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2020 – today
- 2022
[j11]Katherine S. Lim
, Andrew G. Reidenbach, Bruce K. Hua, Jeremy W. Mason, Christopher J. Gerry, Paul A. Clemons, Connor W. Coley:
Machine Learning on DNA-Encoded Library Count Data Using an Uncertainty-Aware Probabilistic Loss Function. J. Chem. Inf. Model. 62(10): 2316-2331 (2022)- [i2]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, Arpita Joshi, Tim E. Putman, Guangrong Qin, Stephen A. Ramsey, Kent A. Shefchek, Harold Solbrig, Karthik Soman, Anne E. Thessen, Melissa A. Haendel, Chris Bizon, Christopher J. Mungall:
Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science. CoRR abs/2203.13906 (2022) - 2021
- [i1]Katherine S. Lim, Andrew G. Reidenbach, Bruce K. Hua, Jeremy W. Mason, Christopher J. Gerry, Paul A. Clemons, Connor W. Coley:
Machine learning on DNA-encoded library count data using an uncertainty-aware probabilistic loss function. CoRR abs/2108.12471 (2021)
2010 – 2019
- 2018
- [j10]Amrita Basu, Ritwik Mitra, Han Liu, Stuart L. Schreiber, Paul A. Clemons:
RWEN: response-weighted elastic net for prediction of chemosensitivity of cancer cell lines. Bioinform. 34(19): 3332-3339 (2018) - 2017
- [j9]Bülent Arman Aksoy, Vlado Dancík, Kenneth Smith, Jessica N. Mazerik, Zhou Ji, Benjamin E. Gross, Olga Nikolova, Nadia Jaber, Andrea Califano, Stuart L. Schreiber, Daniela S. Gerhard, Leandro Hermida, Subhashini Jagu, Chris Sander, Aris Floratos, Paul A. Clemons:
CTD2 Dashboard: a searchable web interface to connect validated results from the Cancer Target Discovery and Development Network. Database J. Biol. Databases Curation 2017: bax054 (2017) - [c1]Gil Speyer, Divya Mahendra, Hai J. Tran, Jeff Kiefer, Stuart L. Schreiber, Paul A. Clemons, Harshil Dhruv, Michael E. Berens, Seungchan Kim:
Differential Pathway Dependency Discovery Associated with Drug Response across Cancer Cell Lines. PSB 2017: 497-508 - 2015
- [j8]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, Zihan Liu, Jamie N. Rose, X. Xiang, Jacob K. Asiedu, D. Durkin, J. Levine, J. J. Yang, Stephan C. Schürer, John C. Braisted, Noel Southall, Mark R. Southern, T. D. Y. Chung, Steve Brudz, C. Tanega, Stuart L. Schreiber, Joshua A. Bittker, Rajarshi Guha, Paul A. Clemons:
BioAssay Research Database (BARD): chemical biology and probe-development enabled by structured metadata and result types. Nucleic Acids Res. 43(Database-Issue): 1163-1170 (2015) - 2014
- [j7]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, Arturo J. Morales, Martin Romacker, David Twomey, Svetlana Bureeva, Vance P. Lemmon, Stephan C. Schürer:
Evolving BioAssay Ontology (BAO): modularization, integration and applications. J. Biomed. Semant. 5(S-1): S5 (2014) - 2013
- [j6]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, Steve Brudz, Sivaraman Dandapani, Jeremy R. Duvall, Nicola J. Tolliday, Andrea de Souza:
An informatic pipeline for managing high-throughput screening experiments and analyzing data from stereochemically diverse libraries. J. Comput. Aided Mol. Des. 27(5): 455-468 (2013) - 2012
- [j5]S. Joshua Swamidass, Bradley T. Calhoun, Joshua A. Bittker, Nicole E. Bodycombe, Paul A. Clemons:
Utility-Aware Screening with Clique-Oriented Prioritization. J. Chem. Inf. Model. 52(1): 29-37 (2012) - 2011
- [j4]Sanjay Joshua Swamidass, Bradley T. Calhoun, Joshua A. Bittker, Nicole E. Bodycombe, Paul A. Clemons:
Enhancing the rate of scaffold discovery with diversity-oriented prioritization. Bioinform. 27(16): 2271-2278 (2011)
2000 – 2009
- 2009
- [j3]J. Anthony Wilson, Andreas Bender, Taner Kaya, Paul A. Clemons:
Alpha Shapes Applied to Molecular Shape Characterization Exhibit Novel Properties Compared to Established Shape Descriptors. J. Chem. Inf. Model. 49(10): 2231-2241 (2009) - 2008
- [j2]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, Stuart L. Schreiber, Paul A. Clemons:
ChemBank: a small-molecule screening and cheminformatics resource database. Nucleic Acids Res. 36(Database-Issue): 351-359 (2008) - 2005
- [j1]Joshua J. Forman, Paul A. Clemons, Stuart L. Schreiber, Stephen J. Haggarty:
SpectralNET - an application for spectral graph analysis and visualization. BMC Bioinform. 6: 260 (2005)
Coauthor Index
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