Jason Papin

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Glynis KollingAssistant Professor, University of VirginiaVerified email at virginia.edu
Erwin GianchandaniNational Science FoundationVerified email at nsf.gov
Nathan D. PriceProfessor, Buck Institute for Research on AgingVerified email at buckinstitute.org
Gregory L MedlockSr Director, Vedanta BiosciencesVerified email at vedantabio.com
Matthew OberhardtProgram Director for Research Science, NewYork-Presbyterian HospitalVerified email at nyp.org
Arvind K. ChavaliUniversity of VirginiaVerified email at virginia.edu
Bonnie DoughertyPrincipal Computational BiologistVerified email at pathos.com
Shayn M PeirceUniversity of VirginiaVerified email at virginia.edu
Thomas J Moutinho Jr.University of VirginiaVerified email at virginia.edu
Matthew BiggsSestina BioVerified email at sestinabio.com
Matthew JeniorGinkgo BioworksVerified email at virginia.edu
Anders WallqvistUnited States Army Medical Research and Development CommandVerified email at bhsai.org
Maureen A CareySenior Computational Biologist, Tempus LabsVerified email at virginia.edu
Kristopher D. RawlsVerified email at virginia.edu
Edik BlaisVice President Research at PertheraVerified email at perthera.com
Kourosh Salehi-AshtianiNew York University Abu DhabiVerified email at nyu.edu
Anna S. BlazierGraduate Student, University of VirginiaVerified 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 cancer


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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	1205	2013
Applications of genome‐scale metabolic reconstructions MA Oberhardt, BØ Palsson, JA Papin Molecular systems biology 5 (1), 320, 2009	990	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	698	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	535	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	499	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	455	2003
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	434*	2020
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	374	2011
Flux balance analysis in the era of metabolomics JM Lee, EP Gianchandani, JA Papin Briefings in bioinformatics 7 (2), 140-150, 2006	370	2006
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	319	2008
Integration of expression data in genome-scale metabolic network reconstructions AS Blazier, JA Papin Frontiers in physiology 3, 299, 2012	308	2012
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	303	2008
Functional integration of a metabolic network model and expression data without arbitrary thresholding PA Jensen, JA Papin Bioinformatics 27 (4), 541-547, 2011	286	2011
Multiscale computational models of complex biological systems J Walpole, JA Papin, SM Peirce Annual review of biomedical engineering 15 (1), 137-154, 2013	265	2013
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	257	2004
Extreme pathway lengths and reaction participation in genome-scale metabolic networks JA Papin, ND Price, BØ Palsson Genome research 12 (12), 1889-1900, 2002	199	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	196	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	193	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	176	2002

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