S. Joshua Swamidass

Computer SciencePharmacology, Toxicology and PharmaceuticsBiochemistry, Genetics and Molecular BiologyMaterials Science

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 26 papers. Top paper: “Opportunities and obstacles for deep learning in biology and medicine”.

Opportunities and obstacles for deep learning in biology and medicine

bioRxiv (Cold Spring Harbor Laboratory)(2017)10.1101/142760

N/A

11.2DataRank · unranked

310 citations

Daniel S. Himmelstein, Brett K. Beaulieu‐Jones, Alexandr A. Kalinin, Brian T. Do, Gregory P. Way +31 more

Opportunities and obstacles for deep learning in biology and medicine

Journal of The Royal Society Interface(2018)10.1098/rsif.2017.0387

N/A

1.2DataRank · unranked

2203 citations

Daniel S. Himmelstein, Brett K. Beaulieu‐Jones, Alexandr A. Kalinin, Brian T. Do, Gregory P. Way +31 more

A survey of current trends in computational drug repositioning

Briefings in Bioinformatics(2015)10.1093/bib/bbv020

N/A

0.953DataRank · unranked

573 citations

Si Zheng, BIN CHEN, Atul Janardhan Butte, S. Joshua Swamidass, ZHIYONG LU +1 more

COMPUTATIONAL APPROACHES TO DRUG REPURPOSING AND PHARMACOLOG- SESSION INTRODUCTION

Biocomputing 2014(2013)10.1142/9789814583220_0011

N/A

0.104DataRank · unranked

1 citations

ZHIYONG LU, PANKAJ AGARWAL, Atul Janardhan Butte, S. Joshua Swamidass

Dual mechanisms suppress meloxicam bioactivation relative to sudoxicam

Toxicology(2020)10.1016/j.tox.2020.152478

N/A

0DataRank · unranked

19 citations

Mary A. Schleiff, Laura Osborn, Noah R. Flynn, Matthew K. Matlock, S. Joshua Swamidass +2 more

Significance of Multiple Bioactivation Pathways for Meclofenamate as Revealed through Modeling and Reaction Kinetics

Drug Metabolism and Disposition(2020)10.1124/dmd.120.000254

N/A

0DataRank · unranked

12 citations

Noah R. Flynn, Sasin Payakachat, Benjamin Mark Schleiff, Anna O. Pinson, Dennis W. Province +4 more

‘Black Box’ to ‘Conversational’ Machine Learning: Ondansetron Reduces Risk of Hospital-Acquired Venous Thromboembolism

IEEE Journal of Biomedical and Health Informatics(2020)10.1109/jbhi.2020.3033405

N/A

0DataRank · unranked

31 citations

Matthew K. Matlock, Na Le Dang, Thiago A. Moulin, Keith F. Woeltje, Elizabeth L. Yanik +2 more

Meloxicam methyl group determines enzyme specificity for thiazole bioactivation compared to sudoxicam

Toxicology Letters(2020)10.1016/j.toxlet.2020.11.015

N/A

0DataRank · unranked

24 citations

Mary A. Schleiff, Arghya Datta, Noah R. Flynn, S. Joshua Swamidass, Grover P. Miller +1 more

Site-Level Bioactivity of Small-Molecules from Deep-Learned Representations of Quantum Chemistry

The Journal of Physical Chemistry A(2020)10.1021/acs.jpca.0c06231

N/A

0DataRank · unranked

6 citations

Matthew K. Matlock, S. Joshua Swamidass, Kathryn Sarullo

DiffNets: deep learning the structural determinants of proteins biochemical properties by comparing different structural ensembles

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.01.182725

N/A

0DataRank · unranked

3 citations

Maxwell I. Zimmerman, Artur Meller, Moses K. J. Chung, S. Joshua Swamidass, Gregory R. Bowman +1 more

Deep learning the structural determinants of protein biochemical properties by comparing structural ensembles with DiffNets

Nature Communications(2021)10.1038/s41467-021-23246-1

N/A

0DataRank · unranked

80 citations

Maxwell I. Zimmerman, Artur Meller, Moses K. J. Chung, S. Joshua Swamidass, Gregory R. Bowman +1 more

Modeling the Bioactivation and Subsequent Reactivity of Drugs

Chemical Research in Toxicology(2021)10.1021/acs.chemrestox.0c00417

N/A

0DataRank · unranked

23 citations

Noah R. Flynn, Na Le Dang, S. Joshua Swamidass, Tyler B. Hughes

Impacts of diphenylamine NSAID halogenation on bioactivation risks

Toxicology(2021)10.1016/j.tox.2021.152832

N/A

0DataRank · unranked

8 citations

Sasin Payakachat, Benjamin Mark Schleiff, S. Joshua Swamidass, Gunnar Boysen, Grover P. Miller +1 more

Deep Learning Coordinate-Free Quantum Chemistry

The Journal of Physical Chemistry A(2021)10.1021/acs.jpca.1c04462

N/A

0DataRank · unranked

7 citations

Max Hoffman, Na Le Dang, Dakota Folmsbee, Luke Langkamp, Geoffrey Hutchison +4 more

Discovery of Novel Reductive Elimination Pathway for 10-Hydroxywarfarin

Frontiers in Pharmacology(2022)10.3389/fphar.2021.805133

N/A

0DataRank · unranked

1 citations

Dustyn A. Barnette, Riley W. Sinnott, Sarah Phillips, Noah R. Flynn, Howard P. Hendrickson +3 more

The asthma gut microbiota influences lung inflammation in gnotobiotic mice

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.09.502549

N/A

0DataRank · unranked

2 citations

Ariel Hernandez-Leyva, Anne Rosén, Natália Jaeger, Ryan McDonough, Jesús Santiago-Borges +7 more

The gut microbiota of people with asthma influences lung inflammation in gnotobiotic mice

iScience(2023)10.1016/j.isci.2023.105991

N/A

0DataRank · unranked

30 citations

Ariel Hernandez-Leyva, Anne Rosén, Natália Jaeger, Ryan McDonough, Jesús Santiago-Borges +7 more

Message Passing Neural Networks Improve Prediction of Metabolite Authenticity

Journal of Chemical Information and Modeling(2023)10.1021/acs.jcim.2c01383

N/A

0DataRank · unranked

9 citations

S. Joshua Swamidass, Noah R. Flynn

Development of a deep learning algorithm for Paneth cell density quantification for inflammatory bowel disease

EBioMedicine(2024)10.1016/j.ebiom.2024.105440

N/A

0DataRank · unranked

7 citations

Kathryn Sarullo, Jon N. Marsh, Liang Lu, Pooja Khonde, Changqing Ma +8 more

Role of Artificial Intelligence in Kidney Pathology: Promises and Pitfalls

Kidney360(2024)10.34067/kid.0000000000000482

N/A

0DataRank · unranked

3 citations

Kathryn Sarullo, S. Joshua Swamidass, Joseph P. Gaut, Sanjay Jain, Kyle N. Goodman

Understanding and mitigating the impact of race with adversarial autoencoders

Communications Medicine(2024)10.1038/s43856-024-00627-3

N/A

0DataRank · unranked

1 citations

S. Joshua Swamidass, Kathryn Sarullo

Domain Knowledge Inclusive Monotonic Neural Network Guides Patient-Specific Induction of General Anesthesia Dosing

A&A Practice(2025)10.1213/xaa.0000000000002034

N/A

0DataRank · unranked

0 citations

Muntaha Samad, Samir Kendale, Pierre Baldi, S. Joshua Swamidass, Kathryn Sarullo

Superior transplant recipient outcome prediction and pathology assessment using rapid deep learning applied to procurement kidney biopsies

Scientific Reports(2025)10.1038/s41598-025-31667-x

N/A

0DataRank · unranked

0 citations

Jon N. Marsh, Ling Chen, Fan Zhang, Xiaobing Yu, Parker C. Wilson +3 more

The Metabolic Rainbow: Deep Learning Phase I Metabolism in Five Colors

Journal of Chemical Information and Modeling(2020)10.1021/acs.jcim.9b00836

N/A

0DataRank · unranked

67 citations

Matthew K. Matlock, Tyler B. Hughes, S. Joshua Swamidass, Na Le Dang

Metabolic Forest: Predicting the Diverse Structures of Drug Metabolites

Journal of Chemical Information and Modeling(2020)10.1021/acs.jcim.0c00360

N/A

0DataRank · unranked

18 citations

Na Le Dang, Ayush Kumar, Noah R. Flynn, S. Joshua Swamidass, Tyler B. Hughes

XenoNet: Inference and Likelihood of Intermediate Metabolite Formation

Journal of Chemical Information and Modeling(2020)10.1021/acs.jcim.0c00361

N/A

0DataRank · unranked

20 citations

Na Le Dang, Michael D. Ward, S. Joshua Swamidass, Noah R. Flynn