Matthew T. Weirauch

According to our database, Matthew T. Weirauch authored at least 11 papers between 2003 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks.

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

PLoS Comput. Biol., January, 2023

2015

DREAMTools: a Python package for scoring collaborative challenges.

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

F1000Research, 2015

Meta-Analysis of Differential Gene Co-Expression: Application to Lupus.

Sumit B. Makashir, Leah C. Kottyan, Matthew T. Weirauch

Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

2013

A compendium of RNA-binding motifs for decoding gene regulation.

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

Nat., 2013

2008

Identification of Conserved Regulatory Elements in Mammalian Promoter Regions: A Case Study Using the PCK1 Promoter.

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

Genom. Proteom. Bioinform., 2008

Information-based methods for predicting gene function from systematic gene knock-downs.

Matthew T. Weirauch, Christopher K. Wong, Alexandra B. Byrne, Joshua M. Stuart

BMC Bioinform., 2008

2007

A search engine to identify pathway genes from expression data on multiple organisms.

Chunnuan Chen, Matthew T. Weirauch, Corey Powell, Alexander C. Zambon, Joshua M. Stuart

BMC Syst. Biol., 2007

2006

Rapid knot detection and application to protein structure prediction.

Firas Khatib, Matthew T. Weirauch, Carol A. Rohl

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005

Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results.

Laura Elnitski, Belinda Giardine, Prachi Shah, Yi Zhang, Cathy Riemer, Matthew T. Weirauch, Richard Burhans, Webb Miller, Ross C. Hardison

Nucleic Acids Res., 2005

Discovering Functional Transcription Factor Binding from Superimposed Gene Networks.

Matthew T. Weirauch, Joshua M. Stuart

Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference Workshops & Poster Abstracts, 2005

2003

MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences.

Scott Schwartz, Laura Elnitski, Mei Li, Matthew T. Weirauch, Cathy Riemer, Arian Smit, Eric D. Green, Ross C. Hardison, Webb Miller

Nucleic Acids Res., 2003