common_sigAnnotData: Annotation information for published TB signatures.

In compbiomed/TBSignatureProfiler: Profile RNA-Seq Data Using TB Pathway Signatures

Annotation information for published TB signatures.

Description

A data.frame of annotation information for published tuberculosis signatures. This table differs from that of sigAnnotData as it refers to signatures via the name given in scientific publications, and via a consistent naming system otherwise. Currently, this table includes two variables, disease and tissue type.

Usage

common_sigAnnotData

Format

data.frame

Details

The disease variable indicates whether the signature was developed to distinguish TB from LTBI ("Disease"), TB from some combination of other diseases and possibly LTBI ("OD"), TB from Human Immunodeficiency Virus ("HIV"), TB from pneumonia ("PNA"), or identify risk of progression to TB ("RISK"), risk of TB treatment failure ("FAIL"), or classify treatment responses (i.e., failures from cures, "RES").

The tissue type variable denotes whether the signature was developed using samples of either whole blood/paxgene or peripheral blood mononuclear cells (PBMCs). Due to the manipulation of cells inherently required to obtain PBMCs, many scientists prefer to use only whole blood samples for analysis.

Source

See ?TBcommon for reference information.

Examples

data("common_sigAnnotData")

compbiomed/TBSignatureProfiler documentation built on Oct. 29, 2024, 6:07 a.m.