Joshua N. Adkins

According to our database, Joshua N. Adkins authored at least 20 papers between 2004 and 2021.

Collaborative distances:

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

2021

efam: an <i>e</i>xpanded, metaproteome-supported HMM profile database of viral protein <i>fam</i>ilies.

Ahmed A. Zayed, Dominik Lücking, Mohamed Mohssen, Dylan Cronin, Ben Bolduc, Ann C. Gregory, Katherine R. Hargreaves, Paul D. Piehowski, Richard Allen White III, Eric L. Huang, Joshua N. Adkins, Simon Roux, Cristina Moraru, Matthew B. Sullivan

Bioinform., November, 2021

2019

Unified feature association networks through integration of transcriptomic and proteomic data.

Ryan S. McClure, Jason P. Wendler, Joshua N. Adkins, Jesica Swanstrom, Ralph S. Baric, Brooke L. Deatherage Kaiser, Kristie L. Oxford, Katrina M. Waters, Jason E. McDermott

PLoS Comput. Biol., 2019

2013

GIM³E: condition-specific models of cellular metabolism developed from metabolomics and expression data.

Brian J. Schmidt, Ali Ebrahim, Thomas O. Metz, Joshua N. Adkins, Bernhard Ø. Palsson, Daniel R. Hyduke

Bioinform., 2013

2011

Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella.

Hyunjin Yoon, Charles Ansong, Jason E. McDermott, Marina A. Gritsenko, Richard D. Smith, Fred Heffron, Joshua N. Adkins

BMC Syst. Biol., 2011

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.

Ines Thiele, Daniel R. Hyduke, Benjamin Steeb, Guy Fankam, Douglas K. Allen, Susanna Bazzani, Pep Charusanti, Feng-Chi Chen, Ronan M. T. Fleming, Chao A. Hsiung, Sigrid C. J. De Keersmaecker, Yu-Chieh Liao, Kathleen Marchal, Monica L. Mo, Emre Özdemir, Anu Raghunathan, Jennifer L. Reed, Sook-Il Shin, Sara Sigurbjörnsdóttir, Jonas Steinmann, Suresh Sudarsan, Neil Swainston, Inge M. Thijs, Karsten Zengler, Bernhard O. Palsson, Joshua N. Adkins, Dirk Bumann

BMC Syst. Biol., 2011

An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92.

Pep Charusanti, Sadhana Chauhan, Kathleen McAteer, Joshua A. Lerman, Daniel R. Hyduke, Vladimir L. Motin, Charles Ansong, Joshua N. Adkins, Bernhard O. Palsson

BMC Syst. Biol., 2011

2010

Applications in Data-Intensive Computing.

Anuj R. Shah, Joshua N. Adkins, Douglas J. Baxter, William R. Cannon, Daniel G. Chavarría-Miranda, Sutanay Choudhury, Ian Gorton, Deborah K. Gracio, Todd D. Halter, Navdeep Jaitly, John R. Johnson, Richard T. Kouzes, Matthew C. Macduff, Andrès Márquez, Matthew E. Monroe, Christopher S. Oehmen, William A. Pike, Chad Scherrer, Oreste Villa, Bobbie-Jo M. Webb-Robertson, Paul D. Whitney, Nino Zuljevic

Adv. Comput., 2010

Using support vector machine for improving protein-protein interaction prediction utilizing domain interactions.

Mudita Singhal, Anuj R. Shah, Joshua N. Adkins, Roslyn Brown

Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology, 2010

2009

Decon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data.

Navdeep Jaitly, Anoop M. Mayampurath, Kyle Littlefield, Joshua N. Adkins, Gordon A. Anderson, Richard D. Smith

BMC Bioinform., 2009

Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition.

Yuliya V. Karpievitch, Thomas Taverner, Joshua N. Adkins, Stephen J. Callister, Gordon A. Anderson, Richard D. Smith, Alan R. Dabney

Bioinform., 2009

A statistical framework for protein quantitation in bottom-up MS-based proteomics.

Yuliya V. Karpievitch, Jeff Stanley, Thomas Taverner, Jianhua Huang, Joshua N. Adkins, Charles Ansong, Fred Heffron, Thomas O. Metz, Wei-Jun Qian, Hyunjin Yoon, Richard D. Smith, Alan R. Dabney

Bioinform., 2009

An Architecture for Real Time Data Acquisition and Online Signal Processing for High Throughput Tandem Mass Spectrometry.

Anuj R. Shah, Navdeep Jaitly, Nino Zuljevic, Matthew E. Monroe, Andrei Liyu, Ashoka D. Polpitiya, Joshua N. Adkins, Mikhail E. Belov, Gordon A. Anderson, Richard D. Smith, Ian Gorton

Proceedings of the Fifth International Conference on e-Science, 2009

2008

MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features.

Matthew E. Monroe, Jason L. Shaw, Don Simone Daly, Joshua N. Adkins, Richard D. Smith

Comput. Biol. Chem., 2008

DAnTE: a statistical tool for quantitative analysis of -omics data.

Ashoka D. Polpitiya, Wei-Jun Qian, Navdeep Jaitly, Vladislav A. Petyuk, Joshua N. Adkins, David G. Camp II, Gordon A. Anderson, Richard D. Smith

Bioinform., 2008

DeconMSn: a software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra.

Anoop M. Mayampurath, Navdeep Jaitly, Samuel O. Purvine, Matthew E. Monroe, Kenneth J. Auberry, Joshua N. Adkins, Richard D. Smith

Bioinform., 2008

2007

PQuad - a visual analysis platform for proteomic data exploration of microbial organisms.

Bobbie-Jo M. Webb-Robertson, Elena S. Peterson, Mudita Singhal, Kyle R. Klicker, Christopher S. Oehmen, Joshua N. Adkins, Susan L. Havre

Bioinform., 2007

VIPER: an advanced software package to support high-throughput LC-MS peptide identification.

Matthew E. Monroe, Nikola Tolic, Navdeep Jaitly, Jason L. Shaw, Joshua N. Adkins, Richard D. Smith

Bioinform., 2007

2006

Analytics challenge - High-throughput visual analytics biological sciences: turning data into knowledge.

Christopher S. Oehmen, Lee Ann McCue, Joshua N. Adkins, Katrina M. Waters, Tim Carlson, William R. Cannon, Bobbie-Jo M. Webb-Robertson, Douglas J. Baxter, Elena S. Peterson, Mudita Singhal, Anuj R. Shah, Kyle R. Klicker

Proceedings of the ACM/IEEE SC2006 Conference on High Performance Networking and Computing, 2006

Session Introduction.

Bobbie-Jo M. Webb-Robertson, William R. Cannon, Joshua N. Adkins, Deborah K. Gracio

Proceedings of the Biocomputing 2006, 2006

2004

Facilitating interpretation of mass spectrometry based proteomics data.

Joel C. Hunter, Joshua N. Adkins, Joel G. Pounds, John H. Miller

Proceedings of the International Conference on Mathematics and Engineering Techniques in Medicine and Biological Scienes, 2004