CELLector.hms_look_up: Decoding identifers of hypermethylated gene promoters

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

Decoding identifers of hypermethylated gene promoters

Description

This functions shows the annotation for coded hypermethylated gene promoters as defined in [1].

Usage

CELLector.hms_look_up(hms_ID, hmsId_decode, TCGALabel)

Arguments

hms_ID	A string containin the identifier of the hypermethylated gene promoters. Full list available in the CELLector.CFEsV2 object.
hmsId_decode	A data frame containing the hypermethylated gene promoter annotations, available in the CELLector.CFEs.HMSid_decode object
TCGALabel	A TCGA label indicating the cancer type under consideration: BLCA, BRCA, COREAD, GBM , HNSC, KIRC, LAML, LGG, LUAD, LUSC, OV, PRAD, SKCM, STAD, THCA, UCEC available in this version.

Value

A data frame with a single line containing the hypermethylated gene promoter indicated in input.

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.CFEsV2

Examples

data(CELLector.CFEs.HMSid_decode)
CELLector.hms_look_up('hms26',
                      CELLector.CFEs.HMSid_decode,
                      TCGALabel = 'COREAD')

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