Jason Papin

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University of Virginia

United States

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About

Dr. Jason Papin is a Professor at the University of Virginia in the United States. His research focuses on metabolic network reconstruction, antimicrobial target identification, and the interactions of microbial communities. His recent publications highlight the application of metabolic modeling in understanding various biological and pathological processes, including bacterial vaginosis and Clostridioides difficile interactions.

Recent Grants

Grant: Close

Mapping and predicting metabolic fluxes between the ileal microbiome and host

Open Date: 2014-01-15

Close Date: 2017-12-31

Grant: Close

Network Analysis of Pathogenicity in Pseudomonas aeruginosa

Open Date: 2010-08-20

Close Date: 2015-06-30

Grant: Close

A Novel Systems Bioengineering Course for Engineering Curricula: Integrating Computational Systems Modeling with High-Throughput Experimentation

Open Date: 2008-01-15

Close Date: 2010-12-31

Grant: Close

CAREER: Interrogating the pathogen-host relationship with genome-scale network analysis

Open Date: 2007-05-15

Close Date: 2012-04-30

Articles (18)

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2022

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University of Virginia

UNITED STATES

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Jason Papin

Research Interests

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About

Recent Grants

Articles (18)

Ten simple rules for developing a training program

Genome-scale metabolic network reconstruction analysis identifies bacterial vaginosis-associated metabolic interactions

Applying a polysaccharide lyase from Stenotrophomonas maltophilia to disrupt alginate exopolysaccharide produced by Pseudomonas aeruginosa clinical isolates

Clostridioides difficile -mucus interactions encompass shifts in gene expression, metabolism, and biofilm formation

Model-driven characterization of functional diversity of Pseudomonas aeruginosa clinical isolates with broadly representative phenotypes

Identifying metabolic adaptations characteristic of cardiotoxicity using paired transcriptomics and metabolomics data integrated with a computational model of heart metabolism

Niche-specific metabolic phenotypes can be used to identify antimicrobial targets in pathogens

Celebrating a body of work

Metabolic modeling of sex-specific liver tissue suggests mechanism of differences in toxicological responses

The blossoming of methods and software in computational biology

Reconstructor: a COBRApy compatible tool for automated genome-scale metabolic network reconstruction with parsimonious flux-based gap-filling

Network analysis of toxin production in Clostridioides difficile identifies key metabolic dependencies

Metabolic Network Models of the Gardnerella Pangenome Identify Key Interactions with the Vaginal Environment

Comparative analyses of parasites with a comprehensive database of genome-scale metabolic models

Ten simple rules for launching an academic research career

Genome-scale metabolic modeling reveals increased reliance on valine catabolism in clinical isolates of Klebsiella pneumoniae

Advancing code sharing in the computational biology community

Quantifying cumulative phenotypic and genomic evidence for procedural generation of metabolic network reconstructions

Collaborators (5)

Maureen Carey

Andrew Warren

Jennifer Guler

Jessica Keim-Malpass

Glynis Kolling

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