Constructing knowledge graphs and their biomedical applications

by David N. Nicholson, Casey S. Greene
Published 2020-01-01

Chapter 2: Data-driven view of disease biology.

by Casey S Greene, Olga G Troyanskaya
Published 2012-01-01

Machine Learning Analysis Identifies Drosophila Grunge/Atrophin as an Important Learning and Memory Gene Required for Memory Retention and Social Learning

by Balint Z. Kacsoh, Casey S. Greene, Giovanni Bosco
Published 2017-11-01

Cross-platform normalization of microarray and RNA-seq data for machine learning applications

by Jeffrey A. Thompson, Jie Tan, Casey S. Greene
Published 2016-01-01

Dietary Supplements and Nutraceuticals under Investigation for COVID-19 Prevention and Treatment

by Ronan Lordan, Halie M. Rando, Casey S. Greene
Published 2021-06-01

Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations

by Gregory P. Way, Michael Zietz, Vincent Rubinetti, Daniel S. Himmelstein, Casey S. Greene
Published 2020-05-01

Failure to replicate a genetic association may provide important clues about genetic architecture.

by Casey S Greene, Nadia M Penrod, Scott M Williams, Jason H Moore
Published 2009-06-01

ADAGE signature analysis: differential expression analysis with data-defined gene sets

by Jie Tan, Matthew Huyck, Dongbo Hu, René A. Zelaya, Deborah A. Hogan, Casey S. Greene
Published 2017-11-01

Open collaborative writing with Manubot.

by Daniel S Himmelstein, Vincent Rubinetti, David R Slochower, Dongbo Hu, Venkat S Malladi, Casey S Greene, Anthony Gitter
Published 2019-06-01

PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia

by Kathleen M. Chen, Jie Tan, Gregory P. Way, Georgia Doing, Deborah A. Hogan, Casey S. Greene
Published 2018-07-01

Sci-Hub provides access to nearly all scholarly literature

by Daniel S Himmelstein, Ariel Rodriguez Romero, Jacob G Levernier, Thomas Anthony Munro, Stephen Reid McLaughlin, Bastian Greshake Tzovaras, Casey S Greene
Published 2018-02-01

New Drosophila Long-Term Memory Genes Revealed by Assessing Computational Function Prediction Methods

by Balint Z. Kacsoh, Stephen Barton, Yuxiang Jiang, Naihui Zhou, Sean D. Mooney, Iddo Friedberg, Predrag Radivojac, Casey S. Greene, Giovanni Bosco
Published 2019-01-01

Functional knowledge transfer for high-accuracy prediction of under-studied biological processes.

by Christopher Y Park, Aaron K Wong, Casey S Greene, Jessica Rowland, Yuanfang Guan, Lars A Bongo, Rebecca D Burdine, Olga G Troyanskaya
Published 2013-01-01

Systems level analysis of systemic sclerosis shows a network of immune and profibrotic pathways connected with genetic polymorphisms.

by J Matthew Mahoney, Jaclyn Taroni, Viktor Martyanov, Tammara A Wood, Casey S Greene, Patricia A Pioli, Monique E Hinchcliff, Michael L Whitfield
Published 2015-01-01

Comprehensive Cross-Population Analysis of High-Grade Serous Ovarian Cancer Supports No More Than Three Subtypes

by Gregory P. Way, James Rudd, Chen Wang, Habib Hamidi, Brooke L. Fridley, Gottfried E. Konecny, Ellen L. Goode, Casey S. Greene, Jennifer A. Doherty
Published 2016-12-01

Large-Scale Bioinformatics Analysis of Bacillus Genomes Uncovers Conserved Roles of Natural Products in Bacterial Physiology

by Kirk J. Grubbs, Rachel M. Bleich, Kevin C. Santa Maria, Scott E. Allen, Sherif Farag, AgBiome Team, Elizabeth A. Shank, Albert A. Bowers, Casey S. Greene
Published 2017-11-01

Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1

by Jineta Banerjee, Robert J Allaway, Jaclyn N Taroni, Aaron Baker, Xiaochun Zhang, Chang In Moon, Christine A Pratilas, Jaishri O Blakeley, Justin Guinney, Angela Hirbe, Casey S Greene, Sara JC Gosline
Published 2020-02-01

Immune landscapes associated with different glioblastoma molecular subtypes

by Maria Martinez-Lage, Timothy M. Lynch, Yingtao Bi, Carolina Cocito, Gregory P. Way, Sharmistha Pal, Josephine Haller, Rachel E. Yan, Amy Ziober, Aivi Nguyen, Manoj Kandpal, Donald M. O’Rourke, Jeffrey P. Greenfield, Casey S. Greene, Ramana V. Davuluri, Nadia Dahmane
Published 2019-11-01

Macrophages in SHH subgroup medulloblastoma display dynamic heterogeneity that varies with treatment modality

by Mai T. Dang, Michael V. Gonzalez, Krutika S. Gaonkar, Komal S. Rathi, Patricia Young, Sherjeel Arif, Li Zhai, Zahidul Alam, Samir Devalaraja, Tsun Ki Jerrick To, Ian W. Folkert, Pichai Raman, Jo Lynne Rokita, Daniel Martinez, Jaclyn N. Taroni, Joshua A. Shapiro, Casey S. Greene, Candace Savonen, Fernanda Mafra, Hakon Hakonarson, Tom Curran, Malay Haldar
Published 2021-03-01

Community-wide hackathons to identify central themes in single-cell multi-omics

by Kim-Anh Lê Cao, Al J. Abadi, Emily F. Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb, Atul Deshpande, Yuzhou Feng, Pratheepa Jeganathan, Melanie Loth, Chen Meng, Wancen Mu, Vera Pancaldi, Kris Sankaran, Amrit Singh, Joshua S. Sodicoff, Genevieve L. Stein-O’Brien, Ayshwarya Subramanian, Joshua D. Welch, Yue You, Ricard Argelaguet, Vincent J. Carey, Ruben Dries, Casey S. Greene, Susan Holmes, Michael I. Love, Matthew E. Ritchie, Guo-Cheng Yuan, Aedin C. Culhane, Elana Fertig
Published 2021-08-01