Exploring Disease Similarity in Terms of Dysfunctional Regulatory Mechanisms


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Documentation for package ‘DSviaDRM’ version 1.0

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DSviaDRM-package Exploring disease similarity in terms of dysfunctional regulation mechanisms
comDCGL Sort out common DCGs and DCLs in multi-diseases
comDCGLplot Visualization of common DCGs and DCLs
DCEA Identify DCGs (Differentially Co-expressed Genes) and DCLs (Differentially Co-expressed Links) based on the 'Differential Co-Expression Analysis'
DCpathway Calculate differential co-expression values (dCs) for each pathways
DS Identification of disease similarity
DSviaDRM Exploring disease similarity in terms of dysfunctional regulation mechanisms
expressionBasedfilter Filter genes according to expression level
exprs1 Real dataset pulled down from GEO (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE22528)
exprs2 Real dataset pulled down from GEO (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE35487)
exprs3 Real dataset pulled down from GEO (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9006)
pathways The dataset of human pathways downloaded from two collections of MSigDB
tf2target The dataset of human Transcription Factors regulate potential target genes
varianceBasedfilter To filter genes according to expression variability