What is a placental mammal anyway?

by Patrick Abbot, John A Capra
Published 2017-09-01

Learning and interpreting the gene regulatory grammar in a deep learning framework.

by Ling Chen, John A Capra
Published 2020-11-01

Ancient human miRNAs are more likely to have broad functions and disease associations than young miRNAs

by Vir D. Patel, John A. Capra
Published 2017-08-01

ProteinHistorian: tools for the comparative analysis of eukaryote protein origin.

by John A Capra, Alexander G Williams, Katherine S Pollard
Published 2012-01-01

Genome-wide maps of distal gene regulatory enhancers active in the human placenta.

by Joanna Zhang, Corinne N Simonti, John A Capra
Published 2018-01-01

Short DNA sequence patterns accurately identify broadly active human enhancers

by Laura L. Colbran, Ling Chen, John A. Capra
Published 2017-07-01

Prediction of gene regulatory enhancers across species reveals evolutionarily conserved sequence properties.

by Ling Chen, Alexandra E Fish, John A Capra
Published 2018-10-01

Quantifying the contribution of Neanderthal introgression to the heritability of complex traits

by Evonne McArthur, David C. Rinker, John A. Capra
Published 2021-07-01

Signatures of Recent Positive Selection in Enhancers Across 41 Human Tissues

by Jiyun M. Moon, John A. Capra, Patrick Abbot, Antonis Rokas
Published 2019-08-01

Predicting changes in protein thermodynamic stability upon point mutation with deep 3D convolutional neural networks.

by Bian Li, Yucheng T Yang, John A Capra, Mark B Gerstein
Published 2020-11-01

G-quadruplex DNA sequences are evolutionarily conserved and associated with distinct genomic features in Saccharomyces cerevisiae.

by John A Capra, Katrin Paeschke, Mona Singh, Virginia A Zakian
Published 2010-07-01

Genome-wide enhancer annotations differ significantly in genomic distribution, evolution, and function

by Mary Lauren Benton, Sai Charan Talipineni, Dennis Kostka, John A. Capra
Published 2019-06-01

A model-based analysis of GC-biased gene conversion in the human and chimpanzee genomes.

by John A Capra, Melissa J Hubisz, Dennis Kostka, Katherine S Pollard, Adam Siepel
Published 2013-01-01

Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure.

by John A Capra, Roman A Laskowski, Janet M Thornton, Mona Singh, Thomas A Funkhouser
Published 2009-12-01

integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth

by Haley R. Eidem, Jacob L. Steenwyk, Jennifer H. Wisecaver, John A. Capra, Patrick Abbot, Antonis Rokas
Published 2018-11-01

PSCAN: Spatial scan tests guided by protein structures improve complex disease gene discovery and signal variant detection

by Zheng-Zheng Tang, Gregory R. Sliwoski, Guanhua Chen, Bowen Jin, William S. Bush, Bingshan Li, John A. Capra
Published 2020-08-01

Integrating diverse datasets improves developmental enhancer prediction.

by Genevieve D Erwin, Nir Oksenberg, Rebecca M Truty, Dennis Kostka, Karl K Murphy, Nadav Ahituv, Katherine S Pollard, John A Capra
Published 2014-06-01

Pfh1 Is an Accessory Replicative Helicase that Interacts with the Replisome to Facilitate Fork Progression and Preserve Genome Integrity.

by Karin R McDonald, Amanda J Guise, Parham Pourbozorgi-Langroudi, Ileana M Cristea, Virginia A Zakian, John A Capra, Nasim Sabouri
Published 2016-09-01

Three-dimensional spatial analysis of missense variants in RTEL1 identifies pathogenic variants in patients with Familial Interstitial Pneumonia

by R. Michael Sivley, Jonathan H. Sheehan, Jonathan A. Kropski, Joy Cogan, Timothy S. Blackwell, John A. Phillips, William S. Bush, Jens Meiler, John A. Capra
Published 2018-01-01

Accounting for diverse evolutionary forces reveals mosaic patterns of selection on human preterm birth loci

by Abigail L. LaBella, Abin Abraham, Yakov Pichkar, Sarah L. Fong, Ge Zhang, Louis J. Muglia, Patrick Abbot, Antonis Rokas, John A. Capra
Published 2020-07-01