title: wapRNA: a web-based application for the processing of RNA sequences.
abstract: CONCLUSIONS
  mRNA/miRNA-seq technology is becoming the leading technology to globally profile gene expression and elucidate the transcriptional regulation mechanisms in living cells. Although there are many tools available for analyzing RNA-seq data, few of them are available as easy accessible online web tools for processing both mRNA and miRNA data for the RNA-seq based user community. As such, we have developed a comprehensive web application tool for processing mRNA-seq and miRNA-seq data. Our web tool wapRNA includes four different modules: mRNA-seq and miRNA-seq sequenced from SOLiD or Solexa platform and all the modules were tested on previously published experimental data. We accept raw sequence data with an optional reads filter, followed by mapping and gene annotation or miRNA prediction. wapRNA also integrates downstream functional analyses such as Gene Ontology, KEGG pathway, miRNA targets prediction and comparison of gene's or miRNA's different expression in different samples. Moreover, we provide the executable packages for installation on user's local server.
  
  
  BACKGROUND
  wapRNA is freely available for use at http://waprna.big.ac.cn. The executable packages and the instruction for installation can be downloaded from our web site.
  
  
  BACKGROUND
  husn@big.ac.cn; songshh@big.ac.cn.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors: Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, PR China.
authors: Wenming
authors: W
authors: Zhao
authors: Wanfei
authors: W
authors: Liu
authors: Dongmei
authors: D
authors: Tian
authors: Bixia
authors: B
authors: Tang
authors: Yanqing
authors: Y
authors: Wang
authors: Caixia
authors: C
authors: Yu
authors: Rujiao
authors: R
authors: Li
authors: Yunchao
authors: Y
authors: Ling
authors: Jiayan
authors: J
authors: Wu
authors: Shuhui
authors: S
authors: Song
authors: Songnian
authors: S
authors: Hu
mesh_terms: D020407:Internet; D035683:MicroRNAs / Q000737:chemistry* / Q000378:metabolism; D012333:RNA, Messenger / Q000737:chemistry* / Q000378:metabolism; D017423:Sequence Analysis, RNA / Q000379:methods*; D012984:Software
chemical_list: D035683:MicroRNAs; D012333:RNA, Messenger