Jason Papin

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Bernhard PalssonUCSDVerified email at eng.ucsd.edu
Glynis KollingAssistant Professor, University of VirginiaVerified email at virginia.edu
Erwin GianchandaniNational Science FoundationVerified email at nsf.gov
Nathan D. PriceCSO, Thorne HealthTech; Professor, Institute for Systems BiologyVerified email at systemsbiology.org
Matthew OberhardtProgram Director for Research Science, NewYork-Presbyterian HospitalVerified email at nyp.org
Gregory L MedlockDirector, Vedanta BiosciencesVerified email at vedantabio.com
Arvind K. ChavaliUniversity of VirginiaVerified email at virginia.edu
Matthew BiggsSestina BioVerified email at sestinabio.com
Shayn M PeirceUniversity of VirginiaVerified email at virginia.edu
Bonnie DoughertyVerified email at virginia.edu
Thomas J Moutinho Jr.University of VirginiaVerified email at virginia.edu
Edik BlaisGraduate Student of Biomedical Engineering, University of VirginiaVerified email at virginia.edu
Maureen A CareySenior Computational Biologist, Tempus LabsVerified email at virginia.edu
Kourosh Salehi-AshtianiNew York University Abu DhabiVerified email at nyu.edu
Anna S. BlazierGraduate Student, University of VirginiaVerified email at virginia.edu
Anders WallqvistUnited States Army Medical Research and Development CommandVerified email at bhsai.org
Kristopher D. RawlsVerified email at virginia.edu
Jonathan SwannUniversity of Southampton, Imperial College London, Karolinska InstituteVerified email at soton.ac.uk
Phillip YenUniversity of VirginiaVerified email at virginia.edu
Lila GhamsariSapience TherapeuticsVerified email at sapiencetherapeutics.com

Jason Papin

Harrison Distinguished Teaching Professor of Biomedical Engineering, University of Virginia

Verified email at virginia.edu - Homepage

bioengineering systems biology network biology infectious disease toxicology


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A community-driven global reconstruction of human metabolism I Thiele, N Swainston, RMT Fleming, A Hoppe, S Sahoo, MK Aurich, ... Nature biotechnology 31 (5), 419-425, 2013	1099	2013
Applications of genome‐scale metabolic reconstructions MA Oberhardt, BØ Palsson, JA Papin Molecular systems biology 5 (1), 320, 2009	932	2009
Reconstruction of cellular signalling networks and analysis of their properties JA Papin, T Hunter, BO Palsson, S Subramaniam Nature reviews Molecular cell biology 6 (2), 99-111, 2005	655	2005
Genome-scale microbial in silico models: the constraints-based approach ND Price, JA Papin, CH Schilling, BO Palsson Trends in biotechnology 21 (4), 162-169, 2003	514	2003
Comparison of network-based pathway analysis methods JA Papin, J Stelling, ND Price, S Klamt, S Schuster, BO Palsson Trends in biotechnology 22 (8), 400-405, 2004	483	2004
Metabolic pathways in the post-genome era JA Papin, ND Price, SJ Wiback, DA Fell, BO Palsson Trends in biochemical sciences 28 (5), 250-258, 2003	442	2003
Flux balance analysis in the era of metabolomics JM Lee, EP Gianchandani, JA Papin Briefings in bioinformatics 7 (2), 140-150, 2006	347	2006
Metabolic network reconstruction of Chlamydomonas offers insight into light‐driven algal metabolism RL Chang, L Ghamsari, A Manichaikul, EFY Hom, S Balaji, W Fu, Y Shen, ... Molecular systems biology 7 (1), 518, 2011	338	2011
Genome-Scale Metabolic Network Analysis of the Opportunistic Pathogen Pseudomonas aeruginosa PAO1 MA Oberhardt, J Puchałka, KE Fryer, VAP Martins dos Santos, JA Papin Journal of bacteriology 190 (8), 2790-2803, 2008	306	2008
Genome-Scale Reconstruction and Analysis of the Pseudomonas putida KT2440 Metabolic Network Facilitates Applications in Biotechnology J Puchałka, MA Oberhardt, M Godinho, A Bielecka, D Regenhardt, ... PLoS computational biology 4 (10), e1000210, 2008	303	2008
Dynamic analysis of integrated signaling, metabolic, and regulatory networks J Min Lee, EP Gianchandani, JA Eddy, JA Papin PLoS computational biology 4 (5), e1000086, 2008	281	2008
Integration of expression data in genome-scale metabolic network reconstructions AS Blazier, JA Papin Frontiers in physiology 3, 299, 2012	276	2012
MEMOTE for standardized genome-scale metabolic model testing C Lieven, ME Beber, BG Olivier, FT Bergmann, M Ataman, P Babaei, ... Nature biotechnology 38 (3), 272-276, 2020	269*	2020
Functional integration of a metabolic network model and expression data without arbitrary thresholding PA Jensen, JA Papin Bioinformatics 27 (4), 541-547, 2011	255	2011
Hierarchical thinking in network biology: the unbiased modularization of biochemical networks JA Papin, JL Reed, BO Palsson Trends in biochemical sciences 29 (12), 641-647, 2004	250	2004
Multiscale computational models of complex biological systems J Walpole, JA Papin, SM Peirce Annual review of biomedical engineering 15, 137-154, 2013	211	2013
Extreme pathway lengths and reaction participation in genome-scale metabolic networks JA Papin, ND Price, BØ Palsson Genome research 12 (12), 1889-1900, 2002	195	2002
Systems analysis of metabolism in the pathogenic trypanosomatid Leishmania major AK Chavali, JD Whittemore, JA Eddy, KT Williams, JA Papin Molecular systems biology 4 (1), 177, 2008	190	2008
The application of flux balance analysis in systems biology EP Gianchandani, AK Chavali, JA Papin Wiley Interdisciplinary Reviews: Systems Biology and Medicine 2 (3), 372-382, 2010	181	2010
Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis ND Price, JA Papin, BØ Palsson Genome research 12 (5), 760-769, 2002	171	2002

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