Matthew W. Vaughn

According to our database, Matthew W. Vaughn authored at least 28 papers between 2010 and 2024.

Collaborative distances:

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

2024

CyVerse: Cyberinfrastructure for open science.

Tyson L. Swetnam, Parker B. Antin, Ryan Bartelme, Alexander Bucksch, David Camhy, Greg Chism, Illyoung Choi, Amanda M. Cooksey, Michele Cosi, Cindy Cowen, Michael Culshaw-Maurer, Robert Davey, Sean Davey, Upendra Devisetty, Tony Edgin, Andy Edmonds, Dmitry V. Fedorov, Jeremy Frady, John Fonner, Jeffrey K. Gillan, Iqbal Hossain, Blake Joyce, Konrad Lang, Tina Lee, Shelley Littin, Ian McEwen, Nirav C. Merchant, David Micklos, Andrew Nelson, Ashley Ramsey, Sarah Roberts, Paul Sarando, Edwin Skidmore, Jawon Song, Mary Margaret Sprinkle, Sriram Srinivasan, Dan Stanzione, Jonathan D. Strootman, Sarah Stryeck, Reetu Tuteja, Matthew Vaughn, Mojib Wali, Mariah Wall, Ramona Walls, Liya Wang, Todd Wickizer, Jason Williams, John Wregglesworth, Eric Lyons

PLoS Comput. Biol., February, 2024

2022

Prediction of whole-cell transcriptional response with machine learning.

Mohammed Eslami, Amin Espah Borujeni, Hamed Eramian, Mark Weston, George Zheng, Joshua Urrutia, Carolyn Corbet, Diveena Becker, Paul Maschhoff, Katie Clowers, Alexander Cristofaro, Hamid Doost Hosseini, D. Benjamin Gordon, Yuval Dorfan, Jedediah Singer, Matthew Vaughn, Niall Gaffney, John Fonner, Joe Stubbs, Christopher A. Voigt, Enoch Yeung

Bioinform., 2022

2021

The relationships between misinformation and outrage trolling tactics on two Yahoo! Answers categories.

Pnina Fichman, Matthew Vaughn

J. Assoc. Inf. Sci. Technol., 2021

Large Scale Science on NSF's Frontera System.

John West, Paul A. Navrátil, Maytal Dahan, Matthew Vaughn

Comput. Sci. Eng., 2021

Jetstream2: Accelerating cloud computing via Jetstream.

David Y. Hancock, Jeremy Fischer, John Michael Lowe, Winona Snapp-Childs, Marlon E. Pierce, Suresh Marru, J. Eric Coulter, Matthew Vaughn, Brian W. Beck, Nirav C. Merchant, Edwin Skidmore, Gwen A. Jacobs

Proceedings of the PEARC '21: Practice and Experience in Advanced Research Computing, 2021

Characterizing Containerized HPC Applications Performance at Petascale on CPU and GPU Architectures.

Amit Ruhela, Stephen Lien Harrell, Richard Todd Evans, Gregory J. Zynda, John M. Fonner, Matt Vaughn, Tommy Minyard, John Cazes

Proceedings of the High Performance Computing - 36th International Conference, 2021

2020

Integrating Jupyter into Research Computing Ecosystems: Challenges and Successes in Architecting JupyterHub for Collaborative Research Computing Ecosystems.

Joe Stubbs, Julia Looney, Marjo Poindexter, Elias Chalhoub, Gregory J. Zynda, Erik S. Ferlanti, Matthew Vaughn, John M. Fonner, Maytal Dahan

Proceedings of the PEARC '20: Practice and Experience in Advanced Research Computing, 2020

How to undertake ideologically contentious research: Leaning on reflexivity and positionality to address uncomfortable disjuncture's in information research.

Shannon M. Oltmann, Sarah Barriage, Devon L. Greyson, Matthew Vaughn

Proceedings of the Information for a Sustainable World: Addressing Society's Grand Challenges, 2020

2019

Jetstream - Early operations performance, adoption, and impacts.

David Y. Hancock, Craig A. Stewart, Matthew Vaughn, Jeremy Fischer, John Michael Lowe, George W. Turner, Tyson Lee Swetnam, Tyler K. Chafin, Enis Afgan, Marlon E. Pierce, Winona Snapp-Childs

Concurr. Comput. Pract. Exp., 2019

Hyperparameter Optimization of Topological Features for Machine Learning Applications.

Francis C. Motta, John Harer, Nick Leiby, Franco Marinozzi, Scott Novotney, Gabe Rocklin, Jed Singer, Devin Strickland, Matt Vaughn, Christopher J. Tralie, Rossella Bedini, Fabiano Bini, Gilberto Bini, Hamed Eramian, Marcio Gameiro, Steven B. Haase, Hugh Haddox

Proceedings of the 18th IEEE International Conference On Machine Learning And Applications, 2019

2018

Platform for Automated Real-Time High Performance Analytics on Medical Image Data.

William J. Allen, Refaat E. Gabr, Getaneh B. Tefera, Amol S. Pednekar, Matthew W. Vaughn, Ponnada A. Narayana

IEEE J. Biomed. Health Informatics, 2018

Rapid Development of Scalable, Distributed Computation with Abaco.

Joe Stubbs, Matthew Vaughn, Julia Looney

Proceedings of the 10th International Workshop on Science Gateways, 2018

2017

Engineering Academic Software (Dagstuhl Perspectives Workshop 16252).

Alice Allen, Cecilia R. Aragon, Christoph Becker, Jeffrey C. Carver, Andrei Chis, Benoît Combemale, Mike Croucher, Kevin Crowston, Daniel Garijo, Ashish Gehani, Carole A. Goble, Robert Haines, Robert Hirschfeld, James Howison, Kathryn D. Huff, Caroline Jay, Daniel S. Katz, Claude Kirchner, Katie Kuksenok, Ralf Lämmel, Oscar Nierstrasz, Matthew J. Turk, Rob van Nieuwpoort, Matthew Vaughn, Jurgen J. Vinju

Dagstuhl Manifestos, 2017

Repliscan: a tool for classifying replication timing regions.

Gregory J. Zynda, Jawon Song, Lorenzo Concia, Emily E. Wear, Linda Hanley-Bowdoin, William F. Thompson, Matthew W. Vaughn

BMC Bioinform., 2017

2016

Jetstream: performance, early experiences, and early results.

Craig A. Stewart, David Y. Hancock, Matthew Vaughn, Jeremy Fischer, Tim Cockerill, Liming Lee, Nirav C. Merchant, Therese Miller, John Michael Lowe, Daniel C. Stanzione Jr., James Taylor, Edwin Skidmore

Proceedings of the XSEDE16 Conference on Diversity, 2016

2015

Araport: the Arabidopsis Information Portal.

Vivek Krishnakumar, Matthew R. Hanlon, Sergio Contrino, Erik S. Ferlanti, Svetlana Karamycheva, Maria Kim, Benjamin D. Rosen, Chia-Yi Cheng, Walter Moreira, Stephen A. Mock, Joseph Stubbs, Julie M. Sullivan, Konstantinos Krampis, Jason R. Miller, Gos Micklem, Matthew Vaughn, Christopher D. Town

Nucleic Acids Res., 2015

Araport: an application platform for data discovery.

Matthew R. Hanlon, Matthew Vaughn, Stephen A. Mock, Rion Dooley, Walter Moreira, Joe Stubbs, Christopher Town, Jason R. Miller, Vivek Krishnakumar, Erik S. Ferlanti, Eleanor Pence

Concurr. Comput. Pract. Exp., 2015

Jetstream: a self-provisioned, scalable science and engineering cloud environment.

Craig A. Stewart, Timothy M. Cockerill, Ian T. Foster, David Y. Hancock, Nirav C. Merchant, Edwin Skidmore, Daniel Stanzione, James Taylor, Steven Tuecke, George W. Turner, Matthew Vaughn, Niall I. Gaffney

Proceedings of the 2015 XSEDE Conference: Scientific Advancements Enabled by Enhanced Cyberinfrastructure, St. Louis, MO, USA, July 26, 2015

Feature frequency profiles for automatic sample identification using PySpark.

Gregory J. Zynda, Niall Gaffney, Mehmet M. Dalkilic, Matthew W. Vaughn

Proceedings of the 5th Workshop on Python for High-Performance and Scientific Computing, 2015

2014

Leveraging the national cyberinfrastructure for biomedical research.

Richard D. LeDuc, Matthew Vaughn, John M. Fonner, Michael Sullivan, James G. Williams, Philip D. Blood, James Taylor, William K. Barnett

J. Am. Medical Informatics Assoc., 2014

Discovery of biological networks using an optimized partial correlation coefficient with information theory algorithm on Stampede's Xeon and Xeon Phi processors.

Lars Koesterke, James E. Koltes, Nathan T. Weeks, Kent F. Milfeld, Matthew W. Vaughn, James M. Reecy, Daniel Stanzione

Concurr. Comput. Pract. Exp., 2014

The arabidopsis information portal: an application platform for data discovery.

Matthew R. Hanlon, Matthew Vaughn, Stephen A. Mock, Rion Dooley, Walter Moreira, Joe Stubbs, Christopher Town, Jason R. Miller, Vivek Krishnakumar, Erik S. Ferlanti, Eleanor Pence

Proceedings of the 9th Gateway Computing Environments Workshop, 2014

The Texas Advanced Computing Center: A complete scientific discovery environment for biomedical informatics and health science research.

Matthew C. Cowperthwaite, James D. Carson, John M. Fonner, Oscar Jiao, Jawon Song, Matthew W. Vaughn

Proceedings of the AMIA 2014, 2014

2013

National Center for Genome Analysis support leverages XSEDE to support life science research.

Richard D. LeDuc, Thomas G. Doak, Le-Shin Wu, Philip D. Blood, Carrie L. Ganote, Matthew Vaughn

Proceedings of the Extreme Science and Engineering Discovery Environment: Gateway to Discovery, 2013

Optimizing the PCIT algorithm on stampede's Xeon and Xeon Phi processors for faster discovery of biological networks.

Lars Koesterke, Kent F. Milfeld, Matthew W. Vaughn, Daniel Stanzione, James E. Koltes, Nathan T. Weeks, James M. Reecy

Proceedings of the Extreme Science and Engineering Discovery Environment: Gateway to Discovery, 2013

2012

Quantitative Trait Locus Analysis Using a Partitioned Linear Model on a GPU Cluster.

Peter E. Bailey, Tapasya Patki, Gregory M. Striemer, Ali Akoglu, David K. Lowenthal, Peter Bradbury, Matt Vaughn, Liya Wang, Stephen Goff

Proceedings of the 26th IEEE International Parallel and Distributed Processing Symposium Workshops & PhD Forum, 2012

2011

An Efficient and Scalable Implementation of SNP-Pair Interaction Testing for Genetic Association Studies.

Lars Koesterke, Daniel Stanzione, Matthew W. Vaughn, Stephen M. Welch, Waclaw Kusnierczyk, Jinliang Yang, Cheng-Ting Yeh, Dan Nettleton, Patrick S. Schnable

Proceedings of the 25th IEEE International Symposium on Parallel and Distributed Processing, 2011

2010

Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs.

Vamsi Kundeti, Sanguthevar Rajasekaran, Hieu Dinh, Matthew Vaughn, Vishal Thapar

BMC Bioinform., 2010