Joshua N. Adkins

Publication Activity (10 Years)

Years Active: 2004-2021
Publications (10 Years): 2

Top Topics

Metabolic Networks

Cellular Automata

Computational Methods

Top Venues

PLoS Comput. Biol.

Publications

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
ilies. Bioinform. 37 (22) (2021)
Ryan 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
Unified feature association networks through integration of transcriptomic and proteomic data. PLoS Comput. Biol. 15 (9) (2019)
Brian J. Schmidt, Ali Ebrahim, Thomas O. Metz, Joshua N. Adkins, Bernhard Ø. Palsson, Daniel R. Hyduke
E: condition-specific models of cellular metabolism developed from metabolomics and expression data. Bioinform. 29 (22) (2013)
Pep Charusanti, Sadhana Chauhan, Kathleen McAteer, Joshua A. Lerman, Daniel R. Hyduke, Vladimir L. Motin, Charles Ansong, Joshua N. Adkins, Bernhard O. Palsson
An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92. BMC Syst. Biol. 5 (2011)
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
A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2. BMC Syst. Biol. 5 (2011)
Hyunjin Yoon, Charles Ansong, Jason E. McDermott, Marina A. Gritsenko, Richard D. Smith, Fred Heffron, Joshua N. Adkins
Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella. BMC Syst. Biol. 5 (2011)
Mudita Singhal, Anuj R. Shah, Joshua N. Adkins, Roslyn Brown
Using support vector machine for improving protein-protein interaction prediction utilizing domain interactions. BCB (2010)
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
Applications in Data-Intensive Computing. Adv. Comput. 79 (2010)
Navdeep Jaitly, Anoop M. Mayampurath, Kyle Littlefield, Joshua N. Adkins, Gordon A. Anderson, Richard D. Smith
Decon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data. BMC Bioinform. 10 (2009)
Yuliya V. Karpievitch, Thomas Taverner, Joshua N. Adkins, Stephen J. Callister, Gordon A. Anderson, Richard D. Smith, Alan R. Dabney
Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition. Bioinform. 25 (19) (2009)
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
An Architecture for Real Time Data Acquisition and Online Signal Processing for High Throughput Tandem Mass Spectrometry. eScience (2009)
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
A statistical framework for protein quantitation in bottom-up MS-based proteomics. Bioinform. 25 (16) (2009)
Matthew E. Monroe, Jason L. Shaw, Don Simone Daly, Joshua N. Adkins, Richard D. Smith
MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features. Comput. Biol. Chem. 32 (3) (2008)
Ashoka D. Polpitiya, Wei-Jun Qian, Navdeep Jaitly, Vladislav A. Petyuk, Joshua N. Adkins, David G. Camp II, Gordon A. Anderson, Richard D. Smith
DAnTE: a statistical tool for quantitative analysis of -omics data. Bioinform. 24 (13) (2008)
Anoop M. Mayampurath, Navdeep Jaitly, Samuel O. Purvine, Matthew E. Monroe, Kenneth J. Auberry, Joshua N. Adkins, Richard D. Smith
DeconMSn: a software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra. Bioinform. 24 (7) (2008)
Matthew E. Monroe, Nikola Tolic, Navdeep Jaitly, Jason L. Shaw, Joshua N. Adkins, Richard D. Smith
VIPER: an advanced software package to support high-throughput LC-MS peptide identification. Bioinform. 23 (15) (2007)
Bobbie-Jo M. Webb-Robertson, Elena S. Peterson, Mudita Singhal, Kyle R. Klicker, Christopher S. Oehmen, Joshua N. Adkins, Susan L. Havre
PQuad - a visual analysis platform for proteomic data exploration of microbial organisms. Bioinform. 23 (13) (2007)
Bobbie-Jo M. Webb-Robertson, William R. Cannon, Joshua N. Adkins, Deborah K. Gracio
Session Introduction. Pacific Symposium on Biocomputing (2006)
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
Analytics challenge - High-throughput visual analytics biological sciences: turning data into knowledge. SC (2006)
Joel C. Hunter, Joshua N. Adkins, Joel G. Pounds, John H. Miller
Facilitating interpretation of mass spectrometry based proteomics data. METMBS (2004)