• Links, Discussion Groups, and Listservs
• Microarray and Gene Expression Databases
• Standard-Setting Bodies
• Microarray Introductions and Tutorials
• Software Tools
• Miscellaneous

Microarray Informatics at the EBI -- Excellent, well-organized collection of microarray resources

Microarrray resources from Bioinformatics.net

Links to microarray resources from the Stanford Microarray Database

Microarray resource list from 123Genomics

DNA Microarrays -- Links to Web sites and papers on microarray technology

DNA Microarray (Genome Chip) -- Marvellous, dense collection of microarray info from Leming Shi

Microarrays.org -- Portal to software and protocols in microarrays

Microarray pages from The Institute for Genome Research -- protocols, projects, images, overview

DNA Microarray Links

Gene Arrays Listserv -- For anyone interested in arrays

Yahoo Microarrays Group (includes messages from Gene Arrays Listserv)

Molecular Informatics Resource for the Analysis of Gene Expression (MIRAGE) -- Remarkable Web effort from the Institute for Transcriptional Informatics (IFTI)

Gene Expression Omnibus -- NCBI data repository for gene expression data for any organism

Array Express -- Database of microarray information from the EBI

Center for Information Biology Gene Expression (CIBEX) Database -- Microarray database effort from the DNA Databank in Japan

Stanford Microarray Database -- Raw and normalized data from array experiments

RNA Abundance Database

Riken cDNA Expression Array Database (READ) -- Includes gene expression data for 49 mouse embryonic and adult tissues using cDNA microarrays

Bodymap -- Searchable databank of expression of human and mouse genes according to tissue type

For data sources for specific model organisms, see our Model Organisms page

Microarray Gene Expression Data (MGED) Society -- International organisation of biologists, computer scientists, and data analysts that aims to facilitate the sharing of microarray data generated by functional genomics and proteomics experiments

Minimum Information About a Microarray Experiment (MIAME) -- Core standard-setting workgroup for microarray data

Microarray Gene Expression Markup Language (MAGE-ML) -- Effort to standardize an XML schema for describing microarray data, to facilitate data exchange between different data systems

External RNA Controls Consortium (ERCC) -- Effort to "produce external RNA spike-in controls that will be useful for sample control on a variety of microarray platforms and by RT-PCR"

NHGRI Microarray Project -- Provides information about microarray database design and development

An Introduction to DNA Microarray Technology -- Excellent introduction to microarrays from EBI

An introduction to gene expression from Kimball's Biology Pages

NCBI's Science Primer has a section on microarray technology

An introduction to the DNA microarray principle from the Transcriptome Platform Web site at the Ecole Normale Supérieure

Animated DNA Microarray Methodology.

Basics of Microarray Data Analysis and Microarray Data Analysis Tutorial are provided by the Keck-UNM Genomics Resource

Build Your Own Arrayer (from Brown Lab, Stanford)

Microarray Protocols (at Microarrays.org) -- Collection of PDFs from Cold Spring Harbor Labs microarray course

Bibliography on Microarray Data Analysis by Wentian Li

Expression Profiler -- Web-based EBI tool for microarray data analysis

Database and data analysis tools at Microarrays.org

TIGR's TM4, a "free, open-source system for microarray data management and analysis"

BioArray Software Environment -- "Comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis"

J-Express -- From the University of Bergen's Department of Informatics, a downloadable Java application for analysis of gene expression data; includes implementation of hierachical clustering, self-organized maps, and principal component analysis

Manchester Bioinformatics Microarray Group -- Developing a number of relational-database and visualization tools for microarrays

Eisen Lab software -- Software for microarray image analysis, cluster analysis, expression profiles, etc.

GeneX -- Collaborative Internet database and toolset for gene expression (NCGR)

Serial Analysis of Gene Expression -- CGAP/NCBI project based on popular tool for generating quantitative gene expression data

Gene expression analysis tool, based on pattern-matching algorithm Tieresias, from the IBM Bioinformatics & Pattern Discovery Group

Yeast Microarray Global Viewer -- Database containing information from yeast genome-wide expression data

GenePublisher -- Web tool for analysis of microarray data

MAExplorer -- for data mining gene expression patterns

TESS -- Transcription element search system, from the University of Pennsylvania, for searching TRANSFAC database

AliBaba2 -- Predicts transcription factor binding sites using TRANSFAC 3.5 information

TRANSFAC -- transcription factor database

Resources on expressed sequence tags (ESTs) -- see our sequence data page

SpliceDB -- Canonical and non-canonical splice site sequences in mammalian genes

PLACE -- A Database of plant Cis-acting regulatory DNA elements

DNA-Binding Protein Full Search -- Search of the nucleic acid database to find protein-DNA structures

ePCR -- Electronic PCR of sequence tagged sites (STS) for a wide variety of organisms, including humans