Shefali S Verma

Shefali S Verma

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Shefali S Verma

Shefali S Verma

Publications by authors named "Shefali S Verma"

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34Publications

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Influence of tissue context on gene prioritization for predicted transcriptome-wide association studies.

Pac Symp Biocomput 2019 ;24:296-307

Genomics and Computational Biology Program, University of Pennsylvania Philadelphia, PA 19104, USA,

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6417797PMC
January 2019

Evaluation of PrediXcan for prioritizing GWAS associations and predicting gene expression.

Pac Symp Biocomput 2018 ;23:448-459

The Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA, United States.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5749400PMC
August 2018

A simulation study investigating power estimates in phenome-wide association studies.

BMC Bioinformatics 2018 04 4;19(1):120. Epub 2018 Apr 4.

Department of Genetics and Institute for Biomedical Informatics, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.

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http://dx.doi.org/10.1186/s12859-018-2135-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5885318PMC
April 2018

Collective feature selection to identify crucial epistatic variants.

BioData Min 2018 19;11. Epub 2018 Apr 19.

1Biomedical and Translational Bioinformatics Institute, Geisinger Health System, 100 N Academy Avenue, Danville, PA 17822 USA.

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http://dx.doi.org/10.1186/s13040-018-0168-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5907720PMC
April 2018

Genetic risk models: Influence of model size on risk estimates and precision.

Genet Epidemiol 2017 05 15;41(4):282-296. Epub 2017 Feb 15.

Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.

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http://dx.doi.org/10.1002/gepi.22035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5628612PMC
May 2017

Multiphenotype association study of patients randomized to initiate antiretroviral regimens in AIDS Clinical Trials Group protocol A5202.

Pharmacogenet Genomics 2017 03;27(3):101-111

aThe Center for Systems Genomics, The Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park bBiomedical and Translational Informatics, Geisinger Health System, Danville, Pennsylvania cLos Angeles Biomedical Research Institute at Harbor, UCLA Medical Center, Torrance, California dUniversity of Rochester Medical Center, Rochester eDepartment of Pharmacy Practice, Center for Integrated Global Biomedical Sciences, University at Buffalo, SUNY, Buffalo, New York fVanderbilt University School of Medicine gMeharry Medical College, Nashville, Tennessee, USA.

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http://dx.doi.org/10.1097/FPC.0000000000000263DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5285297PMC
March 2017

Meta-Analysis of Genome-Wide Association Studies for Abdominal Aortic Aneurysm Identifies Four New Disease-Specific Risk Loci.

Authors:
Gregory T Jones Gerard Tromp Helena Kuivaniemi Solveig Gretarsdottir Annette F Baas Betti Giusti Ewa Strauss Femke N G Van't Hof Thomas R Webb Robert Erdman Marylyn D Ritchie James R Elmore Anurag Verma Sarah Pendergrass Iftikhar J Kullo Zi Ye Peggy L Peissig Omri Gottesman Shefali S Verma Jennifer Malinowski Laura J Rasmussen-Torvik Kenneth M Borthwick Diane T Smelser David R Crosslin Mariza de Andrade Evan J Ryer Catherine A McCarty Erwin P Böttinger Jennifer A Pacheco Dana C Crawford David S Carrell Glenn S Gerhard David P Franklin David J Carey Victoria L Phillips Michael J A Williams Wenhua Wei Ross Blair Andrew A Hill Thodor M Vasudevan David R Lewis Ian A Thomson Jo Krysa Geraldine B Hill Justin Roake Tony R Merriman Grzegorz Oszkinis Silvia Galora Claudia Saracini Rosanna Abbate Raffaele Pulli Carlo Pratesi Athanasios Saratzis Ana R Verissimo Suzannah Bumpstead Stephen A Badger Rachel E Clough Gillian Cockerill Hany Hafez D Julian A Scott T Simon Futers Simon P R Romaine Katherine Bridge Kathryn J Griffin Marc A Bailey Alberto Smith Matthew M Thompson Frank M van Bockxmeer Stefan E Matthiasson Gudmar Thorleifsson Unnur Thorsteinsdottir Jan D Blankensteijn Joep A W Teijink Cisca Wijmenga Jacqueline de Graaf Lambertus A Kiemeney Jes S Lindholt Anne Hughes Declan T Bradley Kathleen Stirrups Jonathan Golledge Paul E Norman Janet T Powell Steve E Humphries Stephen E Hamby Alison H Goodall Christopher P Nelson Natzi Sakalihasan Audrey Courtois Robert E Ferrell Per Eriksson Lasse Folkersen Anders Franco-Cereceda John D Eicher Andrew D Johnson Christer Betsholtz Arno Ruusalepp Oscar Franzén Eric E Schadt Johan L M Björkegren Leonard Lipovich Anne M Drolet Eric L Verhoeven Clark J Zeebregts Robert H Geelkerken Marc R van Sambeek Steven M van Sterkenburg Jean-Paul de Vries Kari Stefansson John R Thompson Paul I W de Bakker Panos Deloukas Robert D Sayers Seamus C Harrison Andre M van Rij Nilesh J Samani Matthew J Bown

Circ Res 2017 Jan 29;120(2):341-353. Epub 2016 Nov 29.

For the author affiliations, please see the Appendix.

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http://dx.doi.org/10.1161/CIRCRESAHA.116.308765DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5253231PMC
January 2017

PHENOME-WIDE INTERACTION STUDY (PheWIS) IN AIDS CLINICAL TRIALS GROUP DATA (ACTG).

Pac Symp Biocomput 2016 ;21:57-68

Center for System Genomics, The Pennsylvania State University, University Park, PA 16802, USA;

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4722952PMC
October 2016

INTEGRATING CLINICAL LABORATORY MEASURES AND ICD-9 CODE DIAGNOSES IN PHENOME-WIDE ASSOCIATION STUDIES.

Pac Symp Biocomput 2016 ;21:168-79

Biomedical and Translational Informatics, Geisinger Health System, Danville, PA, USA3Center for Systems Genomics, The Pennsylvania State University, University Park, PA, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4718547PMC
October 2016

BIOFILTER AS A FUNCTIONAL ANNOTATION PIPELINE FOR COMMON AND RARE COPY NUMBER BURDEN.

Pac Symp Biocomput 2016 ;21:357-68

Center for Systems Genomics, Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4722964PMC
October 2016

eMERGE Phenome-Wide Association Study (PheWAS) identifies clinical associations and pleiotropy for stop-gain variants.

BMC Med Genomics 2016 08 12;9 Suppl 1:32. Epub 2016 Aug 12.

Division of Molecular Biology and Human Genetics, Department of Biomedical Sciences, Faculty of Medicine and Health Sciences, Stellenbosch University, Tygerberg, 7505, South Africa.

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http://dx.doi.org/10.1186/s12920-016-0191-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4989894PMC
August 2016

Shared Genetic Risk Factors of Intracranial, Abdominal, and Thoracic Aneurysms.

J Am Heart Assoc 2016 07 14;5(7). Epub 2016 Jul 14.

Department of Epidemiology, Julius Center for Health Sciences and Primary Care, University Medical Center Utrecht, Utrecht, The Netherlands

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http://dx.doi.org/10.1161/JAHA.115.002603DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5015357PMC
July 2016

A GWAS Study on Liver Function Test Using eMERGE Network Participants.

PLoS One 2015 28;10(9):e0138677. Epub 2015 Sep 28.

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center (CCHMC), Cincinnati, OH, United States of America; University of Cincinnati, College of Medicine, Cincinnati, OH, United States of America; U.S. Department of Veterans Affairs Medical Center, Cincinnati, OH, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0138677PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4586138PMC
June 2016

The phenotypic legacy of admixture between modern humans and Neandertals.

Science 2016 Feb;351(6274):737-41

Vanderbilt Genetics Institute, Vanderbilt University, Nashville, TN, USA. Department of Biomedical Informatics, Vanderbilt University, Nashville, TN, USA. Department of Biological Sciences, Vanderbilt University, Nashville, TN, USA. Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA.

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http://dx.doi.org/10.1126/science.aad2149DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4849557PMC
February 2016

Phenome-wide association study (PheWAS) in EMR-linked pediatric cohorts, genetically links PLCL1 to speech language development and IL5-IL13 to Eosinophilic Esophagitis.

Front Genet 2014 18;5:401. Epub 2014 Nov 18.

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center Cincinnati, OH, USA ; College of Medicine, University of Cincinnati Cincinnati, OH, USA ; U.S. Department of Veterans Affairs Medical Center Cincinnati, OH, USA.

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http://dx.doi.org/10.3389/fgene.2014.00401DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4235428PMC
December 2014