Jaron Thompson

Biochemistry, Genetics and Molecular BiologyEnvironmental ScienceMedicine

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 16 papers. Top paper: “Recurrent neural networks enable design of multifunctional synthetic human gut microbiome dynamics”.

Recurrent neural networks enable design of multifunctional synthetic human gut microbiome dynamics

eLife(2022)10.7554/elife.73870

N/A

0.646DataRank · unranked

73 citations

Ryan L. Clark, Jaron Thompson, Zeyu Sun, Alfred O. Hero, Ophelia S. Venturelli +1 more

Integrating a tailored recurrent neural network with Bayesian experimental design to optimize microbial community functions

PLoS Computational Biology(2023)10.1371/journal.pcbi.1011436

N/A

0.581DataRank · unranked

47 citations

Víctor M. Zavala, Ophelia S. Venturelli, Jaron Thompson

Carbohydrate complexity limits microbial growth and reduces the sensitivity of human gut communities to perturbations

Nature Ecology & Evolution(2023)10.1038/s41559-022-01930-9

N/A

0.564DataRank · unranked

42 citations

Jaron Thompson, Pak Lun Kevin Cheung, Yili Qian, Ophelia S. Venturelli, Erin Ostrem Loss

Model-guided design of the diversity of a synthetic human gut community

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.14.484355

N/A

0.360DataRank · unranked

10 citations

Sarah Ertmer, Ryan L. Clark, Jaron Thompson, Brian F. Pfleger, Ophelia S. Venturelli +1 more

Integrating a tailored recurrent neural network with Bayesian experimental design to optimize microbial community functions

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.12.516271

N/A

0.292DataRank · unranked

6 citations

Víctor M. Zavala, Ophelia S. Venturelli, Jaron Thompson

Decoding the role of the arginine dihydrolase pathway in shaping human gut community assembly and health-relevant metabolites

Cell Systems(2025)10.1016/j.cels.2025.101292

N/A

0.104DataRank · unranked

1 citations

Yu-Yu Cheng, Jaron Thompson, Zhichao Zhou, Eugenio I. Vivas, Matthew F. Warren +7 more

Phocaeicola vulgatus shapes the long-term growth dynamics and evolutionary adaptations of Clostridioides difficile

Cell Host & Microbe(2024)10.1016/j.chom.2024.12.001

N/A

0DataRank · unranked

20 citations

Jaron Thompson, Pak Lun Kevin Cheung, Yili Qian, Jericha Mill, Isabella James +5 more

Dynamic Multiplexed Control and Modeling of Optogenetic Systems Using the High-Throughput Optogenetic Platform, Lustro

ACS Synthetic Biology(2024)10.1021/acssynbio.3c00761

N/A

0DataRank · unranked

9 citations

Jaron Thompson, David Cole, Ophelia S. Venturelli, Víctor M. Zavala, Megan N. McClean +1 more

Human gut microbiota interactions shape the long-term growth dynamics and evolutionary adaptations of Clostridioides difficile

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.07.15.603560

N/A

0DataRank · unranked

1 citations

Jaron Thompson, Pak Lun Kevin Cheung, Yili Qian, Jericha Mill, Isabella James +4 more

A Parametric Bayesian Optimization Framework for Batch Dynamical Systems

(2024)10.23919/acc60939.2024.10644178

N/A

0DataRank · unranked

0 citations

Lloyd MacKinnon, Ophelia S. Venturelli, Víctor M. Zavala, Jaron Thompson

Physics-constrained neural ordinary differential equation models to discover and predict microbial community dynamics

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.08.663743

N/A

0DataRank · unranked

2 citations

Bryce Connors, Víctor M. Zavala, Ophelia S. Venturelli, Jaron Thompson

Probabilistic Ranking Of Microbiomes Plus Taxa Selection to discover and validate microbiome function models for multiple litter decomposition studies

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.17.209031

N/A

0DataRank · unranked

0 citations

Nicholas Lubbers, Marie Kroeger, Rae DeVan, Renee Johansen, John Dunbar +2 more

Control points for design of taxonomic composition in synthetic human gut communities

Cell Systems(2023)10.1016/j.cels.2023.11.007

N/A

0DataRank · unranked

16 citations

Jaron Thompson, Sarah Ertmer, Ryan L. Clark, Brian F. Pfleger, Ophelia S. Venturelli +1 more

Shaping human gut community assembly and butyrate production by controlling the arginine dihydrolase pathway

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.10.523442

N/A

0DataRank · unranked

2 citations

Yu‐Yu Cheng, Jaron Thompson, Zhichao Zhou, Eugenio I. Vivas, Matthew F. Warren +4 more

Dynamic Multiplexed Control and Modeling of Optogenetic Systems Using the High-Throughput Optogenetic Platform, Lustro

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.19.572411

N/A

0DataRank · unranked

0 citations

Jaron Thompson, David L. Cole, Víctor M. Zavala, Megan N. McClean, Zachary P. Harmer

Elucidating human gut microbiota interactions that robustly inhibit diverse Clostridioides difficile strains across different nutrient landscapes

Nature Communications(2024)10.1038/s41467-024-51062-w

N/A

0DataRank · unranked

30 citations

Jaron Thompson, Yili Qian, Eugenio I. Vivas, Christian Diener, Sean M. Gibbons +3 more