Bioinformatics Links Directory : Microarrays

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

GoMiner - (Found July 2, 2008 )

GoMiner organizes and allows the visualization of large sets of genes based on Gene Ontology classifications.
http://discover.nci.nih.gov/gominer/

Microarray Gene Expression Database - (Found July 2, 2008 )

Group facilitating the development of an international repository for gene expression data and the experimental and database standards required for such an endeavour.
http://www.mged.org

MIDAW - (Found July 2, 2008 )

MIDAW (MIcroarray Data Analysis Web tool) is a data normalization and analysis tool for microarray data.
http://muscle.cribi.unipd.it:2701/

NHGRI Micorarray Project - (Found July 2, 2008 )

Protocols, analysis and resources; BLAST against the 15K set cDNA library clones (from 15,000 human UniGene clusters; clones are available).
http://www.nhgri.nih.gov/DIR/Microarray/main.html

VisANT - (Found July 2, 2008 )

VisANT is an integrative visual analysis tool for biological networks and pathways that contains modules for querying and integrating KEGG pathways with expression data. VisANT is java-based, and can be run as a java applet, as a java web application, or downloaded and run locally.
http://visant.bu.edu/

VAMPIRE - (Found July 2, 2008 )

VAMPIRE is a collection of Java tools designed to perform Bayesian statistical analysis of gene expression array data.
http://genome.ucsd.edu/VAMPIRE/

T-profiler - (Found July 2, 2008 )

T-profiler is a tool for the analysis of gene expression data from yeast that uses the t-test to score changes in the average activity of pre-defined groups of genes.
http://www.t-profiler.org/

Stanford Microarray Database (SMD) - (Found July 2, 2008 )

SMD stores raw and normalized data from microarray experiments, as well as their corresponding image files. In addition, SMD provides interfaces for data retrieval, analysis and visualization.
http://genome-www5.stanford.edu/

ScanAlyze, Cluster, TreeView - (Found July 2, 2008 )

Eisen Lab software for microarry image processing, analysis and visualization; available for download to windows platforms only; free with registration for non-commercial use.
http://rana.lbl.gov/EisenSoftware.htm

Resourcerer - (Found July 2, 2008 )

Tool for cross-referencing microarray data derived from different species and across different expression analysis platforms. Built using the analysis of ESTs, the TIGR Gene Index (TGI), and Eukaryotic Gene Orthologs (EGO) databases.
http://www.tigr.org/tigr-scripts/magic/r1.pl