ontologies.md

Biomedical Ontologies

Disease

• Medical Subject Headings (MeSH) (BMAA 2000)

  • Lipscomb, Carolyn E.
  • [Paper]
  • [Website]

• Human Phenotype Ontology (HPO) (AJHG 2010)

  • Robinson, Peter N., and S. Mundlos.
  • [Paper]
  • [Website]

• Experimental Factor Ontology (EFO) (Bioinformatics 2010)

  • Malone, James, Ele Holloway, Tomasz Adamusiak, Misha Kapushesky, Jie Zheng, Nikolay Kolesnikov, Anna Zhukova, Alvis Brazma, and Helen Parkinson.
  • [Paper]
  • [Website]

• Disease Ontology (DO) (Nucleic Acids Research 2012)

  • Schriml, Lynn Marie, Cesar Arze, Suvarna Nadendla, Yu-Wei Wayne Chang, Mark Mazaitis, Victor Felix, Gang Feng, and Warren Alden Kibbe.
  • [Paper]
  • [Website]

• Mondo Disease Ontology (MonDO) (Nucleic Acids Research 2017)

  • Mungall, Christopher J., Julie A. McMurry, Sebastian Köhler, James P. Balhoff, Charles Borromeo, Matthew Brush, Seth Carbon et al.
  • [Paper]
  • [Website]

Gene

• Gene Ontology (GO) (Nature Genetics 2000)
  • Ashburner, Michael, Catherine A. Ball, Judith A. Blake, David Botstein, Heather Butler, J. Michael Cherry, Allan P. Davis et al.
  • [Paper]
  • [Website]

Drug Discovery

• Drug Target Ontology Ontology (DTO) (Biomedical Semantics 2017)
  • Lin, Yu, Saurabh Mehta, Hande Küçük-McGinty, John Paul Turner, Dusica Vidovic, Michele Forlin, Amar Koleti et al.
  • [Paper]
  • [Website]

A Number of Ontologies and other KGs in the Biological and Biomedical Space

• Knowledge Graph Hub (KG Hub) is to provide a platform for building knowledge graphs (KGs) by adopting a set of guidelines and design principles
  • J Harry Caufield, Tim Putman, Kevin Schaper, Deepak R Unni, Harshad Hegde, Tiffany J Callahan, Luca Cappelletti, Sierra A T Moxon, Vida Ravanmehr, et al.
  • [Paper]
  • [Website]