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Simultaneous mapping of multiple gene loci with pooled segregants.

Claesen J, Clement L, Shkedy Z, Foulquié-Moreno MR, Burzykowski T.

PLoS One. 2013;8(2):e55133. doi: 10.1371/journal.pone.0055133. Epub 2013 Feb 18.


A hidden Markov-model for gene mapping based on whole-genome next generation sequencing data.

Claesen J, Burzykowski T.

Stat Appl Genet Mol Biol. 2015 Feb;14(1):21-34. doi: 10.1515/sagmb-2014-0007.


SNP discovery by high-throughput sequencing in soybean.

Wu X, Ren C, Joshi T, Vuong T, Xu D, Nguyen HT.

BMC Genomics. 2010 Aug 11;11:469. doi: 10.1186/1471-2164-11-469.


Identification of novel causative genes determining the complex trait of high ethanol tolerance in yeast using pooled-segregant whole-genome sequence analysis.

Swinnen S, Schaerlaekens K, Pais T, Claesen J, Hubmann G, Yang Y, Demeke M, Foulquié-Moreno MR, Goovaerts A, Souvereyns K, Clement L, Dumortier F, Thevelein JM.

Genome Res. 2012 May;22(5):975-84. doi: 10.1101/gr.131698.111. Epub 2012 Mar 7.


Mapping of quantitative trait loci underlying cold tolerance in rice seedlings via high-throughput sequencing of pooled extremes.

Yang Z, Huang D, Tang W, Zheng Y, Liang K, Cutler AJ, Wu W.

PLoS One. 2013 Jul 30;8(7):e68433. doi: 10.1371/journal.pone.0068433. Print 2013.


Rapid genome wide mapping of phosphine resistance loci by a simple regional averaging analysis in the red flour beetle, Tribolium castaneum.

Jagadeesan R, Fotheringham A, Ebert PR, Schlipalius DI.

BMC Genomics. 2013 Sep 24;14:650. doi: 10.1186/1471-2164-14-650.


Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley.

Chutimanitsakun Y, Nipper RW, Cuesta-Marcos A, Cistué L, Corey A, Filichkina T, Johnson EA, Hayes PM.

BMC Genomics. 2011 Jan 4;12:4. doi: 10.1186/1471-2164-12-4.


Revealing the genetic structure of a trait by sequencing a population under selection.

Parts L, Cubillos FA, Warringer J, Jain K, Salinas F, Bumpstead SJ, Molin M, Zia A, Simpson JT, Quail MA, Moses A, Louis EJ, Durbin R, Liti G.

Genome Res. 2011 Jul;21(7):1131-8. doi: 10.1101/gr.116731.110. Epub 2011 Mar 21.


Comparative polygenic analysis of maximal ethanol accumulation capacity and tolerance to high ethanol levels of cell proliferation in yeast.

Pais TM, Foulquié-Moreno MR, Hubmann G, Duitama J, Swinnen S, Goovaerts A, Yang Y, Dumortier F, Thevelein JM.

PLoS Genet. 2013 Jun;9(6):e1003548. doi: 10.1371/journal.pgen.1003548. Epub 2013 Jun 6.


An evaluation of high-throughput approaches to QTL mapping in Saccharomyces cerevisiae.

Wilkening S, Lin G, Fritsch ES, Tekkedil MM, Anders S, Kuehn R, Nguyen M, Aiyar RS, Proctor M, Sakhanenko NA, Galas DJ, Gagneur J, Deutschbauer A, Steinmetz LM.

Genetics. 2014 Mar;196(3):853-65. doi: 10.1534/genetics.113.160291. Epub 2013 Dec 27.


Genetic mapping of quantitative phenotypic traits in Saccharomyces cerevisiae.

Swinnen S, Thevelein JM, Nevoigt E.

FEMS Yeast Res. 2012 Mar;12(2):215-27. doi: 10.1111/j.1567-1364.2011.00777.x. Epub 2012 Jan 24. Review.


Linkage mapping bovine EST-based SNP.

Snelling WM, Casas E, Stone RT, Keele JW, Harhay GP, Bennett GL, Smith TP.

BMC Genomics. 2005 May 19;6:74.


Genetic dissection of ethanol tolerance in the budding yeast Saccharomyces cerevisiae.

Hu XH, Wang MH, Tan T, Li JR, Yang H, Leach L, Zhang RM, Luo ZW.

Genetics. 2007 Mar;175(3):1479-87. Epub 2006 Dec 28.


A nonhomogeneous hidden markov model for gene mapping based on next-generation sequencing data.

Ghavidel FZ, Claesen J, Burzykowski T.

J Comput Biol. 2015 Feb;22(2):178-88. doi: 10.1089/cmb.2014.0258. Epub 2015 Jan 22.


A transcriptome map of perennial ryegrass (Lolium perenne L.).

Studer B, Byrne S, Nielsen RO, Panitz F, Bendixen C, Islam MS, Pfeifer M, Lübberstedt T, Asp T.

BMC Genomics. 2012 Apr 18;13:140. doi: 10.1186/1471-2164-13-140.


Discovery of pod shatter-resistant associated SNPs by deep sequencing of a representative library followed by bulk segregant analysis in rapeseed.

Hu Z, Hua W, Huang S, Yang H, Zhan G, Wang X, Liu G, Wang H.

PLoS One. 2012;7(4):e34253. doi: 10.1371/journal.pone.0034253. Epub 2012 Apr 17.


Single QTL mapping and nucleotide-level resolution of a physiologic trait in wine Saccharomyces cerevisiae strains.

Marullo P, Aigle M, Bely M, Masneuf-Pomarède I, Durrens P, Dubourdieu D, Yvert G.

FEMS Yeast Res. 2007 Sep;7(6):941-52. Epub 2007 May 31.


Mapping novel traits by array-assisted bulk segregant analysis in Saccharomyces cerevisiae.

Brauer MJ, Christianson CM, Pai DA, Dunham MJ.

Genetics. 2006 Jul;173(3):1813-6. Epub 2006 Apr 19.

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