STATegRa_initial_data

Block1

Block2

mapdata

Block1.PCA

Block2.PCA

ed.PCA


mRNA data (<code>Block1</code>), miRNA data (<code>Block2</code>) and the design matrix (<code>ed</code>), from <code>STATegRa_S1</code>, provides selected data downloaded from <a href="https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/">https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/</a>. The mapping between miRNA and mRNA (<code>mapdata</code>, available in <code>STATegRa_S2</code>) contains, as a processed matrix, selected information available from TargetScan; we selected the set of miRNA target predictions for humans for those miRNA-mRNA pairs where both miRNA and mRNA were in <code>Block1</code> and <code>Block2</code> respectively. <p></p><p>The PCA version of the data (<code>Block1.PCA</code>, <code>Block2.PCA</code>, <code>ed.PCA</code>; available in <code>STATegRa_S3</code>), provides a similar data-set to <code>Block1</code>, <code>Block2</code> and <code>ed</code> data; howere in thiscase the data has been processed in order to provide a pedagogic example of OmicsPCA. Results obtained from OmicsPCA (<code><a rd-options="" href="/link/omicsCompAnalysis?package=STATegRa&version=1.0.0" data-mini-rdoc="STATegRa::omicsCompAnalysis">omicsCompAnalysis</a></code>) with the existing data should not be taken as clinically valid. 
</p>

datasets

Classes and tools for multi-omics data integration.

David GomezCabrero

STATegRa

Classes and methods for multi-omics data integration

STATegRa_initial_data function

Two matrices with mRNA and miRNA expression data, a design matrix that describes both and a mapping between miRNA and genes.

Format

(a)  See <a href="https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/">https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/</a>.
     (b)  Gabor Csardi, <code>targetscan.Hs.eg.db</code>: TargetScan miRNA target predictions for human. R package version 0.6.1.

Source


mRNA data (<code>Block1</code>), miRNA data (<code>Block2</code>) and the design matrix (<code>ed</code>), from <code>STATegRa_S1</code>, provides selected data downloaded from <a href = 'https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/'>https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/</a>. The mapping between miRNA and mRNA (<code>mapdata</code>, available in <code>STATegRa_S2</code>) contains, as a processed matrix, selected information available from TargetScan; we selected the set of miRNA target predictions for humans for those miRNA-mRNA pairs where both miRNA and mRNA were in <code>Block1</code> and <code>Block2</code> respectively. 

The PCA version of the data (<code>Block1.PCA</code>, <code>Block2.PCA</code>, <code>ed.PCA</code>; available in <code>STATegRa_S3</code>), provides a similar data-set to <code>Block1</code>, <code>Block2</code> and <code>ed</code> data; howere in thiscase the data has been processed in order to provide a pedagogic example of OmicsPCA. Results obtained from OmicsPCA (<code><a rd-options='' href='omicsCompAnalysis'>omicsCompAnalysis</a></code>) with the existing data should not be taken as clinically valid. 


(a)  See <a href = 'https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/'>https://tcga-data.nci.nih.gov/docs/publications/gbm_exp/</a>.
     (b)  Gabor Csardi, <code>targetscan.Hs.eg.db</code>: TargetScan miRNA target predictions for human. R package version 0.6.1.

STATegRa_initial_data: STATegRa_initial_data

Description

Usage

Arguments

Format

Source