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 ana...
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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 arc available as easy accessible online web tools for processing both mRNA and miRNA data for the RNA-seq based user *** such,we have developed a comprehensive web application tool for processing mRNA-seq and mi RNA-seq *** 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 *** 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 ***,we provide the executable packages for installation on user's local server. Background:RNA-Seq is a recently developed revolutionary approach for transcriptome profiling and miRNA analysis using next generation sequencing *** can allow us to study RNA in further depth and more accurate *** using this method have already altered our view of transcriptome and ***,a lot of methods have been developed to process the different aspects of RNA-seq data,such as short reads mapping (Li and Durbin,2009),gene annotation and differential gene-expression analysis(Wang,et al.,2010).Meanwhile,several web-services for RNA and microRNA analysis have also been developed,such as ***(Bohnert and Ratsch,2010),MAGIA(Sales,et al.,2010), miRCat(Moxon,et al.,2008),miRAnalyzer(Hackenberg,et al.,2009),mirTools(Zhu,et al.,2010) and DSAP(Huang,et al.,2010).However,some of these web-services need prior data processing,such as mapping raw sequences,normalizing expression data,or
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