Useful websites for Exon Array analysis

GeneChip All exon array official information

• Affymetrix - GeneChip® Exon Array System

Mouse exon array offical information

• Affymetrix - Technical Support Documentation for GeneChip® Mouse Exon 1.0 ST Array
• Affymetrix - GeneChip� Mouse Exon 1.0 ST Array - Design Statistics Summary

Software

• exonmap (R + Bioconductor, You need big memory (4 - 8GB))
• Affymetrix - Affymetrix Power Tools (Offical software, CUI, small memory. I recommend it.)
• dChip: Exon Array Analysis (Calculate the dChip value in Exon array)
• GeneChip-compatible™ Software Solutions Catalog (Commercial software)
  

Summarize, Background model, probe selection

• Exon array assessment of gene expression. (probe-specific background correction and Probe selection strategy)
• Probe Selection and Expression Index Computation of Affymetrix Exon Arrays

Alternative splicing detection

• A statistical framework for genome-wide discovery of biomarker splice variations with GeneChip Human Exon 1.0 ST Arrays. (Download paper)

Analysis

• High correspondence between Affymetrix exon and standard expression arrays.

Viewer

• X:Map (using Google MAP API. Very Cool!)
• An annotation infrastructure for the analysis and interpretation of Affymetrix exon array data.
• ArrayFusion 1.5.5�- a web application for multi-dimensional analysis of CGH, SNP and microarray data (Web application)
• Galaxy

Data and Database

• X:Map Downloads (You can download CDF file for exon array)
• MAASE: An alternative splicing database designed for supporting splicing microarray applications -- ZHENG et al. 11 (12): 1767 -- RNA

Etc.

• AMB Community: Exon array