CELLector.CFEs: Cancer Functional Events

In najha/CELLector: Genomics guided selection of cancer cell lines

Cancer Functional Events

Description

Identifiers of cancer functional events (CFEs, i.e. somatic mutations in high confidence cancer driver genes or chromosomal regions of recurrent copy number amplification/deletion) from [1], which are also present in the binary event matrices of the cell lines and the primary tumours considered in this version of CELLector.

Usage

data("CELLector.CFEs")

Format

A vector of strings with one entry per identifier.

Details

Gene symbols indicate somatic mutations in high confidence cancer driver genes and entries with cna prefix indicate chromosomal segments that are recurrently copy number altered in cancer (RACSs), both defined in [1].

A decoding table for the RACSs is available in the CELLector.CFEs.CNAid_decode, with the mapping realised by the values in the CNA_identifier column.

Please note that the same RACS identifier across multiple cancer types might indicate different chromosomal regions, therefore in order to be decode it should be considered jointly with the TCGA label of the data frame it has been extracted from.

Author(s)

Francesco Iorio ([e-mail])

References

[1] Iorio, F. et al. A Landscape of Pharmacogenomic Interactions in Cancer. Cell 166, 740–754 (2016).

See Also

CELLector.PrimTum.BEMs, CELLector.CellLine.BEMs, CELLector.CFEs, CELLector.CFEs.CNAid_decode

Examples

data(CELLector.CFEs)
head(CELLector.CFEs)

najha/CELLector documentation built on Feb. 8, 2023, 5:35 a.m.