Application of the Actor-Critic Architecture to Functional Electrical Stimulation Control of a Human Arm. - Philip S. Thomas; Antonie J. van den Bogert; Kathleen M. Jagodnik; Michael S. Branicky (IAAI, 2009)

GEN3VA: aggregation and analysis of gene expression signatures from related studies. - Gregory W. Gundersen; Kathleen M. Jagodnik; Holly Woodland; Nicolas F. Fernandez; Kevin Sani; Anders B. Dohlman; Peter Man-Un Ung; Caroline D. Monteiro; Avner Schlessinger; Avi Ma'ayan (BMC Bioinform., 2016)

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. - Maxim V. Kuleshov; Matthew R. Jones; Andrew D. Rouillard; Nicolas F. Fernandez; Qiaonan Duan; Zichen Wang 002; Simon Koplev; Sherry L. Jenkins; Kathleen M. Jagodnik; Alexander Lachmann; Michael G. McDermott; Caroline D. Monteiro; et al. (Nucleic Acids Res., 2016)

Human-Like Rewards to Train a Reinforcement Learning Controller for Planar Arm Movement. - Kathleen M. Jagodnik; Philip S. Thomas; Antonie J. van den Bogert; Michael S. Branicky; Robert F. Kirsch (IEEE Trans. Hum. Mach. Syst., 2016)

smartAPI: Towards a More Intelligent Network of Web APIs. - Amrapali Zaveri; Shima Dastgheib; Chunlei Wu; Trish Whetzel; Ruben Verborgh; Paul Avillach; Gabor Korodi; Raymond Terryn; Kathleen M. Jagodnik; Pedro Assis; Michel Dumontier (ESWC (2), 2017)

The SmartAPI Ecosystem for Making Web APIs FAIR. - Shima Dastgheib; Trish Whetzel; Amrapali Zaveri; Cyrus Afrasiabi; Pedro Assis; Paul Avillach; Kathleen M. Jagodnik; Gabor Korodi; Marcin Pilarczyk; Jeff de Pons; Stephan C. Schürer; Raymond Terryn; et al. (ISWC (Posters, Demos & Industry Tracks), 2017)

Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop. - Kathleen M. Jagodnik; Simon Koplev; Sherry L. Jenkins; Lucila Ohno-Machado; Benedict Paten; Stephan C. Schürer; Michel Dumontier; Ruben Verborgh; Alex A. T. Bui; Peipei Ping; Neil J. McKenna; Ravi K. Madduri; et al. (J. Biomed. Informatics, 2017)

Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data. - Amar Koleti; Raymond Terryn; Vasileios Stathias; Caty Chung; Daniel J. Cooper; John Paul Turner; Dusica Vidovic; Michele Forlin; Tanya T. Kelley; Alessandro D'Urso; Bryce K. Allen; Denis Torre; et al. (Nucleic Acids Res., 2018)

Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures. - Zichen Wang 002; Edward He 002; Kevin Sani; Kathleen M. Jagodnik; Moshe C. Silverstein; Avi Ma'ayan (Bioinform., 2019)

ChEA3: transcription factor enrichment analysis by orthogonal omics integration. - Alexandra B. Keenan; Denis Torre; Alexander Lachmann; Ariel K. Leong; Megan L. Wojciechowicz; Vivian Utti; Kathleen M. Jagodnik; Eryk Kropiwnicki; Zichen Wang 002; Avi Ma'ayan (Nucleic Acids Res., 2019)

EnrichrBot: Twitter bot tracking tweets about human genes. - Alon Bartal; Alexander Lachmann; Daniel J. B. Clarke; Allison H. Seiden; Kathleen M. Jagodnik; Avi Ma'ayan (Bioinform., 2020)

The COVID-19 Drug and Gene Set Library. - Maxim V. Kuleshov; Daniel J. Stein; Daniel J. B. Clarke; Eryk Kropiwnicki; Kathleen M. Jagodnik; Alon Bartal; John Erol Evangelista; Jason Hom; Minxuan Cheng; Allison Bailey; Abigail Zhou; Laura B. Ferguson; et al. (Patterns, 2020)

Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning. - Eryk Kropiwnicki; John Erol Evangelista; Daniel J. Stein; Daniel J. B. Clarke; Alexander Lachmann; Maxim V. Kuleshov; Minji Jeon; Kathleen M. Jagodnik; Avi Ma'ayan (Database J. Biol. Databases Curation, 2021)

Role-Aware Information Spread in Online Social Networks. - Alon Bartal; Kathleen M. Jagodnik (Entropy, 2021)

Appyters: Turning Jupyter Notebooks into data-driven web apps. - Daniel J. B. Clarke; Minji Jeon; Daniel J. Stein; Nicole Moiseyev; Eryk Kropiwnicki; Charles Dai; Zhuorui Xie; Megan L. Wojciechowicz; Skylar Litz; Jason Hom; John Erol Evangelista; Lucas Goldman; et al. (Patterns, 2021)

DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules. - Eryk Kropiwnicki; Alexander Lachmann; Daniel J. B. Clarke; Zhuorui Xie; Kathleen M. Jagodnik; Avi Ma'ayan (BMC Bioinform., 2022)

Progress in and Opportunities for Applying Information Theory to Computational Biology and Bioinformatics. - Alon Bartal; Kathleen M. Jagodnik (Entropy, 2022)

SigCom LINCS: data and metadata search engine for a million gene expression signatures. - John Erol Evangelista; Daniel J. B. Clarke; Zhuorui Xie; Alexander Lachmann; Minji Jeon; Kerwin Chen; Kathleen M. Jagodnik; Sherry L. Jenkins; Maxim V. Kuleshov; Megan L. Wojciechowicz; Stephan C. Schürer; Mario Medvedovic; et al. (Nucleic Acids Res., 2022)

Utilizing AI and Social Media Analytics to Discover Adverse Side Effects of GLP-1 Receptor Agonists. - Alon Bartal; Kathleen M. Jagodnik; Nava Pliskin; Abraham Seidmann (CoRR, 2024)