ExonMiner – Web Service for GeneChip Exon Array Data Analysis

ExonMiner

:: DESCRIPTION

ExonMiner is the first all-in-one web service for analysis of exon array data to detect transcripts that have significantly different splicing patterns in two cells, e.g. normal and cancer cells.

::DEVELOPER

ExonMiner team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2008 Nov 26;9:494. doi: 10.1186/1471-2105-9-494.
ExonMiner: Web service for analysis of GeneChip Exon array data.
Numata K, Yoshida R, Nagasaki M, Saito A, Imoto S, Miyano S.

MEAP 2.0.2 – Multiple Exon Array Preprocessing

MEAP 2.0.2

:: DESCRIPTION

MEAP is an R package for large-scale exon array data analysis.It includes a novel algorithm (PM-BayesBG) to estimate sequence-based backgrounds that allows more reliable expression estimation than the existing background correction methods. MEAP also contains algorithms for generating robust expression estimates at exon, alternatively spliced variant and gene levels that facilitates the quantitative analysis of alternative spliced variants in the whole transcriptome.

::DEVELOPER

Hautaniemi Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • R Package

:: DOWNLOAD

 MEAP

:: MORE INFORMATION

Citation

Chen P, Lepikhova T, Hu YZ, Monni O and Hautaniemi S.
Comprehensive Exon Array Data Processing Method for Quantitative Analysis of Alternative Spliced Variants.
Nucleic Acids Research. 2011 Oct;39(18):e123. Epub 2011 Jul 10.

GeneBASE – Estimate Gene-level Expression from Affymetrix Exon Arrays

GeneBASE

:: DESCRIPTION

GeneBASE (Gene-level Background Adjusted Selected probe Expression) is a freely available tool for computing Affymetrix Exon array gene-level expression estimates.

GeneBASE consists of the following two programs, ProbeEffects and ProbeSelection

::DEVELOPER

by Karen Kapur, from the Wong Lab and Yi Xing 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / Windows

:: DOWNLOAD

  GeneBASE

:: MORE INFORMATION

Citation

Kapur, K., Xing, Y., Ouyang, Z. and Wong, W.H.
Exon array assessment of gene expression.
Genome Biology, 2007 8(5).

Exit mobile version