World's Best Scientists 2026 revealed!

D-Index & Metrics

Biology and Biochemistry

D-Index
60
Citations
15305
World Ranking
11820
National Ranking
5083

Research.com Recognitions

  • 2016 - Fellow of the Indian National Academy of Engineering (INAE)

Overview

Jason A. Papin is affiliated with the University of Virginia in the United States. Their research spans multiple fields with a focus on Biochemistry, Genetics and Molecular Biology, and Medicine. Within these fields, their work covers subfields such as Molecular Biology, Infectious Diseases, Biomedical Engineering, Surgery, and Pharmacology.

Their research topics encompass a range of areas including Microbial Metabolic Engineering and Bioproduction, Gut microbiota and health, Bioinformatics and Genomic Networks, Gene Regulatory Network Analysis, Clostridium difficile and Clostridium perfringens research, Metabolomics and Mass Spectrometry Studies, and Biofuel production and bioconversion.

Jason A. Papin has published extensively in several venues, with notable frequent publications in:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • PLoS Computational Biology
  • Gastroenterology
  • Cell Systems
  • mSystems

Some of the recent publications authored or co-authored by Jason A. Papin include:

  • MEMOTE for standardized genome-scale metabolic model testing, 2020, Nature Biotechnology
  • Enterococci enhance Clostridioides difficile pathogenesis, 2022, Nature
  • Histone Deacetylase Inhibition by Gut Microbe-Generated Short-Chain Fatty Acids Entrains Intestinal Epithelial Circadian Rhythms, 2022, Gastroenterology
  • Transcriptome-guided parsimonious flux analysis improves predictions with metabolic networks in complex environments, 2020, PLoS Computational Biology
  • Core Competencies for Undergraduates in Bioengineering and Biomedical Engineering: Findings, Consequences, and Recommendations, 2020, Annals of Biomedical Engineering

Frequent co-authors collaborating with Jason A. Papin include:

  • Glynis L. Kolling
  • Matthew L. Jenior
  • Lillian Dillard
  • Gregory L. Medlock
  • Emma M. Glass

Jason A. Papin was recognized as a Fellow of the Indian National Academy of Engineering (INAE) in 2016.

Best Publications

  • A community-driven global reconstruction of human metabolism

    Ines Thiele;Neil Swainston;Ronan M T Fleming;Andreas Hoppe

  • Applications of genome-scale metabolic reconstructions

    Matthew A Oberhardt;Bernhard Ø Palsson;Jason A Papin

  • Reconstruction of cellular signalling networks and analysis of their properties.

    Jason A. Papin;Jason A. Papin;Tony Hunter;Bernhard O. Palsson;Shankar Subramaniam

  • Genome-scale microbial in silico models: the constraints-based approach

    Nathan D Price;Jason A Papin;Christophe H Schilling;Bernhard O Palsson

  • MEMOTE for standardized genome-scale metabolic model testing

    Christian Lieven;Moritz Emanuel Beber;Brett G. Olivier;Frank T. Bergmann

  • Comparison of network-based pathway analysis methods

    Jason A. Papin;Joerg Stelling;Nathan D. Price;Steffen Klamt

  • Metabolic pathways in the post-genome era.

    Jason A. Papin;Nathan D. Price;Sharon J. Wiback;David A. Fell

  • Flux balance analysis in the era of metabolomics

    Jong Min Lee;Erwin P. Gianchandani;Jason A. Papin

  • Metabolic network reconstruction of Chlamydomonas offers insight into light‐driven algal metabolism

    Roger L Chang;Lila Ghamsari;Ani Manichaikul;Erik F Y Hom

  • Integration of expression data in genome-scale metabolic network reconstructions

    Anna S. Blazier;Jason A. Papin

  • Genome-Scale Metabolic Network Analysis of the Opportunistic Pathogen Pseudomonas aeruginosa PAO1

    Matthew A. Oberhardt;Jacek Puchałka;Kimberly E. Fryer;Vítor A. P. Martins dos Santos

  • Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology.

    Jacek Puchałka;Matthew A. Oberhardt;Miguel Godinho;Agata Bielecka

  • Dynamic analysis of integrated signaling, metabolic, and regulatory networks.

    Jong Min Lee;Erwin P. Gianchandani;James A. Eddy;Jason A. Papin

  • Functional integration of a metabolic network model and expression data without arbitrary thresholding

    Paul A. Jensen;Jason A. Papin

  • Hierarchical thinking in network biology: the unbiased modularization of biochemical networks

    Jason A. Papin;Jennifer L. Reed;Bernhard O. Palsson

  • Multiscale Computational Models of Complex Biological Systems

    Joseph Walpole;Jason A. Papin;Shayn M. Peirce

  • Extreme Pathway Lengths and Reaction Participation in Genome-Scale Metabolic Networks

    Jason A. Papin;Nathan D. Price;Bernhard Ø. Palsson

  • Systems analysis of metabolism in the pathogenic trypanosomatid Leishmania major.

    Arvind K Chavali;Jeffrey D Whittemore;James A Eddy;Kyle T Williams

  • The application of flux balance analysis in systems biology

    Erwin P. Gianchandani;Arvind K. Chavali;Jason A. Papin

  • Determination of Redundancy and Systems Properties of the Metabolic Network of Helicobacter pylori Using Genome-Scale Extreme Pathway Analysis

    Nathan D. Price;Jason A. Papin;Bernhard Os Palsson

Frequent Co-Authors

Bernhard O. Palsson
Bernhard O. Palsson University of California, San Diego
Nathan D. Price
Nathan D. Price University of Illinois at Urbana-Champaign
Jens Nielsen
Jens Nielsen Chalmers University of Technology
Sang Yup Lee
Sang Yup Lee Korea Advanced Institute of Science and Technology
Intawat Nookaew
Intawat Nookaew University of Arkansas for Medical Sciences
Adam M. Feist
Adam M. Feist University of California, San Diego
Lars K. Nielsen
Lars K. Nielsen University of Queensland
Dong-Yup Lee
Dong-Yup Lee Sungkyunkwan University
J. Thomas Parsons
J. Thomas Parsons University of Virginia
Nathan E. Lewis
Nathan E. Lewis University of California, San Diego

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