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Journal Articles
- 2024
[j10]Lanya T. Cai
, Joseph Y. Moon, Paul B. Camacho, Aaron T. Anderson, Won Jong Chwa, Bradley P. Sutton, Amy J. Markowitz, Eva M. Palacios, Alexis A. Rodriguez, Geoffrey T. Manley, Shivsundaram Shankar, Peer-Timo Bremer, Pratik Mukherjee, Ravi K. Madduri, Shankar Gopinath, Ramesh Grandhi, C. Dirk Keene, Michael A. McCrea, Randall Merchant, Laura B. Ngwenya, Ava M. Puccio, David Schnyer, Sabrina R. Taylor, John K. Yue, Esther L. Yuh, Ross Zafonte:
MaPPeRTrac: A Massively Parallel, Portable, and Reproducible Tractography Pipeline. Neuroinformatics 22(2): 177-191 (2024)- 2015
- [j9]Vassily Trubetskoy, Alex A. Rodriguez, Uptal J. Dave, Nicholas Campbell, Emily L. Crawford, Edwin H. Cook Jr., James S. Sutcliffe, Ian T. Foster, Ravi K. Madduri, Nancy J. Cox, Lea K. Davis:
Consensus Genotyper for Exome Sequencing (CGES): improving the quality of exome variant genotypes. Bioinform. 31(2): 187-193 (2015) - [j8]Ravi K. Madduri, Kyle Chard, Ryan Chard, Lukasz Lacinski, Alex A. Rodriguez, Dinanath Sulakhe, David Kelly, Utpal J. Dave, Ian T. Foster:
The Globus Galaxies platform: delivering science gateways as a service. Concurr. Comput. Pract. Exp. 27(16): 4344-4360 (2015) - [j7]Ravi K. Madduri, Alex A. Rodriguez, Thomas D. Uram, Katrin Heitmann, Tanu Malik, Saba Sehrish, Ryan Chard, Shreyas Cholia, Marc F. Paterno, Jim Kowalkowski, Salman Habib:
PDACS: A Portal for Data Analysis Services for Cosmological Simulations. Comput. Sci. Eng. 17(5): 18-26 (2015) - 2014
- [j6]Ravi K. Madduri, Dinanath Sulakhe, Lukasz Lacinski, Bo Liu, Alex A. Rodriguez, Kyle Chard, Utpal J. Dave, Ian T. Foster:
Experiences building Globus Genomics: a next-generation sequencing analysis service using Galaxy, Globus, and Amazon Web Services. Concurr. Comput. Pract. Exp. 26(13): 2266-2279 (2014) - 2008
- [j5]Folker Meyer, Daniel Paarmann, Mark D'Souza, Robert Olson, Elizabeth M. Glass, Michael Kubal, Tobias Paczian, Alexis A. Rodriguez, Rick Stevens, Andreas Wilke, Jared Wilkening, Robert A. Edwards:
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinform. 9 (2008) - [j4]Dinanath Sulakhe, Alex A. Rodriguez, Michael Wilde, Ian T. Foster, Natalia Maltsev:
Interoperability of GADU in Using Heterogeneous Grid Resources for Bioinformatics Applications. IEEE Trans. Inf. Technol. Biomed. 12(2): 241-246 (2008) - 2007
- [j3]Alexis A. Rodriguez, Tanuja Bompada, Mustafa H. Syed, Parantu K. Shah, Natalia Maltsev:
Evolutionary analysis of enzymes using Chisel. Bioinform. 23(22): 2961-2968 (2007) - [j2]Mark D'Souza, Elizabeth M. Glass, Mustafa H. Syed, Yi Zhang, Alexis A. Rodriguez, Natalia Maltsev, Michael Y. Galperin:
Sentra: a database of signal transduction proteins for comparative genome analysis. Nucleic Acids Res. 35(Database-Issue): 271-273 (2007) - 2006
- [j1]Natalia Maltsev, Elizabeth M. Glass, Dinanath Sulakhe, Alexis A. Rodriguez, Mustafa H. Syed, Tanuja Bompada, Yi Zhang, Mark D'Souza:
PUMA2 - grid-based high-throughput analysis of genomes and metabolic pathways. Nucleic Acids Res. 34(Database-Issue): 369-372 (2006)
Conference and Workshop Papers
- 2016
- [c8]Kyle Chard, Mike D'Arcy, Benjamin D. Heavner, Ian T. Foster, Carl Kesselman, Ravi K. Madduri, Alexis A. Rodriguez, Stian Soiland-Reyes, Carole A. Goble, Kristi Clark, Eric W. Deutsch, Ivo D. Dinov, Nathan D. Price, Arthur W. Toga:
I'll take that to go: Big data bags and minimal identifiers for exchange of large, complex datasets. IEEE BigData 2016: 319-328 - [c7]Ryan Chard, Kyle Chard, Bryan Ng, Kris Bubendorfer, Alex A. Rodriguez, Ravi K. Madduri, Ian T. Foster:
An Automated Tool Profiling Service for the Cloud. CCGrid 2016: 223-232 - 2014
- [c6]Ryan Chard, Saba Sehrish, Alex A. Rodriguez, Ravi K. Madduri, Thomas D. Uram, Marc F. Paterno, Katrin Heitmann, Shreyas Cholia, Jim Kowalkowski, Salman Habib:
PDACS: a portal for data analysis services for cosmological simulations. GCE@SC 2014: 30-33 - 2013
- [c5]Ketan Maheshwari, Alex A. Rodriguez, David Kelly, Ravi K. Madduri, Justin M. Wozniak, Michael Wilde, Ian T. Foster:
Enabling multi-task computation on Galaxy-based gateways using swift. CLUSTER 2013: 1-3 - [c4]Dinanath Sulakhe, Alex A. Rodriguez, Nick Prozorovsky, Nilesh Kavthekar, Ravi K. Madduri, Amol Parikh, Paul Dave, Lukasz Lacinski, Ian T. Foster:
Distributed tools deployment and management for multiple galaxy instances in globus genomics. WORKS@SC 2013: 106-111 - 2006
- [c3]Dinanath Sulakhe, Alex A. Rodriguez, Michael Wilde, Ian T. Foster, Natalia Maltsev:
Using Multiple Grid Resources for Bioinformatics Applications in GADU. CCGRID 2006: 41 - 2005
- [c2]Dinanath Sulakhe, Alex A. Rodriguez, Mark D'Souza, Michael Wilde, Veronika Nefedova, Ian T. Foster, Natalia Maltsev:
GNARE: an environment for grid-based high-throughput genome analysis. CCGRID 2005: 455-462 - 2004
- [c1]Ian T. Foster, Jerry Gieraltowski, Scott Gose, Natalia Maltsev, Edward N. May, Alex A. Rodriguez, Dinanath Sulakhe, A. Vaniachine, Jim Shank, Saul Youssef, David Adams, Richard Baker, Wensheng Deng, Jason Smith, Dantong Yu, Iosif Legrand, Suresh Singh, Conrad Steenberg, Yang Xia, M. Anzar Afaq, Eileen Berman, James Annis, L. A. T. Bauerdick, Michael Ernst, Ian Fisk, Lisa Giacchetti, Gregory E. Graham, Anne Heavey, Joseph Kaiser, Nickolai Kuropatkin, Ruth Pordes, Vijay Sekhri, John Weigand, Yujun Wu, Keith Baker, Lawrence Sorrillo, John Huth, Matthew Allen, Leigh Grundhoefer, John Hicks, Fred Luehring, Steve Peck, Robert Quick, Stephen C. Simms, George Fekete, Jan vandenBerg, Kihyeon Cho, Kihwan Kwon, Dongchul Son, Hyoungwoo Park, Shane Canon, Keith R. Jackson, David E. Konerding, Jason Lee, Doug Olson, Iwona Sakrejda, Brian Tierney, Mark Green, Russ Miller, James Letts, Terrence Martin, David Bury, Catalin Dumitrescu, Daniel Engh, Robert W. Gardner, Marco Mambelli, Yuri Smirnov, Jens-S. Vöckler, Michael Wilde, Yong Zhao, Xin Zhao, Paul Avery, Richard Cavanaugh, Bockjoo Kim, Craig Prescott, Jorge Luis Rodriguez, Andrew Zahn, Shawn McKee, Christopher T. Jordan, James E. Prewett, Timothy L. Thomas, Horst Severini, Ben Clifford, Ewa Deelman, Larry Flon, Carl Kesselman, Gaurang Mehta, Nosa Olomu, Karan Vahi, Kaushik De, Patrick McGuigan, Mark Sosebee, Dan Bradley, Peter Couvares, Alan DeSmet, Carey Kireyev, Erik Paulson, Alain Roy, Scott Koranda, Brian Moe, Bobby Brown, Paul Sheldon:
The Grid2003 Production Grid: Principles and Practice. HPDC 2004: 236-245
Informal and Other Publications
- 2018
- [i1]Ravi K. Madduri, Kyle Chard, Michel D'Arcy, Segun Jung, Alexis A. Rodriguez, Dinanath Sulakhe, Eric Deutsch, Cory C. Funk, Benjamin D. Heavner, Matthew A. Richards, Paul Shannon, Gustavo Glusman, Nathan D. Price, Carl Kesselman, Ian T. Foster:
Reproducible big data science: A case study in continuous FAIRness. RO 2018
Coauthor Index
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