envData

pathway

mfile

example.cls

example.gct

p2miR

miRList

The pathway information is download on the GSEA website,concluding three pathway database
 (KEGG,Biocarta,Reactome).We arranged the data for miRNAs and their target genes,which is according to four database including miRTarBase,TarBaseV6.0,miRecords and mir2Disease.
 example.GCT is an interesting miRNA expression data and example.cls is the vector of binary labels(class.labels)
 p is a p value weighted matrix (rows are pathway ,cols are miRNAs).p2miR is a correlation profile between kegg pathways and each human miRNA.
 miRList is a list of drawing parameters of KEGG ERBB signaling Pathway.

data

The tools for 'MicroRNA Set Enrichment Analysis' can identify risk pathways(or prior gene sets) regulated by microRNA set in the context of microRNA expression data. (1) This package constructs a correlation profile of microRNA and pathways by the hypergeometric statistic test. The gene sets of pathways derived from the three public databases (Kyoto Encyclopedia of Genes and Genomes ('KEGG'); 'Reactome'; 'Biocarta') and the target gene sets of microRNA are provided by four databases('TarBaseV6.0'; 'mir2Disease'; 'miRecords'; 'miRTarBase';). (2) This package can quantify the change of correlation between microRNA for each pathway(or prior gene set) based on a microRNA expression data with cases and controls. (3) This package uses the weighted Kolmogorov-Smirnov statistic to calculate an enrichment score (ES) of a microRNA set that co-regulate to a pathway , which reflects the degree to which a given pathway is associated with the specific phenotype. (4) This package can provide the visualization of the results.

Junwei Han

MiRSEA

'MicroRNA' Set Enrichment Analysis

envData function

Format

Junwei Han<a href="/link/hanjunwei1981%40163.com?package=MiRSEA&version=1.1" data-mini-rdoc="MiRSEA::hanjunwei1981@163.com">hanjunwei1981@163.com</a>,Siyao Liu <a href="/link/liusiyao29%40163.com?package=MiRSEA&version=1.1" data-mini-rdoc="MiRSEA::liusiyao29@163.com">liusiyao29@163.com</a>

Author

The variables in the environment include predefine pathway, target information of miRNAs,an expression profile and a example result of miRNA list — envData

Junwei Han<a href='mailto:hanjunwei1981@163.com'>hanjunwei1981@163.com</a>,Siyao Liu <a href='mailto:liusiyao29@163.com'>liusiyao29@163.com</a>

The variables in the environment include predefine pathway, target information of miRNAs,an expression profile and a example result of miRNA list

envData: The variables in the environment include predefine pathway, target information of miRNAs,an expression profile and a example result of miRNA list

Description

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Author

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