Paul Geeleher

Paul Geeleher

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Paul Geeleher

Paul Geeleher

Publications by authors named "Paul Geeleher"

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Discovering long noncoding RNA predictors of anticancer drug sensitivity beyond protein-coding genes.

Proc Natl Acad Sci U S A 2019 Oct 23;116(44):22020-22029. Epub 2019 Sep 23.

Department of Experimental and Clinical Pharmacology, University of Minnesota Minneapolis, MN 55455;

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http://www.pnas.org/lookup/doi/10.1073/pnas.1909998116
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http://dx.doi.org/10.1073/pnas.1909998116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6825320PMC
October 2019

Long non-coding RNA transcriptome of uncharacterized samples can be accurately imputed using protein-coding genes.

Brief Bioinform 2019 Jan 17. Epub 2019 Jan 17.

Department of Experimental and Clinical Pharmacology, University of Minnesota, Minneapolis, MN, USA.

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http://dx.doi.org/10.1093/bib/bby129DOI Listing
January 2019

Institutional Profile: Pharmacogenomic research in R Stephanie Huang Laboratory.

Pharmacogenomics 2017 Apr 14;18(6):519-522. Epub 2017 Mar 14.

Section of Hematology/Oncology, The University of Chicago, 900 E 57th Street, KCBD Room 7148, Chicago, IL 60637, USA.

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http://dx.doi.org/10.2217/pgs-2017-0031DOI Listing
April 2017

Exploring the Link between the Germline and Somatic Genome in Cancer.

Cancer Discov 2017 04;7(4):354-355

Section of Hematology/Oncology, Department of Medicine, The University of Chicago, Chicago, Illinois.

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http://dx.doi.org/10.1158/2159-8290.CD-17-0192DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5404740PMC
April 2017

Consistency in large pharmacogenomic studies.

Nature 2016 11;540(7631):E1-E2

Department of Medicine, The University of Chicago, Chicago, Illinois 60637, USA.

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http://dx.doi.org/10.1038/nature19838DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6290674PMC
November 2016

Cancer biomarker discovery is improved by accounting for variability in general levels of drug sensitivity in pre-clinical models.

Genome Biol 2016 Sep 21;17(1):190. Epub 2016 Sep 21.

Section of Hematology/Oncology, The University of Chicago, 900 E 57th Street, KCBD room 7148, Chicago, IL, 60637, USA.

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http://dx.doi.org/10.1186/s13059-016-1050-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5031330PMC
September 2016

pRRophetic: an R package for prediction of clinical chemotherapeutic response from tumor gene expression levels.

PLoS One 2014 17;9(9):e107468. Epub 2014 Sep 17.

Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago, Illinois, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0107468PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4167990PMC
December 2015

Predicting Response to Histone Deacetylase Inhibitors Using High-Throughput Genomics.

J Natl Cancer Inst 2015 Nov 21;107(11). Epub 2015 Aug 21.

Department of Medicine (PG, DL, FW, BL, SK, JW, MLM, RSH), Committee on Clinical Pharmacology and Pharmacogenomics (MLM, RSH), and the Comprehensive Cancer Center (MLM, RSH), University of Chicago, Chicago, IL; Oncology Clinical Research, Merck Research Laboratories, North Wales, PA (AL, MN, MC, JH).

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http://dx.doi.org/10.1093/jnci/djv247DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4643634PMC
November 2015

Seq-ing improved gene expression estimates from microarrays using machine learning.

BMC Bioinformatics 2015 Sep 4;16:286. Epub 2015 Sep 4.

School of Mathematics, Statistics and Applied Mathematics, University Road, Galway, Ireland.

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http://dx.doi.org/10.1186/s12859-015-0712-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4559919PMC
September 2015

Integrative "omic" analysis for tamoxifen sensitivity through cell based models.

PLoS One 2014 3;9(4):e93420. Epub 2014 Apr 3.

Section of Hematology and Oncology, Department of Medicine, University of Chicago, Chicago, Illinois, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0093420PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3974759PMC
January 2015

Poly (ADP-ribose) polymerase inhibitor efficacy in head and neck cancer.

Oral Oncol 2014 Sep 10;50(9):825-31. Epub 2014 Jul 10.

Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago, IL 60637, USA; The University of Chicago Comprehensive Cancer Center, Chicago, IL 60627, USA. Electronic address:

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http://dx.doi.org/10.1016/j.oraloncology.2014.06.004DOI Listing
September 2014

The impact of microRNA expression on cellular proliferation.

Hum Genet 2014 Jul 8;133(7):931-8. Epub 2014 Mar 8.

Section of Hematology/Oncology, Department of Medicine, The University of Chicago, 900 E 57th Street, KCBD, Chicago, IL, 60637, USA.

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http://link.springer.com/10.1007/s00439-014-1434-4
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http://dx.doi.org/10.1007/s00439-014-1434-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4677487PMC
July 2014

Integrative analyses of genetic variation, epigenetic regulation, and the transcriptome to elucidate the biology of platinum sensitivity.

BMC Genomics 2014 Apr 16;15:292. Epub 2014 Apr 16.

Section of Hematology/Oncology, Department of Medicine, University of Chicago, 900 E 57th street, KCBD room 7148, Chicago, IL, 60637, USA.

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http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2164-15-292DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3996490PMC
April 2014

Gene-set analysis is severely biased when applied to genome-wide methylation data.

Bioinformatics 2013 Aug 3;29(15):1851-7. Epub 2013 Jun 3.

Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago, IL 60637 USA.

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http://dx.doi.org/10.1093/bioinformatics/btt311DOI Listing
August 2013

The regulatory effect of miRNAs is a heritable genetic trait in humans.

BMC Genomics 2012 Aug 10;13:383. Epub 2012 Aug 10.

Department of Mathematics, Statistics and Applied Mathematics, National University of Ireland, Galway, Ireland.

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http://dx.doi.org/10.1186/1471-2164-13-383DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3532363PMC
August 2012

BioconductorBuntu: a Linux distribution that implements a web-based DNA microarray analysis server.

Bioinformatics 2009 Jun 23;25(11):1438-9. Epub 2009 Mar 23.

School of Mathematics, Statistics and Applied Mathematics, National University of Ireland, Galway, Ireland.

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http://dx.doi.org/10.1093/bioinformatics/btp165DOI Listing
June 2009