John A. Capra - researchr alias

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Viewing Publication 1 - 16 from 16

2023

GSEL: a fast, flexible python package for detecting signatures of diverse evolutionary forces on genomic regionsAbin Abraham, Abigail L. Labella, Mary Lauren Benton, Antonis Rokas, John A. Capra. bioinformatics, 39(1), January 2023. [doi]

2020

Learning and interpreting the gene regulatory grammar in a deep learning frameworkLing Chen, John A. Capra. ploscb, 16(11):1008334, November 2020. [doi]

Predicting changes in protein thermodynamic stability upon point mutation with deep 3D convolutional neural networksBian Li, Yucheng T. Yang, John A. Capra, Mark B. Gerstein. ploscb, 16(11), 2020. [doi]

2018

2015

Log-odds sequence logosYi-Kuo Yu, John A. Capra, Aleksandar Stojmirovic, David Landsman, Stephen F. Altschul. bioinformatics, 31(3):324-331, 2015. [doi]

2014

Modeling DNA methylation dynamics with approaches from phylogeneticsJohn A. Capra, Dennis Kostka. bioinformatics, 30(17):408-414, 2014. [doi]

Integrating Diverse Datasets Improves Developmental Enhancer PredictionGenevieve D. Erwin, Nir Oksenberg, Rebecca M. Truty, Dennis Kostka, Karl K. Murphy, Nadav Ahituv, Katherine S. Pollard, John A. Capra. ploscb, 10(6), 2014. [doi]

2012

ProteinHistorian: Tools for the Comparative Analysis of Eukaryote Protein OriginJohn A. Capra, Alexander G. Williams, Katherine S. Pollard. ploscb, 8(6), 2012. [doi]

2010

2009

Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence Conservation and 3D StructureJohn A. Capra, Roman A. Laskowski, Janet M. Thornton, Mona Singh, Thomas A. Funkhouser. ploscb, 5(12), 2009. [doi]

2008

Characterization and prediction of residues determining protein functional specificityJohn A. Capra, Mona Singh. bioinformatics, 24(13):1473-1480, 2008. [doi]

2007

Predicting functionally important residues from sequence conservationJohn A. Capra, Mona Singh. bioinformatics, 23(15):1875-1882, 2007. [doi]

2003

: Informatics center for mouse genomics - The dissection of complex traits of the nervous systemGlenn D. Rosen, Nathan T. La Porte, Boris Diechtiareff, Christopher J. Pung, Jonathan Nissanov, Carl Gustafson, Louise Bertrand, Smadar Gefen, Yingli Fan, Oleh J. Tretiak, Kenneth F. Manly, Melburn R. Park, Alexander G. Williams, Michael T. Connolly, John A. Capra, Robert W. Williams. ni, 1(4):327-342, 2003. [doi]

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