Mark D'Souza

Publication Activity (10 Years)

Years Active: 1998-2019
Publications (10 Years): 3

Top Topics

Execution Environment

Natural Sciences

Drosophila Melanogaster

Alternative Splicing

Top Venues

PLoS Comput. Biol.

Briefings Bioinform.

Publications

Dinanath Sulakhe, Mark D'Souza, Sheng Wang, Sandhya Balasubramanian, Prashanth Athri, Bingqing Xie, Stefan Canzar, Gady Agam, T. Conrad Gilliam, Natalia Maltsev
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. Briefings Bioinform. 20 (5) (2019)
Dinanath Sulakhe, Bingqing Xie, Andrew Taylor, Mark D'Souza, Sandhya Balasubramanian, Somaye Hashemifar, Steven White, Utpal J. Dave, Gady Agam, Jinbo Xu, Sheng Wang, T. Conrad Gilliam, Natalia Maltsev
Lynx: a knowledge base and an analytical workbench for integrative medicine. Nucleic Acids Res. 44 (Database-Issue) (2016)
Andreas Wilke, Jared Bischof, Travis Harrison, Tom Brettin, Mark D'Souza, Wolfgang Gerlach, Hunter Matthews, Tobias Paczian, Jared Wilkening, Elizabeth M. Glass, Narayan Desai, Folker Meyer
A RESTful API for Accessing Microbial Community Data for MG-RAST. PLoS Comput. Biol. 11 (1) (2015)
Wolfgang Gerlach, Wei Tang, Kevin P. Keegan, Travis Harrison, Andreas Wilke, Jared Bischof, Mark D'Souza, Scott Devoid, Daniel E. Murphy-Olson, Narayan Desai, Folker Meyer
Skyport: container-based execution environment management for multi-cloud scientific workflows. DataCloud@SC (2014)
Kevin P. Keegan, William L. Trimble, Jared Wilkening, Andreas Wilke, Travis Harrison, Mark D'Souza, Folker Meyer
A Platform-Independent Method for Detecting Errors in Metagenomic Sequencing Data: DRISEE. PLoS Comput. Biol. 8 (6) (2012)
William L. Trimble, Kevin P. Keegan, Mark D'Souza, Andreas Wilke, Jared Wilkening, Jack A. Gilbert, Folker Meyer
Short-read reading-frame predictors are not created equal: sequence error causes loss of signal. BMC Bioinform. 13 (2012)
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)
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) (2007)
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) (2006)
Dinanath Sulakhe, Alex 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)
Ross A. Overbeek, Niels Larsen, Theresa Walunas, Mark D'Souza, Gordon D. Pusch, Evgeni Selkov Jr., Konstantinos Liolios, Viktor Joukov, Denis Kaznadzey, Iain Anderson, Anamitra Bhattacharyya, Henry Burd, Warren Gardner, Paul Hanke, Vinayak Kapatral, Natalia Mikhailova, Olga Vassieva, Andrei Osterman, Veronika Vonstein, Michael Fonstein, Natalia Ivanova, Nikos Kyrpides
The ERGOTM genome analysis and discovery system. Nucleic Acids Res. 31 (1) (2003)
Ross A. Overbeek, Niels Larsen, Gordon D. Pusch, Mark D'Souza, Evgeni Selkov Jr., Nikos Kyrpides, Michael Fonstein, Natalia Maltsev, Evgeni Selkov
WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction. Nucleic Acids Res. 28 (1) (2000)
Graziano Pesole, Sabino Liuni, Mark D'Souza
PatSearch: a pattern matcher software that finds functional elements in nucleotide and protein sequences and assesses their statistical significance. Bioinform. 16 (5) (2000)
Mark D'Souza, Margaret F. Romine, Natalia Maltsev
SENTRA, a database of signal transduction proteins. Nucleic Acids Res. 28 (1) (2000)
Ross A. Overbeek, Michael Fonstein, Mark D'Souza, Gordon D. Pusch, Natalia Maltsev
Use of contiguity on the chromosome to predict functional coupling. Silico Biol. 1 (2) (1998)