Bioinformatics Links Directory : Microarrays

This section contains links to microarray methods, standards for microarray data, and analysis tools for expression data.

RACE - (Found July 2, 2008 )

RACE (Remote Analysis Computation for gene Expression data) is a collection of web tools designed to assist with the analysis of DNA microarray data and results.
http://race.unil.ch/

Pathway Explorer - (Found July 2, 2008 )

Pathway Explorer is a tool for visualizing high throughput expression data simultaneously with biological pathway data available from KEGG, BioCarta, and GenMAPP.
https://pathwayexplorer.genome.tugraz.at/

PathExpress - (Found July 2, 2008 )

PathExpress is a tool developed to interpret gene expression data obtained from microarray experiments by identifying and visualizing the most relevant metabolic pathways associated with a subset of genes (e.g. differentially expressed genes).
http://bioinfoserver.rsbs.anu.edu.au/utils/PathExpress/

OSCAR - (Found July 2, 2008 )

OSCAR (Open System for Clustering Analysis) is a platform for cluster analysis of microarray data.
http://biocomp.bioen.uiuc.edu/oscar/

GFINDer - (Found July 2, 2008 )

Genome Functional INtegrated Discoverer (GFINDer) takes a list of geneclone IDs with classification information as input, and allows the user to characterize the different gene classes in the list using annotations of various types from several different sources.
http://www.medinfopoli.polimi.it/GFINDer/

GEPS - (Found July 2, 2008 )

Gene Expression Pattern Scanner (GEPS) is a tool for the analysis of patterns of expression in microarray data. Users can upload custom data, or can use this tool to search public data sets from GEO or GNF SymAtlas.
http://bioinf.xmu.edu.cn/software/geps/geps.php

GenMAPP - (Found July 2, 2008 )

GenMAPP (Gene MicroArray Pathway Profiler) is a microarray expression data visualization tool, allowing data to be viewed on maps representing gene groupings and biological pathways.
http://www.genmapp.org/

BTW - (Found July 2, 2008 )

Boltzmann Time Warping (BTW) computes time warping distances and Boltzmann' pair probabilities for a given input gene expression time series. This tool helps to identify genes that may share similar expression patterns over time.
http://bioinformatics.bc.edu/clotelab/BTW/

BROP - (Found July 2, 2008 )

The Bioinformatics Resource for Oral Pathogens (BROP) contains tools for genomics of oral pathogens including Genome Viewer, GOAL (genome wide ORF alignment), an oral pathogen microarray database, an entrez counter, oral pathogen specific BLAST, and a codon usage database.
http://brop.org/

BRIGEP - (Found July 2, 2008 )

The BRIDGE-based Genome-Transcriptome-Proteome Browser (BRIGEP) comprises three open-source web-based systems: GenDB, ProDB and EMMA. GenDB is a bacterial genome annotation system, ProDB is a storage and analysis system for mass spectrometry data, and EMMA is a storage and analysis system for transcriptome data.
https://www.cebitec.uni-bielefeld.de/groups/brf/software/brigep/