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BiSEp (version 1.0)

Toolkit to identify synthetic lethality and cell line resistance relationships based on bimodality in gene expression data.

Description

Enables the user to infer potential synthetic lethal relationships by analysing relationships between bimodally distributed gene pairs in big gene expression datasets. Enables the user to look for enrichment of resistance to a compound in individual bimodal genes.

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Version

Install

install.packages('BiSEp')

Monthly Downloads

216

Version

1.0

License

Artistic-2.0

Maintainer

Mark Wappett

Last Published

February 25th, 2014

Functions in BiSEp (1.0)

FURE_example_input

Output matrix from the SLinG tool
BIGEE_example_input

A data matrix containing log2 gene expression data
FURE

FURE: Functional redundancy between synthetic lethal gene pairs
BiSEp-package

BiSEp: Bimodality in gene expression to dissect tumours and reveal synthetic lethal drug targets and biomarkers
BEEP_input_data

Gene by sample input data matrix.
BEEM_EXPRS

A Log2 Gene Expression matrix
BEEP_sens_data

Matrix containing sample names and discreet pharmacology calls.
BEEP

BEEP: Bimodal Expression Exclusive with Pharmacology
BEEM_MUT

A matrix containing discreet mutation calls
BIGEE

BIGEE: Bimodal Gene Expression Exclusivity.
BEEM

BEEM: Bimodal Expression Exclusive with Mutation
BISEP

BISEP: Bimodality in Gene Expression data.