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The database is derived from two sets of brain samples, the Stanley Array collection
and the Stanley Consortium collection.
The two collections are described in more detail here.
The Stanley Array collection contains 105 patients, and the Stanley Consortium collection contains 60 patients.
Multiple genomic studies have been conducted using these brain samples. From these studies, twelve were selected for inclusion in the database on the basis of number of patients studied, genomic platform used, and data quality. The Consortium collection studies have fewer patients but more diversity in brain regions and array platforms, while the Array collection studies are more homogenous. There are tradeoffs, the Consortium results will be more variable, but findings may be more broadly representative.
The collections contain brain samples from subjects in four main groups:
Brain regions used in the studies include:
The 12 studies encompass a range of microarray platforms:
| Platform | Studies | Probes | Total Samples |
|---|---|---|---|
| Affymetrix HG-U95Av2 | 3 | 12,000 | 193 |
| Affymetrix HG-U133A | 4 | 22,000 | 373 |
| Affymetrix HG-U133 2.0+ | 2 | 54,000 | 113 |
| Codelink Human 20K | 1 | 20,000 | 95 |
| Agilent Human I | 1 | 15,000 | 100 |
| Custom cDNA | 1 | 16,000 | 105 |