Venn Mapper for SRS

Developed by Don de Lange & Marcel Smid



Introduction

Venn Mapper is a program that compares heterologous microarray data sets, based on the number of common, differentially expressed genes. The application loads microarray data (gene expression ratios) and determines which genes are up- or down-regulated by a user-defined ratio cut-off level. For each experiment, lists of differentially expressed genes are computed. Every list will be compared to every other list, and the number of co-occurring genes will be calculated. With the use of the binomial distribution, so called z-values can be assigned to the overlap found between two lists. Different output files are generated by the Venn Mapper, reporting:
  1. the number of up- and down-regulated genes per array and in the comparisons,
  2. the z-values, and
  3. the gene-Ids within the overlaps.
Venn Mapper for SRS is a web-based interface between the Venn Mapper microarray analysis software and the Sequence Retrieval System (SRS). The main purpose of this software is providing the user with the ability to easily select databases (known as libraries) from SRS, choose the fields of interest (possibly from multiple databases) and automatically start an analysis by Venn Mapper. Venn Mapper for SRS also includes a clear file management option screen. Like for Venn Mapper, Venn Mapper for SRS will be freely available upon publication of the program.


For more information:

Publication
BMC Bioinformatics
July 27, 2005
1471-2105-6-192		 Antoine Veldhoven
Don de Lange
Marcel Smid
Victor de Jager
Jan A. Kors
Guido Jenster		 "Storing, Linking, and Mining Microarray Databases using SRS"


Downloads:

Venn Mapper for SRS 1.01 2005
ManualPdf file
Installation package Including readme Tarball
ZIP achrive


Visit the Erasmus MC Venn Mapper for SRS website (Intranet only)



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Page Last Updated : Wed, 03 Feb 2010 16:57:38 +0100