Fraunhofer Institute for Algorithms and Scientific Computing SCAI
Fraunhofer Institute for Algorithms and Scientific Computing SCAI

Ontologies

  • Human Physiology Simulation Ontology (HUPSON)
    (Gündel M, Younesi E, Malhotra A, et al. HuPSON: the human physiology simulation ontology. J Biomed Semantics. 2013;4(1):35. Published 2013 Nov 22. doi:10.1186/2041-1480-4-35)
  • Brain Region and Cell- Type Terminology (BRCT)
  • Clinical Trial Ontology (NDD-CTO)
  • Biomarker Terminology
    (Younesi E, Toldo L, Müller B, et al. Mining biomarker information in biomedical literature. BMC Med Inform Decis Mak. 2012;12:148. Published 2012 Dec 18. doi:10.1186/1472-6947-12-148)
  • Hypothesis Finder
    (Malhotra A, Younesi E, Bagewadi S, Hofmann-Apitius M. Linking hypothetical knowledge patterns to disease molecular signatures for biomarker discovery in Alzheimer's disease. Genome Med. 2014;6(11):97. Published 2014 Dec 3. doi:10.1186/s13073-014-0097-z)
  • Pathway Terminology System
    (Iyappan A, Gündel M, Shahid M, et al. Towards a Pathway Inventory of the Human Brain for Modeling Disease Mechanisms Underlying Neurodegeneration. J Alzheimers Dis. 2016;52(4):1343–1360. doi:10.3233/JAD-151178)
  • Neuroimaging terminology
    (Iyappan A, Younesi E, Redolfi A, et al. Neuroimaging Feature Terminology: A Controlled Terminology for the Annotation of Brain Imaging Features. J Alzheimers Dis. 2017;59(4):1153–1169. doi:10.3233/JAD-161148)
  • Protein- Ligand Interaction Ontology (PLIO)
    (Ivchenko O, Younesi E, Shahid M, Wolf A, Müller B, Hofmann-Apitius M. PLIO: an ontology for formal description of protein-ligand interactions. Bioinformatics. 2011;27(12):1684–1690. doi:10.1093/bioinformatics/btr256)
  • Cigarette Smoke Exposure Ontology (CSEO)
    (Younesi E, Ansari S, Guendel M, et al. CSEO - the Cigarette Smoke Exposure Ontology. J Biomed Semantics. 2014;5:31. Published 2014 Jul 10. doi:10.1186/2041-1480-5-31)
  • Alzheimer Disease Ontology (ADO)
    (Malhotra A, Younesi E, Gündel M, Müller B, Heneka MT, Hofmann-Apitius M. ADO: a disease ontology representing the domain knowledge specific to Alzheimer's disease. Alzheimers Dement. 2014;10(2):238–246. doi:10.1016/j.jalz.2013.02.009)
  • Parkinson Disease Ontology (PDON)
    (Younesi E, Malhotra A, Gündel M, et al. PDON: Parkinson's disease ontology for representation and modeling of the Parkinson's disease knowledge domain. Theor Biol Med Model. 2015;12:20. Published 2015 Sep 22. doi:10.1186/s12976-015-0017-y)
  • Multiple Sclerosis Ontology (MSO)
  • Epilepsy Ontology
  • Traumatic Brain Injury terminology
  • PTSD Terminology
  • Schizophrenia Ontology
  • Bipolar Disorder Ontology