Matthew T. Weirauch

11 papers Misc 1Journal 8Unranked 2
YearRankTypeTitle / Venue / Authors
2023 J jnl
maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks.
PLoS Comput. Biol.
Tareian A. Cazares, Faiz W. Rizvi, Balaji Iyer, Xiaoting Chen, Michael Kotliar, Anthony T. Bejjani, Joseph A. Wayman, Omer Donmez, Benjamin Wronowski, Sreeja Parameswaran, Leah C. Kottyan, Artem Barski, Matthew T. Weirauch, V. B. Surya Prasath, Emily R. Miraldi
2015 J jnl
DREAMTools: a Python package for scoring collaborative challenges.
F1000Research
Thomas Cokelaer, Mukesh Bansal, Christopher Bare, Erhan Bilal, Brian M. Bot, Elias Chaibub Neto, Federica Eduati, Mehmet Gönen, Steven M. Hill, Bruce R. Hoff, Jonathan R. Karr, Robert Küffner, Michael P. Menden, Pablo Meyer, Raquel Norel, Abhishek Pratap, Robert J. Prill, Matthew T. Weirauch, James C. Costello, Gustavo Stolovitzky, Julio Saez-Rodriguez
2015 Misc conf
Meta-Analysis of Differential Gene Co-Expression: Application to Lupus.
Pacific Symposium on Biocomputing
Sumit B. Makashir, Leah C. Kottyan, Matthew T. Weirauch
2013 J jnl
A compendium of RNA-binding motifs for decoding gene regulation.
Nat.
Debashish Ray, Hilal Kazan, Kate B. Cook, Matthew T. Weirauch, Hamed S. Najafabadi, Xiao Li, Serge Gueroussov, Mihai Albu, Hong Zheng, Ally Yang, Hong Na, Manuel Irimia, Leah H. Matzat, Ryan K. Dale, Sarah A. Smith, Christopher A. Yarosh, Seth M. Kelly, Behnam Nabet, Desirea Mecenas, Weimin Li, Rakesh S. Laishram, Mei Qiao, Howard D. Lipshitz, Fabio Piano, Anita H. Corbett, Russ P. Carstens, Brendan J. Frey, Richard A. Anderson, Kristen W. Lynch, Luiz O. F. Penalva, Elissa P. Lei, Andrew G. Fraser, Benjamin J. Blencowe, Quaid Morris, Timothy R. Hughes
2008 J jnl
Identification of Conserved Regulatory Elements in Mammalian Promoter Regions: A Case Study Using the PCK1 Promoter.
Genom. Proteom. Bioinform.
George E. Liu, Matthew T. Weirauch, Curtis P. Van Tassell, Robert W. Li, Tad S. Sonstegard, Lakshmi K. Matukumalli, Erin E. Connor, Richard W. Hanson, Jianqi Yang
2008 J jnl
Information-based methods for predicting gene function from systematic gene knock-downs.
BMC Bioinform.
Matthew T. Weirauch, Christopher K. Wong, Alexandra B. Byrne, Joshua M. Stuart
2007 J jnl
A search engine to identify pathway genes from expression data on multiple organisms.
BMC Syst. Biol.
Chunnuan Chen, Matthew T. Weirauch, Corey Powell, Alexander C. Zambon, Joshua M. Stuart
2006 — conf
Rapid knot detection and application to protein structure prediction.
ISMB (Supplement of Bioinformatics)
Firas Khatib, Matthew T. Weirauch, Carol A. Rohl
2005 — conf
Discovering Functional Transcription Factor Binding from Superimposed Gene Networks.
CSB Workshops
Matthew T. Weirauch, Joshua M. Stuart
2005 J jnl
Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results.
Nucleic Acids Res.
Laura Elnitski, Belinda Giardine, Prachi Shah, Yi Zhang, Cathy Riemer, Matthew T. Weirauch, Richard Burhans, Webb Miller, Ross C. Hardison
2003 J jnl
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences.
Nucleic Acids Res.
Scott Schwartz, Laura Elnitski, Mei Li, Matthew T. Weirauch, Cathy Riemer, Arian Smit, Eric D. Green, Ross C. Hardison, Webb Miller