Search Results - Alexis Battle

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  1. 1

    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 in F1000Research (2019-04-01)
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  2. 2

    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 in F1000Research (2018-11-01)
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  3. 3

    Bayesian Multi-View Clustering given complex inter-view structure [version 2; peer review: 2 approved] by Benjamin D. Shapiro, Alexis Battle

    Published in F1000Research (2024-02-01)
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  4. 4

    Automated identification of pathways from quantitative genetic interaction data by Alexis Battle, Martin C Jonikas, Peter Walter, Jonathan S Weissman, Daphne Koller

    Published in Molecular Systems Biology (2010-06-01)
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  5. 5

    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 in BMC Cancer (2017-06-01)
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  6. 6

    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 in PLoS ONE (2014-01-01)
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  7. 7

    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 in Genome Biology (2019-05-01)
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  8. 8

    Single-cell allele-specific expression analysis reveals dynamic and cell-type-specific regulatory effects by Guanghao Qi, Benjamin J. Strober, Joshua M. Popp, Rebecca Keener, Hongkai Ji, Alexis Battle

    Published in Nature Communications (2023-10-01)
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  9. 9

    Transcriptomic signatures of rare variant impacts across sex and the X chromosome by Rachel A. Ungar, Taibo Li, Nikolai G. Vetr, Nicole Ersaro, Alexis Battle, Stephen B. Montgomery

    Published in HGG Advances (2025-07-01)
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  10. 10

    Genome-wide large-scale multi-trait analysis characterizes global patterns of pleiotropy and unique trait-specific variants by Guanghao Qi, Surya B. Chhetri, Debashree Ray, Diptavo Dutta, Alexis Battle, Samsiddhi Bhattacharjee, Nilanjan Chatterjee

    Published in Nature Communications (2024-08-01)
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  11. 11

    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 in Genome Biology (2020-08-01)
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  12. 12

    SURGE: uncovering context-specific genetic-regulation of gene expression from single-cell RNA sequencing using latent-factor models by Benjamin J. Strober, Karl Tayeb, Joshua Popp, Guanghao Qi, M. Grace Gordon, Richard Perez, Chun Jimmie Ye, Alexis Battle

    Published in Genome Biology (2024-01-01)
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  13. 13

    Prioritization of causal genes from genome-wide association studies by Bayesian data integration across loci. by Zeinab Mousavi, Marios Arvanitis, ThuyVy Duong, Jennifer A Brody, Alexis Battle, Nona Sotoodehnia, Ali Shojaie, Dan E Arking, Joel S Bader

    Published in PLoS Computational Biology (2025-01-01)
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  14. 14

    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 in PLoS ONE (2014-01-01)
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  15. 15

    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 in PLoS Computational Biology (2015-05-01)
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  16. 16

    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 in PLoS ONE (2014-01-01)
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  17. 17

    OTTERS: a powerful TWAS framework leveraging summary-level reference data by Qile Dai, Geyu Zhou, Hongyu Zhao, Urmo Võsa, Lude Franke, Alexis Battle, Alexander Teumer, Terho Lehtimäki, Olli T. Raitakari, Tõnu Esko, eQTLGen Consortium, Michael P. Epstein, Jingjing Yang

    Published in Nature Communications (2023-03-01)
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  18. 18

    Genotype inference from aggregated chromatin accessibility data reveals genetic regulatory mechanisms by Brandon M. Wenz, Yuan He, Nae-Chyun Chen, Joseph K. Pickrell, Jeremiah H. Li, Max F. Dudek, Taibo Li, Rebecca Keener, Benjamin F. Voight, Christopher D. Brown, Alexis Battle

    Published in Genome Biology (2025-03-01)
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  19. 19

    Network reconstruction for trans acting genetic loci using multi-omics data and prior information by Johann S. Hawe, Ashis Saha, Melanie Waldenberger, Sonja Kunze, Simone Wahl, Martina Müller-Nurasyid, Holger Prokisch, Harald Grallert, Christian Herder, Annette Peters, Konstantin Strauch, Fabian J. Theis, Christian Gieger, John Chambers, Alexis Battle, Matthias Heinig

    Published in Genome Medicine (2022-11-01)
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  20. 20

    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 in Royal Society Open Science (2020-11-01)
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