Please find here additional documents associated with this project. Occasionally MorphoBank receives matrices that are not formatted to parse to the database, these can also be found here, along with others and are presented 'as is' from the scientist.
8 Document Folders
Appendices from O'Leary et al., 2013, Science (28 documents)Appendix S1 placental reconstruction (Downloaded 141 times 
)
)Appendix S2. Synapomorphies (Downloaded 105 times )
)Appendix S3. Deltran optimization on FIgure 2 tree (Downloaded 63 times )
)Appendix S4. ACCTRAN optimization on Figure 2 tree (Downloaded 42 times )
)To download the phenomic data-only matrix use the "Matrices" tab on your left.
This folder contains matrices of "combined data" (gene data + phenomic) data formatted for different programs and analyses (there is also a copy of these files in the Analyses folder). It also contains matrices for some partitioned studies.
Bayesian (Downloaded 64 times )
)Contains files for running Bayesian analysis on the phenomic data or the gene dataset partitions and the file used to rerun data from Meredith et al. 2011
ML (Downloaded 30 times )
)ML data files for analysis. Note this file contains more than combined datafiles it also contains some separate files for ML analysis of phenomic or gene data partitions alone.
Parsimony (Downloaded 104 times )
)Contains combined data files for the phenomic data + amino acids, the phenomic data + DNA, and the data from Meredith et al., 2011 formatted for parsimony analysis.
Contains log files, trees and related documents. This folder also contain a duplicate "Data Matrices for All Analyses".
Files for phylogenetic analyses (Downloaded 128 times )
)Contains Nexus, TNT and other files with molecular data or combined data used to generate trees, tree files and other supporting files.
Partition sequence in combined data Nexus file (Downloaded 37 times )
)changes in dental matrix (Downloaded 32 times )
)Cranial matrix notes (Wible) (Downloaded 46 times )
)Dental Character Abbreviations (Downloaded 31 times )
)Institution Codes (Downloaded 27 times )
)Media Orientations (Downloaded 16 times )
)Acta Palaeontologica Polonica - Several Permissions DUP (Downloaded 7 times )
)Acta Palaeontologica Polonica Permissions 2 (Downloaded 1 time )
)Allen 1924 Permission (Downloaded 3 times )
)Allison 1947 Permission (Downloaded 3 times )
)Altenbach 1979 Permission (Downloaded 3 times )
)AMNH Publications Permissions 1 (Downloaded 8 times )
)AMNH Publications Permissions 2 (Downloaded 2 times )
)AMNH Publications Permissions 3 (Downloaded 1 time )
)AMNH Publications Permissions 4 (Downloaded 1 time )
)AMNH Publications Permissions 5 (Downloaded 1 time )
)Anton 1996 Permission CCC (Downloaded 2 times )
)Archaeotherium at Harvard's MCZ Image agreement (Downloaded 1 time )
)Argyropulo Permission (Downloaded 4 times )
)Asher 2006 Permission (Downloaded 5 times )
)Asher et al 2005 Permission (Downloaded 1 time )
)ASM Permission (Downloaded 2 times )
)ASM Slide Library Permission (Downloaded 1 time )
)Averianov 2003 Permission (Downloaded 4 times )
)Barone 1973 and Hoffstetter 1958 Permission (Downloaded 2 times )
)Barone 1976 Permission (Downloaded 1 time )
)Barrow General Permissions (Downloaded 1 time )
)BCI Permission (Downloaded 1 time )
)Beard et al 1988 Permission CCC (Downloaded 1 time )
)Bedford 1997 Permission CCC (Downloaded 2 times )
)Benirschke Permission (Downloaded 1 time )
)Benirschke Permission 2 (Downloaded 1 time )
)Berta 1994 Permission (Downloaded 1 time )
)Berta 1999 Permission (Downloaded 2 times )
)Bezerra 2005 Permission (Downloaded 2 times )
)Bhatnagar 1967, 1980 Permission (Downloaded 2 times )
)Bhatnagar CUP 2000 Permission (Downloaded 1 time )
)Biopix Permission (Downloaded 1 time )
)Bjornhag et al 1995 Permission CCC (Downloaded 1 time )
)Bleefeld 2002 Permission (Downloaded 1 time )
)Bonaparte 2001 MCZ Permission (Downloaded 2 times )
)Bone Clones Permission (Downloaded 1 time )
)Boyer 2010 Permission (Downloaded 2 times )
)Boyer et al 2010 Permission (Downloaded 1 time )
)Breed 2004 Permission CCC (Downloaded 2 times )
)Bronner 1991 Permission (Downloaded 1 time )
)Bryant 1991 Permission (Downloaded 1 time )
)Bryant and Spencer Permissions (Downloaded 1 time )
)Bugge 1974 Acta Anatomica Polonica Permissions (Downloaded 1 time )
)Butler 1984 Permission (Downloaded 1 time )
)Buys et al 1984 Permission (Downloaded 1 time )
)Cabrera Permission (Downloaded 1 time )
)Carnegie Permissions for Publications by Team and Photographs (Downloaded 3 times )
)Carter 2010 Permission IJDB (Downloaded 2 times )
)Carter et al 2004 ARS Permission CCC (Downloaded 2 times )
)Carter et al 2004 Permission CCC (Downloaded 2 times )
)Catania 2000 Permission (Downloaded 1 time )
)Chapla 2007 CCC Permission (Downloaded 1 time )
)Ciochon et al 2002 Permission CCC (Downloaded 1 time )
)Clauss et al 2007 Permission (Downloaded 1 time )
)Clemens 1974 Permission CCC (Downloaded 1 time )
)Cleveland Museum Permission (Downloaded 2 times )
)Cleveland Museum Permission (Downloaded 1 time )
)Colorado State University Bowen Permissions (Downloaded 1 time )
)Conroy 1980 Permission CCC (Downloaded 2 times )
)Cooper & Schiller 1975 Permissions (Downloaded 1 time )
)Crown copyright permission New Zealand (Downloaded 1 time )
)Cuenca Besco 2007 Permission CCC (Downloaded 1 time )
)Dagosto 1993 Permission (Downloaded 2 times )
)Dennis Permission (Downloaded 1 time )
)Dewynter Permission (Downloaded 2 times )
)Digimorph Digital Media Permissions (Downloaded 1 time )
)Jessica Maisano for Digimorph CC-BY-NC
Diogo 2009 Permission CCC (Downloaded 1 time )
)Drea 2008 Permission CCC (Downloaded 1 time )
)DungeValley Permission (Downloaded 1 time )
)Edinburgh Tupaia Image Permission (Downloaded 1 time )
)Eltringham 1999 Permission (Downloaded 1 time )
)Emry 1970 Permission (Downloaded 1 time )
)Emry General Permissions (Downloaded 1 time )
)Estes 1961 and Sues 1986 MCZ Permission (Downloaded 1 time )
)Evans - Fair reuse (Downloaded 1 time )
)Evans 1984 Permission (Downloaded 1 time )
)Featurepics Permission (Downloaded 1 time )
)Fenton 1992 Permission (Downloaded 1 time )
)Fieldiana Permission (Downloaded 1 time )
)Fischer - Several Permissions (Downloaded 1 time )
)Flannery Permission (Downloaded 1 time )
)Fleagle 1995 Permission CCC (Downloaded 1 time )
)Fleagle Permission (Downloaded 1 time )
)Fleischer 1973 Permission Fair Reuse (Downloaded 1 time )
)Foreman 1972 Permission (Downloaded 1 time )
)Fostowicz-Frelik 2002 Permissions (Downloaded 1 time )
)for reuse of 1 image from Fostowicz-Frelik on Zalambdalestes
Frahner 1999 Permission CCC (Downloaded 1 time )
)Frey 2001 Permission (Downloaded 1 time )
)Gaudin 1998 Permission (Downloaded 2 times )
)Gazin 1968 Permission (Downloaded 1 time )
)Gebo et al 2001 Permission CCC (Downloaded 1 time )
)Geobios and Annales de Paleontologie Permission (Downloaded 1 time )
)Geobios Permission (Downloaded 1 time )
)Geodiversitas Permission (Downloaded 1 time )
)Geodiversitas Permission 2 (Downloaded 1 time )
)Getty 1975 Permission (Downloaded 1 time )
)Gheerbrant 1991 and Gallica General Permissions (Downloaded 1 time )
)Gheerbrant 2007 Permission (Downloaded 1 time )
)Gingerich 2001 Permission AAAS (Downloaded 1 time )
)Goebbel 2002 Permission (Downloaded 1 time )
)Gould 1980 Permission IRC (Downloaded 1 time )
)Gould 1980 Plenum Permission (Downloaded 1 time )
)Grand 1967 Permission CCC (Downloaded 1 time )
)Grasse Permission (Downloaded 1 time )
)Greene 1935 Permission (Downloaded 1 time )
)Gregory / Hooton 1951 Permission CCC (Downloaded 1 time )
)Griffiths 1978 Permission / Klingener Fair Reuse (Downloaded 1 time )
)Griffiths 1983 Permission (Downloaded 1 time )
)Griffiths AMNH Permissions (Downloaded 1 time )
)Harrison 1969 Permission Best Efforts (Downloaded 1 time )
)Hawley's Leptictis Permission (Downloaded 1 time )
)Hebel 1976 Permission (Downloaded 1 time )
)Heideman Permission (Downloaded 1 time )
)Helgen 2009 Permission (Downloaded 1 time )
)Hellingman Permission (Downloaded 1 time )
)Hershkovitz 1977 Permission (Downloaded 1 time )
)Hershkovitz 1982 Field Museum (Downloaded 1 time )
)Hildebrand 1978 Permission CCC (Downloaded 1 time )
)Hildebrand 1985 Permission HUP (Downloaded 1 time )
)Hill 1960 Best Efforts - Fair Reuse (Downloaded 1 time )
)Hill Fair Reuse (Downloaded 1 time )
)Hohn 1980 Permission (Downloaded 1 time )
)Hood and Smith 1983 Permission (Downloaded 1 time )
)Hopkins Permission (Downloaded 1 time )
)Huber 1934 Permission (Downloaded 1 time )
)Hume 1995 Permission (Downloaded 1 time )
)Hunt 1977 and Wesley-Hunt 2003 Permissions (Downloaded 2 times )
)Hunt AMNH Permissions (Downloaded 1 time )
)Hunt and Korth 1980 Permission CCC (Downloaded 1 time )
)Hurum et al 2006 Permission (Downloaded 1 time )
)Jackson Permission (Downloaded 3 times )
)Janis and Scott 1987 Permission (Downloaded 1 time )
)Jenkins 1971 Permission (Downloaded 1 time )
)Jenkins 1984 Permission (Downloaded 1 time )
)Jenkins et al 1997 Nature Permission CCC (Downloaded 2 times )
)Jennings et al 2001 Permission (Downloaded 1 time )
)Joeckel 1990 Permission (Downloaded 1 time )
)Johnson 1994 Permission (Downloaded 1 time )
)Journal of Mammalogy Permission 1 (Downloaded 2 times )
)Journal of Mammalogy Permission 2 (Downloaded 2 times )
)Journal of Paleontology Permissions DUP (Downloaded 2 times )
)Journal of Zoo and Wildlife Medicine Permission (Downloaded 1 time )
)JVP Permission to reuse figures (Downloaded 3 times )
)Kansas Permission, Seattle Fair Reuse (Downloaded 1 time )
)Karger General Permissions (Downloaded 1 time )
)Katz 1993 Permission (Downloaded 1 time )
)Kay 1977 Permission CCC (Downloaded 1 time )
)Kay et al 1997 Permission CCC (Downloaded 1 time )
)Kay et al 2008 Permission CCC (Downloaded 1 time )
)Kellogg 1936 Permission (Downloaded 1 time )
)Kesner 1980 Permission CCC (Downloaded 1 time )
)Kielan-Jaworowska 1989 Permission (Downloaded 1 time )
)Kielan-Jaworowska 1998 Acta An. Permission (Downloaded 1 time )
)Kielan-Jaworowska 2004 Combined Permission (Downloaded 1 time )
)Kielan-Jaworowska Many Permissions (Downloaded 1 time )
)Kimura 2002 Permission (Downloaded 1 time )
)Kobayashi 2004 Permission CCC (Downloaded 1 time )
)Koenigswald 1997 Permission (Downloaded 1 time )
)Krebs 1991 Permission (Downloaded 1 time )
)Krusat 1980 Permission (Downloaded 1 time )
)Krusat 1991 (Downloaded 1 time )
)Kuhn and Zeller 1987 - Best Efforts (Downloaded 1 time )
)Kunzle 2000 Permission (Downloaded 1 time )
)Kutuzov 1951 Permission CCC (Downloaded 1 time )
)LaVal 2002 Permission (Downloaded 1 time )
)Lawson Permission (Downloaded 2 times )
)Levin 1999 Permission (Downloaded 1 time )
)Lillegraven and Krusat - Haldanodon Monograph Permission (Downloaded 1 time )
)Granting of permission to use figures from the Lillegraven and Krusat monograph on Haldanodon
Ling 1965 Permission (Downloaded 1 time )
)Linnean Society - Tabuce Gaudin Weisbecker Permission (Downloaded 1 time )
)Linnean Society General Permissions (Downloaded 1 time )
)Linnean Society Permission 1 (Downloaded 1 time )
)Lucke and Thewissen Permissions (Downloaded 1 time )
)Luckett 1968 and Fawcett 1965 Permissions (Downloaded 1 time )
)Luo 1999 Permission (Downloaded 1 time )
)Luo and Wible Science 2005 Permission (Downloaded 1 time )
)Luo et al Science 2003 Permission (Downloaded 1 time )
)Machida 1967 Permission (Downloaded 2 times )
)Madkour 1976 Permission (Downloaded 1 time )
)Maier Slides - Tuebingen - Permission (Downloaded 1 time )
)Mammalian Species Permission (Downloaded 2 times )
)Marshall et al 1993 and General Permission (Downloaded 5 times )
)Marshall et al 1995 Permission (Downloaded 1 time )
)Maureille et al 1996 Permission CCC (Downloaded 1 time )
)McDowell 1958 Permission (Downloaded 1 time )
)McFarland 1979 Permission CCC (Downloaded 1 time )
)MCZ Hopson Guthrie Jenkins Permissions (Downloaded 1 time )
)Meinertz 1942 and 1978 - Fair Reuse - Best Efforts (Downloaded 1 time )
)Meinertz 1943 Permission (Downloaded 1 time )
)Meinertz 1944 Permission (Downloaded 1 time )
)Meneghini - Tursiops Permission (Downloaded 1 time )
)MI State College Ag. Permissions (Downloaded 1 time )
)Millette 2009 Permission CCC (Downloaded 1 time )
)Mitchell and Tedford 1973 Permission AMNH (Downloaded 1 time )
)MNHN Publication Permissions (Downloaded 1 time )
)Mones 1982 Permission CCC (Downloaded 1 time )
)Moska 2008 Permission (Downloaded 1 time )
)Mossman 1987 Permission (Downloaded 1 time )
)Moya-Sola 2004 Permission CCC (Downloaded 1 time )
)Muizon 1995 permission Pucadelphis papers (Downloaded 2 times )
)Muizon 1997 Permission (Downloaded 1 time )
)Muizon 1998 Permission (Downloaded 1 time )
)Murray and Strickler 1975 Permission (Downloaded 1 time )
)Museum of London Permission (Downloaded 1 time )
)Museum of Osteology Permission (Downloaded 2 times )
)Myers (ADW) Permission (Downloaded 1 time )
)NHM LAC Permission (Downloaded 1 time )
)Norman 1994 Permission (Downloaded 1 time )
)Norman and Mead 2001 Permission (Downloaded 1 time )
)North American Ccara Association Permissions (Downloaded 1 time )
)Novacek et al 1997 Nature Permission (Downloaded 4 times )
)Okajimas Permission (Downloaded 1 time )
)Osborn 1929 Permission (Downloaded 1 time )
)Palaeontologia Electronica Permission (Downloaded 1 time )
)Piripi Permission (Downloaded 1 time )
)Platzer 1964 and Agrawal et al 1973 Permissions (Downloaded 1 time )
)PNAS General Permission (Downloaded 1 time )
)Portec Veterinary Services Permsission (Downloaded 1 time )
)Radinsky 1965 - MCZ Permission (Downloaded 1 time )
)Radinsky General Permission (Downloaded 1 time )
)Raisinllamas Permission Document (Downloaded 1 time )
)Raven 1950 Permission (Downloaded 1 time )
)Reed 1951 Permissions (Downloaded 1 time )
)Reig et al 1987 Permission (Downloaded 1 time )
)Riedelsheimer 2007 Permission CCC (Downloaded 1 time )
)Roberts 1996 Permission (Downloaded 1 time )
)Rohen 2002 Permission (Downloaded 1 time )
)Romer 1967 Permission (Downloaded 1 time )
)Rose 1981 Nature Permission (Downloaded 1 time )
)Rose 1993 Permission (Downloaded 1 time )
)Rose Various Permissions (Downloaded 1 time )
)Ross and Covert 2000 Permission JHE CCC (Downloaded 1 time )
)Rossie Permission (Downloaded 1 time )
)Rothdauscher 1983 Fair Reuse (Downloaded 1 time )
)Royal Society Expired Material (Downloaded 1 time )
)Ruf et al 2009 Permission (Downloaded 1 time )
)Russell 1964 Permission and Best Efforts (Downloaded 1 time )
)Ryan 1986 Permission CCC (Downloaded 1 time )
)Saban 1963 Permission and Best Efforts (Downloaded 1 time )
)Sacco 2005 Permission (Downloaded 1 time )
)Sack Veterinary Textbooks Permission (Downloaded 1 time )
)Salles 1992 Permission (Downloaded 1 time )
)Sargis et al 2007 Permission JHE CCC (Downloaded 1 time )
)Sargis JMorph 2002 Permissions (Downloaded 1 time )
)Schmidt et al 2004 Permission CCC (Downloaded 1 time )
)Scott and Turner 1997 Permission (Downloaded 1 time )
)SeaPics permission (Downloaded 1 time )
)Segall 1969 and Schutt 1993 Permission (Downloaded 1 time )
)Seiffert et al 2001 Permission JHE CCC (Downloaded 1 time )
)Senckenberg Permissions (Downloaded 1 time )
)Shutterstock License (Downloaded 1 time )
)Sigogneau-Russell Permission (Downloaded 1 time )
)Sikes 1971 Permission (Downloaded 1 time )
)Simons and Kay 1988 Permission CCC (Downloaded 1 time )
)Skulls Unlimited - Trichechus Permission (Downloaded 2 times )
)Skulls Unlimited Permission 2 (Downloaded 1 time )
)Smithsonian Permissions 1 (Downloaded 2 times )
)Sokolov in Nauka 1986 Fair Reuse - Best Efforts (Downloaded 1 time )
)Sottosanti Permission (Downloaded 1 time )
)Spoor et al 2002 Permission (Downloaded 1 time )
)Sprague 1944 and Wimsatt 1945, 1966 Permissions (Downloaded 1 time )
)Springer Netherlands Contract (Downloaded 3 times )
)Stock Photo License (Downloaded 1 time )
)Stromberg 2006 Permission (Downloaded 1 time )
)Szalay - General Permissions (Downloaded 1 time )
)Szalay 1976 Permission (Downloaded 2 times )
)Szalay 1988 Permission JHE CCC (Downloaded 1 time )
)Szalay and Delson 1979 Permission (Downloaded 1 time )
)Tassy 1981 and 1985 Permissions (Downloaded 1 time )
)Te Papa - Caperea marginata - Photography Agreement (Downloaded 2 times )
)This documents the rules regarding use of media of the specimen from Te Papa Museum, New Zealand that toured the US in 2009-2010.
Te Papa website Permission (Downloaded 1 time )
)Teerink Permission (Downloaded 1 time )
)Thenius Permission (Downloaded 1 time )
)Thewissen 1983 Permission (Downloaded 1 time )
)Thewissen 1985 ZM Permission (Downloaded 1 time )
)Thewissen 1986 Permission (Downloaded 1 time )
)Thewissen 1991 Permission (Downloaded 1 time )
)Tougard et al 1998 Permission CCC (Downloaded 1 time )
)Trusler Permission in Rich Papers (Downloaded 1 time )
)UMM Zoology Permissions (Downloaded 1 time )
)UMMP Permissions (Downloaded 1 time )
)Univ Chicago Press Permissions (Downloaded 1 time )
)van der Merwe et al 1995 Permission (Downloaded 1 time )
)van Wijk permission (Downloaded 1 time )
)Vaughan Permissions (Downloaded 1 time )
)Vogel 1973 Permission (Downloaded 1 time )
)Voss General Permission (Downloaded 1 time )
)Wahlert 1983 Permission (Downloaded 1 time )
)Wahlert 2004 Permission (Downloaded 1 time )
)Wallau et al 2000 Permission (Downloaded 1 time )
)Wang 1994 Permission (Downloaded 1 time )
)Washington, Univ of Permission (Downloaded 1 time )
)Weber 1928 Permission (Downloaded 1 time )
)Weinstein Permission (Downloaded 1 time )
)Wemmer; Schoch; Journal of Mammalogy Permissions (Downloaded 1 time )
)Werdelin 1991 Permission (Downloaded 1 time )
)Whidden Drawing Permission (Downloaded 1 time )
)Wislocki 1940 Permission (Downloaded 1 time )
)Wolsan 1993 Permission (Downloaded 1 time )
)Wood 1940 (Downloaded 1 time )
)Wood 1962 Permission (Downloaded 1 time )
)Woodburne 1975 Permission (Downloaded 1 time )
)Woods 1972 Permission (Downloaded 1 time )
)Wynne Permission (Downloaded 1 time )
)Permission to use bat skeleton figure from Simmons 2008 Scientific American articles
Zeek 1951 Permission CCC (Downloaded 1 time )
)Zeller 1989 and Maier 1980 Permissions (Downloaded 1 time )
)Zhangheotherium drawing Permission by CMNH VP M131900 (Downloaded 1 time )
)Zoo. Anz. Fair Reuse - Best Efforts (Downloaded 1 time )
)ZSL Permissions (Downloaded 7 times )
)Carnegie VP Permission for Team (Downloaded 13 times )
)GSP-UM specimens (Downloaded 8 times )
)Harpyionycteris FMNH Specimen (Downloaded 3 times )
)Harvard photography policy (Downloaded 4 times )
)MCZ Permission to reuse photos of specimens (Downloaded 5 times )
)South Australia Museum Photo Permission (Downloaded 7 times )
)YPM Photography Policy (Downloaded 4 times )
)Supplementary Materials for The Placental Mammal Ancestor and the Post–K-Pg Radiation of Placentals (Downloaded 17 times )
)Included in this folder is the final file with the branch lengths calculated with GTR+G+I from each gene in O’Leary et al (2013). We excluded genes with missing data in key basal groups for a total of 25 genes. We have also included the Paup command file and the log file with the results. The pdf file contains the raw branch lengths. Raw branch lengths calculated using the Figure 1 of O’Leary et al. (2013). Branch lengths were calculated on this tree using the GTR+gamma+I model for all genes and for relevant branches.
Note - these calculations pertain only to O'Leary et al. 2013, in Science Vol 341 and not to accompanying Springer et al. piece.
commands-from-branch2 (Downloaded 13 times )
)morphonucFINAL (Downloaded 20 times )
)Raw branch lengths (Downloaded 13 times )
)Read Me (Downloaded 10 times )
)TABLE 2 rates4 MW ALC EXAMPLE (Downloaded 9 times )
)MorphoBank hosts phylogenetic data (matrices, characters, character states and documents) that are scientific facts in the public domain and not typically subject to copyright. Some authors have additionally marked their non-image data as CC0 
to emphasize its availability for reuse.
Image data on MorphoBank may, however, be subject to copyright and licenses should be checked before reuse.