False positives in trans-eQTL and co-expression analyses arising from RNA-sequencing alignment errors [version 2; peer review: 3 approved]

by Ashis Saha, Alexis Battle
Published 2019-04-01

False positives in trans-eQTL and co-expression analyses arising from RNA-sequencing alignment errors [version 1; referees: 2 approved]

by Ashis Saha, Alexis Battle
Published 2018-11-01

Identifying global expression patterns and key regulators in epithelial to mesenchymal transition through multi-study integration

by Princy Parsana, Sarah R. Amend, James Hernandez, Kenneth J. Pienta, Alexis Battle
Published 2017-06-01

High-resolution transcriptome analysis with long-read RNA sequencing.

by Hyunghoon Cho, Joe Davis, Xin Li, Kevin S Smith, Alexis Battle, Stephen B Montgomery
Published 2014-01-01

Addressing confounding artifacts in reconstruction of gene co-expression networks

by Princy Parsana, Claire Ruberman, Andrew E. Jaffe, Michael C. Schatz, Alexis Battle, Jeffrey T. Leek
Published 2019-05-01

Normalizing RNA-sequencing data by modeling hidden covariates with prior knowledge.

by Sara Mostafavi, Alexis Battle, Xiaowei Zhu, Alexander E Urban, Douglas Levinson, Stephen B Montgomery, Daphne Koller
Published 2013-01-01

GBAT: a gene-based association test for robust detection of trans-gene regulation

by Xuanyao Liu, Joel A. Mefford, Andrew Dahl, Yuan He, Meena Subramaniam, Alexis Battle, Alkes L. Price, Noah Zaitlen
Published 2020-08-01

Sharing and Specificity of Co-expression Networks across 35 Human Tissues.

by Emma Pierson, GTEx Consortium, Daphne Koller, Alexis Battle, Sara Mostafavi, Kristin G Ardlie, Gad Getz, Fred A Wright, Manolis Kellis, Simona Volpi, Emmanouil T Dermitzakis
Published 2015-05-01

Transcriptome analysis reveals differential splicing events in IPF lung tissue.

by Tracy Nance, Kevin S Smith, Vanessa Anaya, Rhea Richardson, Lawrence Ho, Mauro Pala, Sara Mostafavi, Alexis Battle, Carol Feghali-Bostwick, Glenn Rosen, Stephen B Montgomery
Published 2014-01-01

Transcriptome analysis reveals differential splicing events in IPF lung tissue.

by Tracy Nance, Kevin S Smith, Vanessa Anaya, Rhea Richardson, Lawrence Ho, Mauro Pala, Sara Mostafavi, Alexis Battle, Carol Feghali-Bostwick, Glenn Rosen, Stephen B Montgomery
Published 2014-01-01

sn-spMF: matrix factorization informs tissue-specific genetic regulation of gene expression

by Yuan He, Surya B. Chhetri, Marios Arvanitis, Kaushik Srinivasan, François Aguet, Kristin G. Ardlie, Alvaro N. Barbeira, Rodrigo Bonazzola, Hae Kyung Im, GTEx Consortium, Christopher D. Brown, Alexis Battle
Published 2020-09-01

Genome-wide association and multi-omic analyses reveal ACTN2 as a gene linked to heart failure

by Marios Arvanitis, Emmanouil Tampakakis, Yanxiao Zhang, Wei Wang, Adam Auton, 23andMe Research Team, Diptavo Dutta, Stephanie Glavaris, Ali Keramati, Nilanjan Chatterjee, Neil C. Chi, Bing Ren, Wendy S. Post, Alexis Battle
Published 2020-02-01

ACE inhibition and cardiometabolic risk factors, lung ACE2 and TMPRSS2 gene expression, and plasma ACE2 levels: a Mendelian randomization study

by Dipender Gill, Marios Arvanitis, Paul Carter, Ana I. Hernández Cordero, Brian Jo, Ville Karhunen, Susanna C. Larsson, Xuan Li, Sam M. Lockhart, Amy Mason, Evanthia Pashos, Ashis Saha, Vanessa Y. Tan, Verena Zuber, Yohan Bossé, Sarah Fahle, Ke Hao, Tao Jiang, Philippe Joubert, Alan C. Lunt, Willem Hendrik Ouwehand, David J. Roberts, Wim Timens, Maarten van den Berge, Nicholas A. Watkins, Alexis Battle, Adam S. Butterworth, John Danesh, Emanuele Di Angelantonio, Barbara E. Engelhardt, James E. Peters, Don D. Sin, Stephen Burgess
Published 2020-11-01