemp GJ, Sunnerhagen P.

BMC Bioinformatics. 2007 Aug 8;8:295.


Saccharomyces cerevisiae: gene annotation and genome variability, state of the art through comparative genomics.

Louis E.

Methods Mol Biol. 2011;759:31-40. doi: 10.1007/978-1-61779-173-4_2.


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