Pathway Processor 2.0 – Pathway-based analysis of High-throughput data

Pathway Processor 2.0

:: DESCRIPTION

Pathway Processor is a web application designed to analyze high-throughput datasets, including but not limited to microarray and next-generation sequencing, using a pathway centric logic.

::DEVELOPER

Computational Biology Center @ FEM

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Pathway Processor 2.0: a web resource for pathway-based analysis of high-throughput data.
Beltrame L, Bianco L, Fontana P, Cavalieri D.
Bioinformatics. 2013 Jul 15;29(14):1825-6. doi: 10.1093/bioinformatics/btt292.

DataRail 1.3 – Analysis of High-throughput data encountered in Systems Biology

DataRail 1.3

:: DESCRIPTION

DataRail is an open source MATLAB toolbox for managing, transforming, visualizing, and modeling data, in particular the high-throughput data encountered in Systems Biology.

::DEVELOPER

Saez-Rodriguez Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows / MacOsX
Matlab

:: DOWNLOAD

DataRail

:: MORE INFORMATION

Citation:

J. Saez-Rodriguez, A. Goldsipe, J. Muhlich, L. Alexopoulos, B. Millard, D. A. Lauffenburger, P. K. Sorger
Flexible Informatics for Linking Experimental Data to Mathematical Models via DataRail.
Bioinformatics, 24:6, 840-847 (2008)

Chipster v4 – Analysis software for Microarray and other High-throughput data

Chipster v4

:: DESCRIPTION

Chipster is a user-friendly analysis software for high-throughput data. It contains over 280 analysis tools for next generation sequencing (NGS), microarray and proteomics data.

::DEVELOPER

CSC — IT Center for Science Ltd

:: SCREENSHOTS

:: REQUIREMENTS

Linux / Windows /MacOsX
Java

:: DOWNLOAD

Chipster

:: MORE INFORMATION

Citation

BMC Genomics. 2011 Oct 14;12:507. doi: 10.1186/1471-2164-12-507.
Chipster: user-friendly analysis software for microarray and other high-throughput data.
Kallio MA, Tuimala JT, Hupponen T, Klemelä P, Gentile M, Scheinin I, Koski M, Käki J, Korpelainen EI.

W-ChIPMotifs – de novo Motif Discovery from ChIP-based High throughput data

W-ChIPMotifs

:: DESCRIPTION

W-ChIPMotifs is a web application tool for de novo motif discovery from ChIP-based high throughput data.

::DEVELOPER

Jin Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

W-ChIPMotifs: a web application tool for de novo motif discovery from ChIP-based high-throughput data.
Jin VX, Apostolos J, Nagisetty NS, Farnham PJ.
Bioinformatics. 2009 Dec 1;25(23):3191-3.