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29 results for Geeleher,+Paul

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ArticlesPeer ReviewedFull Text
pRRophetic: An R Package for Prediction of Clinical Chemotherapeutic Response from Tumor Gene Expression Levels
Author / Creator:Geeleher, Paul ; Cox, Nancy ; Huang, R. Stephanie
Publisher:United States: Public Library of Science
Journal title:PloS one, 2014-09, Vol.9 (9), p.e107468-e107468
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ArticlesPeer ReviewedFull Text
Random-effects meta-analysis of effect sizes as a unified framework for gene set analysis
Author / Creator:Makrooni, Mohammad A. ; O’Shea, Dónal ; Geeleher, Paul ; Seoighe, Cathal
Publisher:San Francisco: Public Library of Science
Journal title:PLoS computational biology, 2022-10, Vol.18 (10), p.e1010278-e1010278
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ArticlesPeer ReviewedFull Text
Cancer expression quantitative trait loci (eQTLs) can be determined from heterogeneous tumor gene expression data by modeling variation in tumor purity
Author / Creator:Geeleher, Paul ; Nath, Aritro ; Wang, Fan ; Zhang, Zhenyu ; Barbeira, Alvaro N. ; Fessler, Jessica ; Grossman, Robert L. ; Seoighe, Cathal ; Stephanie Huang, R.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2018-09, Vol.19 (1), p.130-130, Article 130
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A CRISPR-drug perturbational map for identifying compounds to combine with commonly used chemotherapeutics
Author / Creator:Lee, Hyeong-Min ; Wright, William C. ; Pan, Min ; Low, Jonathan ; Currier, Duane ; Fang, Jie ; Singh, Shivendra ; Nance, Stephanie ; Delahunty, Ian ; Kim, Yuna ; Chapple, Richard H. ; Zhang, Yinwen ; Liu, Xueying ; Steele, Jacob A. ; Qi, Jun ; Pruett-Miller, Shondra M. ; Easton, John ; Chen, Taosheng ; Yang, Jun ; Durbin, Adam D. ; Geeleher, Paul
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-11, Vol.14 (1), p.7332-7332, Article 7332
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Bone morphogenetic protein (BMP) signaling determines neuroblastoma cell fate and sensitivity to retinoic acid
Author / Creator:Pan, Min ; Zhang, Yinwen ; Wright, William C. ; Liu, Xueying ; Passaia, Barbara ; Currier, Duane ; Low, Jonathan ; Chapple, Richard H. ; Steele, Jacob A. ; Connelly, Jon P. ; Ju, Bensheng ; Plyler, Emily ; Lu, Meifen ; Loughran, Allister J. ; Yang, Lei ; Abraham, Brian J. ; Pruett-Miller, Shondra M. ; Freeman, Burgess ; Campbell, George E. ; Dyer, Michael A. ; Chen, Taosheng ; Stewart, Elizabeth ; Koo, Selene ; Sheppard, Heather ; Easton, John ; Geeleher, Paul
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2025-02, Vol.16 (1), p.2036-20, Article 2036
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An integrated single-cell RNA-seq map of human neuroblastoma tumors and preclinical models uncovers divergent mesenchymal-like gene expression programs
Author / Creator:Chapple, Richard H. ; Liu, Xueying ; Natarajan, Sivaraman ; Alexander, Margaret I. M. ; Kim, Yuna ; Patel, Anand G. ; LaFlamme, Christy W. ; Pan, Min ; Wright, William C. ; Lee, Hyeong-Min ; Zhang, Yinwen ; Lu, Meifen ; Koo, Selene C. ; Long, Courtney ; Harper, John ; Savage, Chandra ; Johnson, Melissa D. ; Confer, Thomas ; Akers, Walter J. ; Dyer, Michael A. ; Sheppard, Heather ; Easton, John ; Geeleher, Paul
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2024-06, Vol.25 (1), p.161-161, Article 161
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ArticlesPeer ReviewedFull Text
The regulatory effect of miRNAs is a heritable genetic trait in humans
Author / Creator:Geeleher, Paul ; Huang, Stephanie R ; Gamazon, Eric R ; Golden, Aaron ; Seoighe, Cathal
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2012-08, Vol.13 (1), p.383-383, Article 383
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ArticlesPeer ReviewedFull Text
Integrative “Omic” Analysis for Tamoxifen Sensitivity through Cell Based Models
Author / Creator:Weng, Liming ; Ziliak, Dana ; LaCroix, Bonnie ; Geeleher, Paul ; Huang, R. Stephanie
Publisher:United States: Public Library of Science
Journal title:PloS one, 2014-04, Vol.9 (4), p.e93420
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ArticlesPeer ReviewedFull Text
Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines
Author / Creator:Geeleher, Paul ; Cox, Nancy J ; Huang, R Stephanie
Publisher:England
Journal title:Genome biology, 2014-03, Vol.15 (3), p.R47-R47, Article R47
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ArticlesPeer ReviewedFull Text
Long non-coding RNA transcriptome of uncharacterized samples can be accurately imputed using protein-coding genes
Author / Creator:Nath, Aritro ; Geeleher, Paul ; Huang, R Stephanie
Publisher:England: Oxford University Press
Journal title:Briefings in bioinformatics, 2020-03, Vol.21 (2), p.637-648
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ArticlesPeer ReviewedFull Text
Cancer biomarker discovery is improved by accounting for variability in general levels of drug sensitivity in pre-clinical models
Author / Creator:Geeleher, Paul ; Cox, Nancy J. ; Huang, R. Stephanie
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2016-09, Vol.17 (1), p.190-190, Article 190
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ArticlesPeer ReviewedFull Text
Discovering long noncoding RNA predictors of anticancer drug sensitivity beyond protein-coding genes
Author / Creator:Nath, Aritro ; Lau, Eunice Y. T. ; Lee, Adam M. ; Geeleher, Paul ; Cho, William C. S. ; Huang, R. Stephanie
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2019-10, Vol.116 (44), p.22020-22029
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ArticlesPeer ReviewedFull Text
Consistency in large pharmacogenomic studies
Author / Creator:Geeleher, Paul ; Gamazon, Eric R. ; Seoighe, Cathal ; Cox, Nancy J. ; Huang, R. Stephanie
Publisher:London: Nature Publishing Group UK
Journal title:Nature (London), 2016-12, Vol.540 (7631), p.E1-E2
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ArticlesPeer ReviewedFull Text
Institutional Profile: Pharmacogenomic research in R Stephanie Huang Laboratory
Author / Creator:Geeleher, Paul ; Nath, Aritro ; Huang, Rong Stephanie
Publisher:England: Future Medicine Ltd
Journal title:Pharmacogenomics, 2017-04, Vol.18 (6), p.519-522
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ArticlesPeer ReviewedFull Text
The chemotherapeutic CX-5461 primarily targets TOP2B and exhibits selective activity in high-risk neuroblastoma
Author / Creator:Pan, Min ; Wright, William C. ; Chapple, Richard H. ; Zubair, Asif ; Sandhu, Manbir ; Batchelder, Jake E. ; Huddle, Brandt C. ; Low, Jonathan ; Blankenship, Kaley B. ; Wang, Yingzhe ; Gordon, Brittney ; Archer, Payton ; Brady, Samuel W. ; Natarajan, Sivaraman ; Posgai, Matthew J. ; Schuetz, John ; Miller, Darcie ; Kalathur, Ravi ; Chen, Siquan ; Connelly, Jon Patrick ; Babu, M. Madan ; Dyer, Michael A. ; Pruett-Miller, Shondra M. ; Freeman, Burgess B. ; Chen, Taosheng ; Godley, Lucy A. ; Blanchard, Scott C. ; Stewart, Elizabeth ; Easton, John ; Geeleher, Paul
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-11, Vol.12 (1), p.6468-20, Article 6468
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ArticlesPeer ReviewedFull Text
Seq-ing improved gene expression estimates from microarrays using machine learning
Author / Creator:Korir, Paul K. ; Geeleher, Paul ; Seoighe, Cathal
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2015-09, Vol.16 (1), p.286-286, Article 286
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The impact of microRNA expression on cellular proliferation
Author / Creator:Lenkala, Divya ; LaCroix, Bonnie ; Gamazon, Eric R. ; Geeleher, Paul ; Im, Hae Kyung ; Huang, R. Stephanie
Publisher:Berlin/Heidelberg: Springer Berlin Heidelberg
Journal title:Human genetics, 2014-07, Vol.133 (7), p.931-938
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Facilitating Drug Discovery in Breast Cancer by Virtually Screening Patients Using In Vitro Drug Response Modeling
Author / Creator:Gruener, Robert F. ; Ling, Alexander ; Chang, Ya-Fang ; Morrison, Gladys ; Geeleher, Paul ; Greene, Geoffrey L. ; Huang, R. Stephanie
Publisher:Switzerland: MDPI AG
Journal title:Cancers, 2021-02, Vol.13 (4), p.885
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ArticlesPeer ReviewedFull Text
Integrative analyses of genetic variation, epigenetic regulation, and the transcriptome to elucidate the biology of platinum sensitivity
Author / Creator:LaCroix, Bonnie ; Gamazon, Eric R ; Lenkala, Divya ; Im, Hae Kyung ; Geeleher, Paul ; Ziliak, Dana ; Cox, Nancy J ; Huang, Rong Stephanie
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2014-04, Vol.15 (1), p.292-292, Article 292
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ArticlesPeer ReviewedFull Text
Genome-wide interrogation of longitudinal FEV1 in children with asthma
Author / Creator:Wu, Kehua ; Gamazon, Eric R ; Im, Hae Kyung ; Geeleher, Paul ; White, Steven R ; Solway, Julian ; Clemmer, George L ; Weiss, Scott T ; Tantisira, Kelan G ; Cox, Nancy J ; Ratain, Mark J ; Huang, R Stephanie
Publisher:United States: American Thoracic Society
Journal title:American journal of respiratory and critical care medicine, 2014-09, Vol.190 (6), p.619-627
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Showing 1 to 20 of 29 results

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pRRophetic: An R Package for Prediction of Clinical Chemotherapeutic Response from Tumor Gene Expression Levels

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Random-effects meta-analysis of effect sizes as a unified framework for gene set analysis

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Cancer expression quantitative trait loci (eQTLs) can be determined from heterogeneous tumor gene expression data by modeling variation in tumor purity

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A CRISPR-drug perturbational map for identifying compounds to combine with commonly used chemotherapeutics

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Bone morphogenetic protein (BMP) signaling determines neuroblastoma cell fate and sensitivity to retinoic acid

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An integrated single-cell RNA-seq map of human neuroblastoma tumors and preclinical models uncovers divergent mesenchymal-like gene expression programs

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

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Integrative “Omic” Analysis for Tamoxifen Sensitivity through Cell Based Models

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Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines

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

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

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

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Consistency in large pharmacogenomic studies

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Institutional Profile: Pharmacogenomic research in R Stephanie Huang Laboratory

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The chemotherapeutic CX-5461 primarily targets TOP2B and exhibits selective activity in high-risk neuroblastoma

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

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The impact of microRNA expression on cellular proliferation

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Facilitating Drug Discovery in Breast Cancer by Virtually Screening Patients Using In Vitro Drug Response Modeling

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

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Genome-wide interrogation of longitudinal FEV1 in children with asthma

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