Disease cell association data

Associations between 503 diseases and 73 cell types were identified using three methods:

• Gene set compactness (GSC)
• Gene set overexpression (GSO)
• Text-mining of the PubMed database.

The GSC and GSO methods are implemented within the DiseaseCellTypes R-package.

Cornish et al. (2015) contains details on these three methods and how the 503 diseases and 73 cell types were selected.

File Descriptions

• details_cells.tsv: Details of the 73 cell types tested. File contains the cell type name (NAME, obtained from FANTOM5), the mapped Cell Ontology ID (CL.ID) and the mapped MeSH terms (MESH).
• details_diseases.tsv: Details of the 503 diseases tested. File contains the disease name (NAME, obtained from DisGeNET), the mapped UMLS IDs (UMLS) and the mapped MeSH terms (MESH).
• gsc_pvalues.tsv: P-values computed using the GSC method.
• gso_pvalues.tsv: P-values computed using the GSO method.
• text_pvalues.tsv: P-values computed through text-mining of PubMed using mapped MeSH terms.

References

Cornish A.J., Filippis I., David A. and Sternberg M.J.E. (2015) Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types. Genome Medicine, 7:95