| Estimating a binary character's effect on speciation and extinction WP Maddison, PE Midford, SP Otto Systematic biology 56 (5), 701-710, 2007 | 1095 | 2007 |
| The MetaCyc database of metabolic pathways and enzymes R Caspi, R Billington, CA Fulcher, IM Keseler, A Kothari, ... Nucleic acids research 46 (D1), D633-D639, 2018 | 741 | 2018 |
| Synthesis of phylogeny and taxonomy into a comprehensive tree of life CE Hinchliff, SA Smith, JF Allman, JG Burleigh, R Chaudhary, LM Coghill, ... Proceedings of the National Academy of Sciences 112 (41), 12764-12769, 2015 | 663 | 2015 |
| An introduction to phylogenetically based statistical methods, with a new method for confidence intervals on ancestral values T Garland Jr, PE Midford, AR Ives American Zoologist 39 (2), 374-388, 1999 | 625 | 1999 |
| The BioCyc collection of microbial genomes and metabolic pathways PD Karp, R Billington, R Caspi, CA Fulcher, M Latendresse, A Kothari, ... Briefings in bioinformatics 20 (4), 1085-1093, 2019 | 609 | 2019 |
| The MetaCyc database of metabolic pathways and enzymes-a 2019 update R Caspi, R Billington, IM Keseler, A Kothari, M Krummenacker, ... Nucleic acids research 48 (D1), D445-D453, 2020 | 587 | 2020 |
| PDAP package of Mesquite PE Midford, T Garland Jr, WP Maddison See www. mesquiteproject. org/pdap_mesquite, 2005 | 567* | 2005 |
| Within-species variation and measurement error in phylogenetic comparative methods AR Ives, PE Midford, T Garland Jr Systematic biology 56 (2), 252-270, 2007 | 497 | 2007 |
| The CIPRES portals MA Miller, MT Holder, R Vos, PE Midford, T Liebowitz, L Chan, P Hoover, ... CIPRES, 2009 | 396 | 2009 |
| Exploring power and parameter estimation of the BiSSE method for analyzing species diversification MP Davis, PE Midford, W Maddison BMC evolutionary biology 13, 1-11, 2013 | 266 | 2013 |
| Finding our way through phenotypes AR Deans, SE Lewis, E Huala, SS Anzaldo, M Ashburner, JP Balhoff, ... PLoS biology 13 (1), e1002033, 2015 | 214 | 2015 |
| Patterns in root traits of woody species hosting arbuscular and ectomycorrhizas: implications for the evolution of belowground strategies LH Comas, HS Callahan, PE Midford Ecology and evolution 4 (15), 2979-2990, 2014 | 159 | 2014 |
| Semantics in support of biodiversity knowledge discovery: an introduction to the biological collections ontology and related ontologies RL Walls, J Deck, R Guralnick, S Baskauf, R Beaman, S Blum, S Bowers, ... PloS one 9 (3), e89606, 2014 | 159 | 2014 |
| The ecocyc database PD Karp, WK Ong, S Paley, R Billington, R Caspi, C Fulcher, A Kothari, ... EcoSal Plus 8 (1), 10.1128/ecosalplus. ESP-0006-2018, 2018 | 151 | 2018 |
| Evolutionary patterns and biogeochemical significance of angiosperm root traits LH Comas, KE Mueller, LL Taylor, PE Midford, HS Callahan, DJ Beerling International Journal of Plant Sciences 173 (6), 584-595, 2012 | 145 | 2012 |
| NeXML: rich, extensible, and verifiable representation of comparative data and metadata RA Vos, JP Balhoff, JA Caravas, MT Holder, H Lapp, WP Maddison, ... Systematic biology 61 (4), 675-689, 2012 | 103 | 2012 |
| The teleost anatomy ontology: anatomical representation for the genomics age WM Dahdul, JG Lundberg, PE Midford, JP Balhoff, H Lapp, TJ Vision, ... Systematic biology 59 (4), 369-383, 2010 | 101 | 2010 |
| Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature WM Dahdul, JP Balhoff, J Engeman, T Grande, EJ Hilton, C Kothari, ... PLoS One 5 (5), e10708, 2010 | 101 | 2010 |
| Pathway Tools version 23.0 update: software for pathway/genome informatics and systems biology PD Karp, PE Midford, R Billington, A Kothari, M Krummenacker, ... Briefings in Bioinformatics 22 (1), 109-126, 2021 | 99 | 2021 |
| Phenex: ontological annotation of phenotypic diversity JP Balhoff, WM Dahdul, CR Kothari, H Lapp, JG Lundberg, P Mabee, ... PLoS One 5 (5), e10500, 2010 | 96 | 2010 |
Peter D. KarpDirector of the Bioinformatics Research Group, SRI InternationalVerified email at ai.sri.com
