Japan Bioinformatics today announced the release of a study which compares the results of several popular RNA-Seq expression analysis algorithms. The report includes a comparison of two-sample expression analysis (no replicates) to analysis with replicates and a tutorial for researchers seeking to easily perform their own expression analysis utilizing multiple peer-reviewed algorithms.
Tokyo, Japan (PRWEB) June 27, 2013
Japan Bioinformatics today announced the release of their report: Simbiot® ‘How To’: RNA-Seq Expression Analysis Using Prostate Adenocarcinoma Data Set.
The growing availability and reduced cost of next generation sequencing (NGS) is making RNA-Seq an increasingly popular, useful and convenient tool for analyzing the expression of genes, alternatively spliced transcripts, and other genomic elements.
The Japan Bioinformatics report compares the results of several popular algorithms, including Cuffdiff, DESeq and edgeR in performing RNA-Seq expression analysis; it compares the results produced from normalized (FPKM) data and standard counting data, two-sample (no replicate) expression analysis and analysis using biological replicates. The study also compares results derived by using traditional expression analysis algorithms to those produced by algorithms designed specifically for NGS data.
“Many scientists and researchers struggle with how to best reconcile the various algorithms in NGS analysis”, said Dr. Boris Umylny, President of Japan Bioinformatics. “The Simbiot® system allows researchers to compare these various RNA-Seq expression analysis tools simultaneously, thus permitting the scientist to concentrate on interpreting the findings, rather than spending the bulk of their time on running the algorithms and data reconciliation.”
The report also includes a case study which provides a step-by-step tutorial for researchers to easily perform their own RNA-Seq expression analysis utilizing multiple peer-reviewed algorithms.
Download the complete Simbiot® RNA-Seq Analysis ‘How-To’ Guide here.
About Japan Bioinformatics
Japan Bioinformatics KK is a Tokyo-based biotechnology company specializing in software development, as well as bioinformatics and information technology services to the life science community, including biotechnology, academia, research, pharmaceutical and bio-devices organizations.
The company’s main product, Simbiot®, is a system for management and analysis of biological data. The application is available in a single-user, as well as a private server configuration that easily integrates into the client’s environment for multiple users. It includes laboratory information management system (LIMS) data formats, as well as custom and proprietary data formats, analytics and annotations. The system combines reliable data management, distribution, collaboration and analysis tools that support commercial and proprietary data formats, with specific focus on next generation sequencing (NGS) data.
In addition to software products, Japan Bioinformatics offers data analysis, bioinformatics and software development services. Learn more at http://www.japanbioinformatics.com.