tailieunhanh - Báo cáo y học: "ExpressionPlot: a web-based framework for analysis of RNA-Seq and microarray gene expression data"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: ExpressionPlot: a web-based framework for analysis of RNA-Seq and microarray gene expression data. | X Genome Biology ExpressionPlot a web-based framework for analysis of RNA-Seq and microarray gene expression data Friedman and Maniatis Friedman and Maniatis Genome Biology 2011 12 R69 http 2011 12 7 R69 28 July 2011 BioMed Central Friedman and Maniatis Genome Biology 2011 12 R69 http 2011 12 7 R69 Genome Biology SOFTWARE Open Access ExpressionPlot a web-based framework for analysis of RNA-Seq and mieroarray gene expression data Brad A Friedman1 2 3 and Tom Maniatis4 Abstract RNA-Seq and microarray platforms have emerged as important tools for detecting changes in gene expression and RNA processing in biological samples. We present ExpressionPlot a software package consisting of a default back end which prepares raw sequencing or Affymetrix microarray data and a web-based front end which offers a biologically centered interface to browse visualize and compare different data sets. Download and installation instructions a user s manual discussion group and a prototype are available at http . Rationale RNA-Seq has emerged in recent years as the eminent platform for analysis of gene expression and RNA processing 1-3 . However processing the raw sequence data to get useful and accurate information about gene expression and RNA processing is still a daunting task even for computationally inclined researchers. High quality software packages now exist to perform specific steps in the analysis pipeline 4-10 as well as webbased systems such as Galaxy 11 and GenePattern 12 that enable the management of data flow through these tools. We present ExpressionPlot an open source solution consisting of a back end pipeline which performs alignment and statistical analyses and a web-based front end which allows users to explore and further compare the completed analyses. Compared to Galaxy and GenePattern ExpressionPlot s web-based front end is novel in the ease with which one can browse and manipulate gene expression results gene