maupin


A list consisting of two components:
data: A matrix consisting of gene expression values on 3 control
and 3 TGFb treated samples.
sig: A TGFb gene signature. A dataframe containing a gene signature
and information on whether genes in the signature are up or dow regulated.


datasets

The R implementation of mCOPA package published by Wang et al.
(2012). Oppar provides methods for Cancer Outlier profile Analysis. Although
initially developed to detect outlier genes in cancer studies, methods presented
in oppar can be used for outlier profile analysis in general. In addition,
tools are provided for gene set enrichment and pathway analysis.

Soroor Hediyeh zadeh

oppar

Outlier profile and pathway analysis in R

maupin function

A list of two components:
<dl>
  <dt>M_Ctrl_R1</dt><dd>In data; Control Sample - Replicate 1</dd> <dt>M_Ctrl_R2</dt><dd>In data; Control Sample - Replicate 2</dd> <dt>M_Ctrl_R3</dt><dd>In data; Control Sample - Replicate 3</dd> <dt>M_TGFb_R1</dt><dd>In data; Control Sample - Replicate 1</dd> <dt>M_TGFb_R2</dt><dd>In data; Control Sample - Replicate 2</dd> <dt>M_TGFb_R3</dt><dd>In data; Control Sample - Replicate 3</dd> <dt>EntrezID</dt><dd>In sig; The Entrez IDs</dd> <dt>Symbol</dt><dd>In sig; Gene symbols</dd> <dt>upDown</dt><dd>In sig; Direction of regulation e.g. up, down</dd> </dl>

Format

<a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23952">http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23952</a>

Source

<a href = 'http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23952'>http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23952</a>

maupin: Maupin's TGFb data and a TGFb gene signature

Description

Usage

Arguments

Value

Format

Source