Table 1.
Human Gene Expression Databases
| Web site | URL | Tissues | Description |
| ArrayExpress Database | www.ebi.ac.uk/arrayexpress | Pending | Planned public repository of microarray data |
| Body Map | bodymap.ims.u-tokyo.ac.jp | Various normal and tumor | Based on EST sequencing of ∼3000 reads each from 60 tissues |
| Brown Lab | cmgm.stanford.edu/pbrown | Cultured fibroblasts and B-cell lymphoma | Custom cDNA array data and supplemental information |
| CGAP cDNA xProfiler | www.ncbi.nlm.nih. gov/ncicgap/cgapxpsetup.cgi | Most normal and tumor tissues | Can search for cDNA library specific transcripts based on EST sequencing; most extensive profile |
| CGAP SAGEmap | www.ncbi.nlm.nih.gov/SAGE | Brain, colon ovary, prostate and breast; tumor and normal | Ongoing SAGE expression analysis of cancer; ∼50,000 tags from each of 68 tissues and cell lines |
| Developmental Therapeutics | www.dtp.nci.nih.gov | NCI panel of 60 cancer cell lines | Microarray and drug response data for NCI60 cell lines |
| Gene Expression Omnibus (GEO) | www.ncbi.nlm.nih.gov/geo | Pending | Future public repository and comparison interface for all types of expression data |
| Human Gene Expression Index (HuGE) | www.hugeindex.org | Normal blood, kidney, cervix and vulva | Affymetrix chip based database, expanding to cover many normal tissues |
| Prostate Expression Database | chroma.mbt.washington.edu/PEDB | Prostate normal, premalignant, and cancer | Expression based on 60,000 ESTs in an easily queried interface |
| SAGEnet (Kinzler-Vogelstein Lab) | www.sagenet.org | Normal colon, colon, and pancreas cancer | Over 400,000 SAGE transcript tags in downloadable files for local analysis |
| Genexpress-CNRS | idefix.upr420.vjf.cnrs.fr/EXPR/ | Brain, muscle, and other normals | 5058 brain- or muscle-derived genes probed by filter array |
| TIGR Human Gene Index | www.tigr.org/tdb/hgi/hgi.html | Most normal tissues | Has query interface for tissue-specific ESTs |
| Whitehead/MIT Genome Center's Molecular Pattern Recognition Web site | waldo.wi.mit.edu/MPR | Leukemias and hematopoeitic cell lines | Affymetrix based array data available for download |
