SpectralNET - an application for spectral graph analysis and visualization. - Joshua J. Forman; Paul A. Clemons; Stuart L. Schreiber; Stephen J. Haggarty (BMC Bioinform., 2005)

ChemBank: a small-molecule screening and cheminformatics resource database. - Kathleen Petri Seiler; Gregory A. George; Mary Pat Happ; Nicole E. Bodycombe; Hyman A. Carrinski; Stephanie Norton; Steve Brudz; John P. Sullivan; Jeremy Muhlich; Martin Serrano; Paul Ferraiolo; Nicola J. Tolliday; et al. (Nucleic Acids Res., 2008)

Alpha Shapes Applied to Molecular Shape Characterization Exhibit Novel Properties Compared to Established Shape Descriptors. - J. Anthony Wilson; Andreas Bender 002; Taner Kaya; Paul A. Clemons (J. Chem. Inf. Model., 2009)

Enhancing the rate of scaffold discovery with diversity-oriented prioritization. - Sanjay Joshua Swamidass; Bradley T. Calhoun; Joshua A. Bittker; Nicole E. Bodycombe; Paul A. Clemons (Bioinform., 2011)

Utility-Aware Screening with Clique-Oriented Prioritization. - S. Joshua Swamidass; Bradley T. Calhoun; Joshua A. Bittker; Nicole E. Bodycombe; Paul A. Clemons (J. Chem. Inf. Model., 2012)

An informatic pipeline for managing high-throughput screening experiments and analyzing data from stereochemically diverse libraries. - Carol A. Mulrooney; David L. Lahr; Michael J. Quintin; Willmen Youngsaye; Dennis Moccia; Jacob K. Asiedu; Evan L. Mulligan; Lakshmi B. Akella; Lisa A. Marcaurelle; Philip Montgomery; Joshua A. Bittker; Paul A. Clemons; et al. (J. Comput. Aided Mol. Des., 2013)

Evolving BioAssay Ontology (BAO): modularization, integration and applications. - Saminda Abeyruwan; Uma D. Vempati; Hande Küçük-McGinty; Ubbo Visser; Amar Koleti; Ahsan Mir; Kunie Sakurai; Caty Chung; Joshua A. Bittker; Paul A. Clemons; Steve Brudz; Anosha Siripala; et al. (J. Biomed. Semant., 2014)

BioAssay Research Database (BARD): chemical biology and probe-development enabled by structured metadata and result types. - E. A. Howe; Andrea de Souza; David L. Lahr; S. Chatwin; Philip Montgomery; B. R. Alexander; Dac-Trung Nguyen; Yasel Cruz; D. A. Stonich; G. Walzer; J. T. Rose; Shaita C. Picard; et al. (Nucleic Acids Res., 2015)

Differential Pathway Dependency Discovery Associated with Drug Response across Cancer Cell Lines. - Gil Speyer; Divya Mahendra; Hai J. Tran; Jeff Kiefer; Stuart L. Schreiber; Paul A. Clemons; Harshil Dhruv; Michael E. Berens; Seungchan Kim (PSB, 2017)

CTD2 Dashboard: a searchable web interface to connect validated results from the Cancer Target Discovery and Development Network. - Bülent Arman Aksoy; Vlado Dancík; Kenneth Smith 001; Jessica N. Mazerik; Zhou Ji; Benjamin E. Gross; Olga Nikolova; Nadia Jaber; Andrea Califano; Stuart L. Schreiber; Daniela S. Gerhard; Leandro Hermida; et al. (Database J. Biol. Databases Curation, 2017)

RWEN: response-weighted elastic net for prediction of chemosensitivity of cancer cell lines. - Amrita Basu; Ritwik Mitra; Han Liu 001; Stuart L. Schreiber; Paul A. Clemons (Bioinform., 2018)

Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science. - Deepak R. Unni; Sierra A. T. Moxon; Michael Bada; Matthew H. Brush; Richard M. Bruskiewich; Paul A. Clemons; Vlado Dancík; Michel Dumontier; Karamarie Fecho; Gustavo Glusman; Jennifer J. Hadlock; Nomi L. Harris; et al. (CoRR, 2022)

Machine Learning on DNA-Encoded Library Count Data Using an Uncertainty-Aware Probabilistic Loss Function. - Katherine S. Lim; Andrew G. Reidenbach; Bruce K. Hua; Jeremy W. Mason; Christopher J. Gerry; Paul A. Clemons; Connor W. Coley (J. Chem. Inf. Model., 2022)