Uberon is "an integrated cross-species ontology … representing a variety of anatomical entities. [source]" We use Uberon as the vocabulary to represent anatomical structures for our drug repurposing research.
To reconstruct the analysis, run the notebooks in the following order:
human-constraint.ipynb: Compares two methods for filtering the ontology for anatomies that exist in humans.process.ipynb: Downloads and processes the Uberon ontology in OBO format. Creates TSVs of terms, xrefs, and subsets. Additionally, createsUberon hetio-slim, a subset of Uberon terms for inclusion in our hetnet.
The following datasets are created:
terms.tsv: the identifiers and names of Uberon termssubset.tsv: the ontology subsets for termsxref.tsv: cross-references to external vocabularieshuman-constraint.tsv: assessments of whether a term exists or not in humans based on two methods.hetio-slim.tsv: the slim term set used for our drug repurposing project.
Uberon content and its derivatives are licensed under CC-BY. All original content in this repository is released as CC0.