| Partitioning and combining data in phylogenetic analysis JJ Bull, JP Huelsenbeck, CW Cunningham, DL Swofford, PJ Waddell Systematic Biology 42 (3), 384-397, 1993 | 1146 | 1993 |
| Can three incongruence tests predict when data should be combined? CW Cunningham Molecular Biology and Evolution 14 (7), 733-740, 1997 | 1102 | 1997 |
| Arthropod relationships revealed by phylogenomic analysis of nuclear protein-coding sequences JC Regier, JW Shultz, A Zwick, A Hussey, B Ball, R Wetzer, JW Martin, ... Nature 463 (7284), 1079-1083, 2010 | 1095 | 2010 |
| Combining data in phylogenetic analysis JP Huelsenbeck, JJ Bull, CW Cunningham Trends in Ecology & Evolution 11 (4), 152-158, 1996 | 1038 | 1996 |
| Application and accuracy of molecular phylogenies DM Hillis, JP Huelsenbeck, CW Cunningham Science 264 (5159), 671-677, 1994 | 658 | 1994 |
| Phylogeography and historical ecology of the North Atlantic intertidal JP Wares, CW Cunningham Evolution 55 (12), 2455-2469, 2001 | 616 | 2001 |
| Reconstructing ancestral character states: a critical reappraisal CW Cunningham, KE Omland, TH Oakley Trends in ecology & evolution 13 (9), 361-366, 1998 | 605 | 1998 |
| Class-level relationships in the phylum Cnidaria: evidence from mitochondrial genome structure. D Bridge, CW Cunningham, B Schierwater, ROB Desalle, LW Buss Proceedings of the National academy of Sciences 89 (18), 8750-8753, 1992 | 409 | 1992 |
| Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods CW Cunningham Systematic Biology 46 (3), 464-478, 1997 | 376 | 1997 |
| Class-level relationships in the phylum Cnidaria: molecular and morphological evidence. D Bridge, CW Cunningham, R DeSalle, LW Buss Molecular Biology and Evolution 12 (4), 679-689, 1995 | 347 | 1995 |
| INVITED REVIEW: Local adaptation and species segregation in two mussel (Mytilus edulis × Mytilus trossulus) hybrid zones C Riginos, CW Cunningham Molecular ecology 14 (2), 381-400, 2005 | 342 | 2005 |
| Evolution of king crabs from hermit crab ancestors CW Cunningham, NW Blackstone, LW Buss Nature 355 (6360), 539-542, 1992 | 337 | 1992 |
| DIVERSITY IN THE WEAPONS OF SEXUAL SELECTION: HORN EVOLUTION IN THE BEETLE GENUS ONTHOPHAGUS (COLEOPTERA: SCARABAEIDAE) DJ Emlen, J Marangelo, B Ball, CW Cunningham Evolution 59 (5), 1060-1084, 2005 | 334 | 2005 |
| Genetic structure in the sea R Grosberg, CW Cunningham Marine community ecology, 61-84, 2001 | 322 | 2001 |
| A comparative study of asymmetric migration events across a marine biogeographic boundary JP Wares, SD Gaines, CW Cunningham Evolution 55 (2), 295-306, 2001 | 288 | 2001 |
| Crab shell-crushing predation and gastropod architectural defense MD Bertness, C Cunningham Journal of experimental marine biology and Ecology 50 (2-3), 213-230, 1981 | 288 | 1981 |
| Resolving arthropod phylogeny: exploring phylogenetic signal within 41 kb of protein-coding nuclear gene sequence JC Regier, JW Shultz, ARD Ganley, A Hussey, D Shi, B Ball, A Zwick, ... Systematic biology 57 (6), 920-938, 2008 | 234 | 2008 |
| Molecular evidence for multiple episodes of paedomorphosis in the family Hydractiniidae CW Cunningham, LW Buss Biochemical Systematics and Ecology 21 (1), 57-69, 1993 | 233 | 1993 |
| Best‐fit maximum‐likelihood models for phylogenetic inference: empirical tests with known phylogenies CW Cunningham, H Zhu, DM Hillis Evolution 52 (4), 978-987, 1998 | 222 | 1998 |
| Some limitations of ancestral character-state reconstruction when testing evolutionary hypotheses CW Cunningham Systematic biology 48 (3), 665-674, 1999 | 206 | 1999 |
