| Cyc: toward programs with common sense DB Lenat, RV Guha, K Pittman, D Pratt, M Shepherd Communications of the ACM 33 (8), 30-49, 1990 | 783 | 1990 |
| NDEx, the network data exchange D Pratt, J Chen, D Welker, R Rivas, R Pillich, V Rynkov, K Ono, C Miello, ... Cell systems 1 (4), 302-305, 2015 | 265 | 2015 |
| Functional landscape of SARS-CoV-2 cellular restriction L Martin-Sancho, MK Lewinski, L Pache, CA Stoneham, X Yin, ME Becker, ... Molecular cell 81 (12), 2656-2668. e8, 2021 | 201 | 2021 |
| Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks F Martin, TM Thomson, A Sewer, DA Drubin, C Mathis, D Weisensee, ... BMC systems biology 6, 1-18, 2012 | 113 | 2012 |
| System, method and apparatus for assembling and mining life science data DN Chandra, DR Pratt, EK Neumann, KO Elliston, J Sun, TM Slater US Patent 7,865,534, 2011 | 112 | 2011 |
| Reverse causal reasoning: applying qualitative causal knowledge to the interpretation of high-throughput data NL Catlett, AJ Bargnesi, S Ungerer, T Seagaran, W Ladd, KO Elliston, ... BMC bioinformatics 14, 1-14, 2013 | 109 | 2013 |
| A network-based approach to quantifying the impact of biologically active substances. J Hoeng, R Deehan, D Pratt, F Martin, A Sewer, TM Thomson, DA Drubin, ... Drug discovery today 17 (9-10), 413-418, 2011 | 99 | 2011 |
| Network propagation in the cytoscape cyberinfrastructure DE Carlin, B Demchak, D Pratt, E Sage, T Ideker PLoS computational biology 13 (10), e1005598, 2017 | 95 | 2017 |
| NDEx: a community resource for sharing and publishing of biological networks RT Pillich, J Chen, V Rynkov, D Welker, D Pratt Protein Bioinformatics: From Protein Modifications and Networks to …, 2017 | 86 | 2017 |
| NDEx 2.0: a clearinghouse for research on cancer pathways D Pratt, J Chen, R Pillich, V Rynkov, A Gary, B Demchak, T Ideker Cancer research 77 (21), e58-e61, 2017 | 71 | 2017 |
| System, method and apparatus for causal implication analysis in biological networks DN Chandra, ST Segaran, D Kightley, J Sun, D Pratt US Patent 8,594,941, 2013 | 62 | 2013 |
| Dynamic post-translational modification profiling of Mycobacterium tuberculosis-infected primary macrophages JM Budzik, DL Swaney, D Jimenez-Morales, JR Johnson, NE Garelis, ... Elife 9, e51461, 2020 | 59 | 2020 |
| Interpretation of cancer mutations using a multiscale map of protein systems F Zheng, MR Kelly, DJ Ramms, ML Heintschel, K Tao, B Tutuncuoglu, ... Science 374 (6563), eabf3067, 2021 | 58 | 2021 |
| Representing clinical narratives using conceptual graphs RH Baud, AM Rassinoux, JC Wagner, C Lovis, C Juge, LL Alpay, ... Methods of Information in Medicine 34 (01/02), 176-186, 1995 | 50 | 1995 |
| Multiscale community detection in Cytoscape A Singhal, S Cao, C Churas, D Pratt, S Fortunato, F Zheng, T Ideker PLoS computational biology 16 (10), e1008239, 2020 | 45 | 2020 |
| A BioID-derived proximity interactome for SARS-CoV-2 proteins DG May, L Martin-Sancho, V Anschau, S Liu, RJ Chrisopulos, KL Scott, ... Viruses 14 (3), 611, 2022 | 42 | 2022 |
| Causal reasoning identifies mechanisms of sensitivity for a novel AKT kinase inhibitor, GSK690693 R Kumar, SJ Blakemore, CE Ellis, EF Petricoin, D Pratt, M Macoritto, ... BMC genomics 11, 1-12, 2010 | 41 | 2010 |
| Causal analysis in complex biological systems DR Pratt, WMC Ladd, ST Segaran, J Pollard US Patent App. 11/390,496, 2007 | 41 | 2007 |
| Chemistry of bicyclo [3.1. 0] hex-1-enes contrasted with that of 2-alkylidenecyclopentane-1, 3-diyls M Rule, RF Salinaro, DR Pratt, JA Berson Journal of the American Chemical Society 104 (8), 2223-2228, 1982 | 40 | 1982 |
| HiDeF: identifying persistent structures in multiscale ‘omics data F Zheng, S Zhang, C Churas, D Pratt, I Bahar, T Ideker Genome biology 22, 1-15, 2021 | 37 | 2021 |
Trey IdekerUniversity of California San DiegoVerified email at ucsd.edu
