| Analysis Tools |
| Image Analysis |
- Array Pro - http://www.mediacy.com/arraypro.htm
- MicroVigene - http://www.vigenetech.com/
- ImageQuant - http://www.amersham.com/
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| Statistical Analysis, Grouping, Filtering |
- DIANE 1.0 Software - (pdf)
- Cluster-Tree View - http://rana.lbl.gov/EisenSoftware.htm
- Self Organizing Maps - http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=10077610
- SAM: Significance Analysis of Microarrays - http://www-stat.stanford.edu/%7etibs/SAM/index.html
- PAM: Prediction Analysis for Microarrays - http://www-stat.stanford.edu/%7etibs/PAM/index.html
- SNOMAD - http://pevsnerlab.kennedykrieger.org/snomad.htm
- TIGR Programs - http://www.tigr.org/software/
- MAE Explorer - http://www-lecb.ncifcrf.gov/MaeRefMan/hmaeHome.html
- BRB Array Tools - http://linus.nci.nih.gov/BRB-ArrayTools.html
- Gene Spring - http://www.chem.agilent.com/scripts/pds.asp?lpage=27881
- GeneSight - http://www.biodiscovery.com/
- Spotfire - http://www.spotfire.com/
- Partek - http://www.partek.com/
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| Literature Mining, Pathway Analysis, Disease Relevance, Annotation Updating, Public Microarray Databases, and Biological Context |
- PubMatrix - http://pubmatrix.grc.nia.nih.gov/
- MedMiner - http://discover.nci.nih.gov/textmining/main.jsp
- PubGene - http://www.pubgene.org/
- GAD: Genetic Association Database - http://geneticassociationdb.nih.gov/
- GO Tree Machines - http://genereg.ornl.gov/gotm/
- DAVID/EASE - http://david.niaid.nih.gov/David/upload.asp
- SOURCE Batch Annotation Update - http://genome-www5.stanford.edu/cgi-bin/source/sourceBatchSearch
- NCBI GEO: Gene Expression Omnibus - http://www.ncbi.nlm.nih.gov/geo/
- EBI Array Express - http://www.ebi.ac.uk/arrayexpress/
- MIAME Protocols - http://www.mged.org/Workgroups/MIAME/miame.html
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- Microarray Groups Interested in Membrane Based Arrays - http://www.grc.nia.nih.gov/branches/rrb/dna/index/mbarrays2.htm
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