Tim Putman, PhD
Assistant Research Professor, Biomedical Informatics

Publications

• Submitted: KG-Hub - Building and Exchanging Biological Knowledge Graphs J Harry Caufield1, Tim Putman2, Kevin Schaper2, Deepak R Unni3, Harshad Hegde1, Tiffany J Callahan4, Luca Cappelletti5, Sierra AT Moxon1, Vida Ravanmehr6, Seth Carbon1, Lauren E Chan7, Katherina Cortes2, Kent A Shefchek8, Glass Elsarboukh2, James P Balhoff9, Tommaso Fontana10, Nicolas Matentzoglu11, Richard M Bruskiewich12, Anne E Thessen13, Nomi L Harris1, Monica C Munoz-Torres2, Melissa A Haendel2, Peter N Robinson14, Marcin P Joachimiak1, Christopher J Mungall1, Justin T Reese1* 1Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA, 2Anschutz Medical Campus, University of Colorado, Aurora, CO 80045, USA, 3Swiss Institute of Bioinformatics, Basel, Switzerland, 4Department of Biomedical Informatics, Columbia University Irving Medical Center, New York, NY 10032, USA, 5Department of Computer Science, University of Milano, Milan, Italy, 6Department of Lymphoma-Myeloma, MD Anderson Cancer Center, Houston, TX, 77030, USA, 7College of Public Health and Human Sciences, Oregon State University, Corvallis, OR, 97331, USA, 8Helix Genomics Inc., San Mateo, CA 94401, USA, 9Renaissance Computing Institute, University of North Carolina, Chapel Hill, NC 27517, USA, 10Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy, 11Semanticly Ltd., Athens, Greece, 12STAR Informatics, Delphinai Corporation, Sooke, BC, V9Z 0M3, Canada, 13Department of Biomedical Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA, 14The Jackson Laboratory for Genomic Medicine, Farmington CT, 06032, USA * To whom correspondence should be addressed. Email: < justinreese@lbl.gov> Present Address: Justin Reese, Division of Environmental Genomics and Systems Biology Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
• Matentzoglu N, Balhoff JP, Bello SM, Bizon C, Brush M, Callahan TJ, Chute CG, Duncan WD, Evelo CT, Gabriel D, Graybeal J, Gray A, Gyori BM, Haendel M, Harmse H, Harris NL, Harrow I, Hegde HB, Hoyt AL, Hoyt CT, Jiao D, Jiménez-Ruiz E, Jupp S, Kim H, Koehler S, Liener T, Long Q, Malone J, McLaughlin JA, McMurry JA, Moxon S, Munoz-Torres MC, Osumi-Sutherland D, Overton JA, Peters B, Putman T, Queralt-Rosinach N, Shefchek K, Solbrig H, Thessen A, Tudorache T, Vasilevsky N, Wagner AH, Mungall CJ. (2022). A Simple Standard for Sharing Ontological Mappings (SSSOM). Database (Oxford). 2022 May 25;2022:baac035. doi: 10.1093/database/baac035.
• Unni DR, Moxon SAT, Bada M, Brush M, Bruskiewich R, Caufield JH, Clemons PA, Dancik V, Dumontier M, Fecho K, Glusman G, Hadlock JJ, Harris NL, Joshi A, Putman T, Qin G, Ramsey SA, Shefchek KA, Solbrig H, Soman K, Thessen AE, Haendel MA, Bizon C, Mungall CJ. Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science. Clin Transl Sci. 2022 Aug;15(8):1848-1855. PubMed PMID: 36125173