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message: 'To cite package "GDCRNATools" in publications use:'
type: software
license: Artistic-2.0
title: 'GDCRNATools: GDCRNATools: an R/Bioconductor package for integrative analysis
  of lncRNA, mRNA, and miRNA data in GDC'
version: 1.25.0
abstract: This is an easy-to-use package for downloading, organizing, and integrative
  analyzing RNA expression data in GDC with an emphasis on deciphering the lncRNA-mRNA
  related ceRNA regulatory network in cancer. Three databases of lncRNA-miRNA interactions
  including spongeScan, starBase, and miRcode, as well as three databases of mRNA-miRNA
  interactions including miRTarBase, starBase, and miRcode are incorporated into the
  package for ceRNAs network construction. limma, edgeR, and DESeq2 can be used to
  identify differentially expressed genes/miRNAs. Functional enrichment analyses including
  GO, KEGG, and DO can be performed based on the clusterProfiler and DO packages.
  Both univariate CoxPH and KM survival analyses of multiple genes can be implemented
  in the package. Besides some routine visualization functions such as volcano plot,
  bar plot, and KM plot, a few simply shiny apps are developed to facilitate visualization
  of results on a local webpage.
authors:
- family-names: Li
  given-names: Ruidong
  email: rli012@ucr.edu
- family-names: Qu
  given-names: Han
  email: hqu002@ucr.edu
- family-names: Wang
  given-names: Shibo
- family-names: Wei
  given-names: Julong
- name: Le Zhang
- family-names: Ma
  given-names: Renyuan
- family-names: Lu
  given-names: Jianming
- family-names: Zhu
  given-names: Jianguo
- family-names: Zhong
  given-names: Wei-De
- family-names: Jia
  given-names: Zhenyu
repository: https://bioc.r-universe.dev
date-released: '2017-11-16'
contact:
- family-names: Li
  given-names: Ruidong
  email: rli012@ucr.edu
- family-names: Qu
  given-names: Han
  email: hqu002@ucr.edu