Publications by authors named "Robert M Stephens"

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ssGSEA score-based Ras dependency indexes derived from gene expression data reveal potential Ras addiction mechanisms with possible clinical implications.
Ming Yi, Dwight V Nissley, Frank McCormick, Robert M Stephens

Sci Rep· June 2020

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KRAS G13D sensitivity to neurofibromin-mediated GTP hydrolysis.
Dana Rabara, Timothy H Tran, Srisathiyanarayanan Dharmaiah, Robert M Stephens, Frank McCormick

Proc Natl Acad Sci U S A· October 2019

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GradientScanSurv-An exhaustive association test method for gene expression data with censored survival outcome.
Ming Yi, Ruoqing Zhu, Robert M Stephens

PLoS One· May 2019

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-ΔG Allele Is Associated with an Interferon Signature in Tumors and Survival of African-American Men with Prostate Cancer.
Wei Tang, Tiffany A Wallace, Ming Yi, Cristina Magi-Galluzzi, Tiffany H Dorsey, Robert M Stephens

Clin Cancer Res· November 2018

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Tumor RAS Gene Expression Levels Are Influenced by the Mutational Status of RAS Genes and Both Upstream and Downstream RAS Pathway Genes.
Robert M Stephens, Ming Yi, Bailey Kessing, Dwight V Nissley, Frank McCormick

Cancer Inform· June 2017

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Comparative proteomics of a model MCF10A-KRasG12V cell line reveals a distinct molecular signature of the KRasG12V cell surface.
Xiaoying Ye, King C Chan, Andrew M Waters, Matthew Bess, Adam Harned, Robert M Stephens

Oncotarget· December 2016

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An Immune-Inflammation Gene Expression Signature in Prostate Tumors of Smokers.
Robyn L Prueitt, Tiffany A Wallace, Sharon A Glynn, Ming Yi, Wei Tang, Robert M Stephens

Cancer Res· March 2016

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The somatic autosomal mutation matrix in cancer genomes.
Nuri A Temiz, Duncan E Donohue, Albino Bacolla, Karen M Vasquez, David N Cooper, Robert M Stephens

Hum Genet· August 2015

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Erratum to: The somatic autosomal mutation matrix in cancer genomes.
Nuri A Temiz, Duncan E Donohue, Albino Bacolla, Karen M Vasquez, David N Cooper, Robert M Stephens

Hum Genet· August 2015

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Pathway-specific engineered mouse allograft models functionally recapitulate human serous epithelial ovarian cancer.
Ludmila Szabova, Sujata Bupp, Muhaymin Kamal, Deborah B Householder, Lidia Hernandez, Robert M Stephens

PLoS One· May 2015

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Knowledge and theme discovery across very large biological data sets using distributed queries: a prototype combining unstructured and structured data.
Uma S Mudunuri, Mohamad Khouja, Stephen Repetski, Girish Venkataraman, Anney Che, Robert M Stephens

PLoS One· August 2014

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miR-126 contributes to Parkinson's disease by dysregulating the insulin-like growth factor/phosphoinositide 3-kinase signaling.
Woori Kim, Yenarae Lee, Noah D McKenna, Ming Yi, Filip Simunovic, Robert M Stephens

Neurobiol Aging· July 2014

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Performance comparison of SNP detection tools with illumina exome sequencing data--an assessment using both family pedigree information and sample-matched SNP array data.
Ming Yi, Yongmei Zhao, Li Jia, Mei He, Electron Kebebew, Robert M Stephens

Nucleic Acids Res· July 2014

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AVIA: an interactive web-server for annotation, visualization and impact analysis of genomic variations.
Hue Vuong, Robert M Stephens, Natalia Volfovsky

Bioinformatics· April 2014

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Guanine holes are prominent targets for mutation in cancer and inherited disease.
Albino Bacolla, Nuri A Temiz, Ming Yi, Joseph Ivanic, Regina Z Cer, Robert M Stephens

PLoS Genet· March 2014

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MYC-driven accumulation of 2-hydroxyglutarate is associated with breast cancer prognosis.
Atsushi Terunuma, Nagireddy Putluri, Prachi Mishra, Ewy A Mathé, Tiffany H Dorsey, Robert M Stephens

J Clin Invest· January 2014

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An integrated understanding of the physiological response to elevated extracellular phosphate.
Corinne E Camalier, Ming Yi, Li-Rong Yu, Brian L Hood, Kelly A Conrads, Robert M Stephens

J Cell Physiol· July 2013

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Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of Low-frequency drug resistance mutations in HIV-1 DNA.
Wei Shao, Valerie F Boltz, Jonathan E Spindler, Mary F Kearney, Frank Maldarelli, Robert M Stephens

Retrovirology· February 2013

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Transcription signatures encoded by ultraconserved genomic regions in human prostate cancer.
Robert S Hudson, Ming Yi, Natalia Volfovsky, Robyn L Prueitt, Dominic Esposito, Robert M Stephens

Mol Cancer· February 2013

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Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools.
Regina Z Cer, Duncan E Donohue, Uma S Mudunuri, Nuri A Temiz, Michael A Loss, Robert M Stephens

Nucleic Acids Res· January 2013

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Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia.
Shannon Takala-Harrison, Taane G Clark, Christopher G Jacob, Michael P Cummings, Olivo Miotto, Robert M Stephens

Proc Natl Acad Sci U S A· January 2013

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SRAdb: query and use public next-generation sequencing data from within R.
Yuelin Zhu, Robert M Stephens, Paul S Meltzer, Sean R Davis

BMC Bioinformatics· January 2013

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Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance.
Jingfeng Li, Keiko Akagi, Yongjun Hu, Anna L Trivett, Christopher J W Hlynialuk, Robert M Stephens

Genome Res· May 2012

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MicroRNA-1 is a candidate tumor suppressor and prognostic marker in human prostate cancer.
Robert S Hudson, Ming Yi, Dominic Esposito, Stephanie K Watkins, Arthur A Hurwitz, Robert M Stephens

Nucleic Acids Res· April 2012

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Integrated miRNA and mRNA expression profiling of mouse mammary tumor models identifies miRNA signatures associated with mammary tumor lineage.
Min Zhu, Ming Yi, Chang Hee Kim, Chuxia Deng, Yi Li, Robert M Stephens

Genome Biol· August 2011

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