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Items: 10

1.

A practical guide to methods controlling false discoveries in computational biology.

Korthauer K, Kimes PK, Duvallet C, Reyes A, Subramanian A, Teng M, Shukla C, Alm EJ, Hicks SC.

Genome Biol. 2019 Jun 4;20(1):118. doi: 10.1186/s13059-019-1716-1.

2.

A Somatically Acquired Enhancer of the Androgen Receptor Is a Noncoding Driver in Advanced Prostate Cancer.

Takeda DY, Spisák S, Seo JH, Bell C, O'Connor E, Korthauer K, Ribli D, Csabai I, Solymosi N, Szállási Z, Stillman DR, Cejas P, Qiu X, Long HW, Tisza V, Nuzzo PV, Rohanizadegan M, Pomerantz MM, Hahn WC, Freedman ML.

Cell. 2018 Jul 12;174(2):422-432.e13. doi: 10.1016/j.cell.2018.05.037. Epub 2018 Jun 14.

3.

Detection and accurate false discovery rate control of differentially methylated regions from whole genome bisulfite sequencing.

Korthauer K, Chakraborty S, Benjamini Y, Irizarry RA.

Biostatistics. 2019 Jul 1;20(3):367-383. doi: 10.1093/biostatistics/kxy007.

PMID:
29481604
4.

High-throughput identification of RNA nuclear enrichment sequences.

Shukla CJ, McCorkindale AL, Gerhardinger C, Korthauer KD, Cabili MN, Shechner DM, Irizarry RA, Maass PG, Rinn JL.

EMBO J. 2018 Mar 15;37(6). pii: e98452. doi: 10.15252/embj.201798452. Epub 2018 Jan 15.

5.

IPI59: An Actionable Biomarker to Improve Treatment Response in Serous Ovarian Carcinoma Patients.

Choi J, Ye S, Eng KH, Korthauer K, Bradley WH, Rader JS, Kendziorski C.

Stat Biosci. 2017 Jun;9(1):1-12. doi: 10.1007/s12561-016-9144-1. Epub 2016 Mar 29.

6.

A statistical approach for identifying differential distributions in single-cell RNA-seq experiments.

Korthauer KD, Chu LF, Newton MA, Li Y, Thomson J, Stewart R, Kendziorski C.

Genome Biol. 2016 Oct 25;17(1):222.

7.

Chromosomal copy number alterations and HPV integration in cervical precancer and invasive cancer.

Bodelon C, Vinokurova S, Sampson JN, den Boon JA, Walker JL, Horswill MA, Korthauer K, Schiffman M, Sherman ME, Zuna RE, Mitchell J, Zhang X, Boland JF, Chaturvedi AK, Dunn ST, Newton MA, Ahlquist P, Wang SS, Wentzensen N.

Carcinogenesis. 2016 Feb;37(2):188-196. doi: 10.1093/carcin/bgv171. Epub 2015 Dec 9. No abstract available.

8.

MADGiC: a model-based approach for identifying driver genes in cancer.

Korthauer KD, Kendziorski C.

Bioinformatics. 2015 May 15;31(10):1526-35. doi: 10.1093/bioinformatics/btu858. Epub 2015 Jan 7.

9.

Methods for collapsing multiple rare variants in whole-genome sequence data.

Sung YJ, Korthauer KD, Swartz MD, Engelman CD.

Genet Epidemiol. 2014 Sep;38 Suppl 1:S13-20. doi: 10.1002/gepi.21820.

10.

Limited model antigen expression by transgenic fungi induces disparate fates during differentiation of adoptively transferred T cell receptor transgenic CD4+ T cells: robust activation and proliferation with weak effector function during recall.

Wüthrich M, Ersland K, Pick-Jacobs JC, Gern BH, Frye CA, Sullivan TD, Brennan MB, Filutowicz HI, O'Brien K, Korthauer KD, Schultz-Cherry S, Klein BS.

Infect Immun. 2012 Feb;80(2):787-97. doi: 10.1128/IAI.05326-11. Epub 2011 Nov 28.

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