Table 1.
Datasets of differentially expressed transcripts in SN and striatum of PD patients and MPTP-treated mice that met the criteria for inclusion
| Species | Gender | Reference (GEO accession) | Cases/controls | Substrate | Microarray platform | FC cutoff (up/down) | Statistics | Number of significant genes |
|---|---|---|---|---|---|---|---|---|
| Human | M/F | Zhang, 2005 [30] | 11/18 | SN | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 26 |
| Human | M/F | Moran, 2006 [31] (GSE8397) | 15/7 | Medial SN | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 600 |
| 15/7 | Medial SN | Affymetrix Human Genome U133B Array | 1.2 | B&H p < 0.05 | 310 | |||
| 9/6 | Lateral SN | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 170 | |||
| 9/6 | Lateral SN | Affymetrix Human Genome U133B Array | 1.2 | B&H p < 0.05 | 95 | |||
| Human | M/F | Cantuti-Castelvetri, 2007 [32] | 8/8 | SN (LCM DA neurons) | Affymetrix Human X3P | 2.0 | SAM q < 0.05 | 31 |
| Human | M/F | Lesnick, 2007 [33] (GSE7621) | 16/9 | SN | Affymetrix Human Genome U133 Plus 2.0 Array | 1.2 | B&H p < 0.05 | 42 |
| Human | M/F | Bossers, 2009 [34] | 4/4 | SN | Agilent 22 k 60mer oligonucleotide array | 1.4 | Bonferoni p < 0.05 | 259 |
| Human | M/F | Zheng, Liao, 2010 [35] (GSE20141) | 10/8 | SN (LCM DA neurons) | Affymetrix Human Genome U133 Plus 2.0 Array | 1.2 | B&H p < 0.05 | 0 |
| (GSE20163) | 8/9 | SN | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 0 | ||
| (GSE20164) | 6/5 | SN | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 0 | ||
| Human | M/F | Elstner, 2011 [36] | 8/9 | SN (LCM DA neurons) | Illumina WG6v1 expression chip | 1.2 | B&H p < 0.05 | 1037 |
| Human | M/F | Diao, 2012 [37] (GSE20333) | 6/6 | SN | Affymetrix Human HG-Focus Target Array | 1.2 | B&H p < 0.05 | 0 |
| Human | M/F | Zhang, 2005 [30] | 15/20 | Putamen | Affymetrix Human Genome U133A Array | 1.2 | B&H p < 0.05 | 1 |
| Human | M/F | Vogt, 2006 [38] | 8/8 | Putamen | Affymetrix Human Genome U133A Array | 2.0 | B-Y p < 0.05 | 78 |
| Human | M/F | Botta-Orfila, 2012 [39] | 5/5 | Putamen | Affymetrix 1.0 Exon | 2.0 | B&H p < 0.05 | 186 |
| Mouse | M | Miller, 2004 [7] (GSE4788) | 24/12 | SN | Affymetrix Murine Genome U74A Array | 1.2 | B&H p < 0.05 | 608 |
| Mouse | F | Pattarini, 2008 [40] | 3/6 | Striatum | Affymetrix Mouse Genome 430 2.0 Arrays | 1.5 | B&H p < 0.05 | 430 |
B&H Benjami and Hochberg, B-Y Benjami-Yekutieli, DA dopamine, F female, FC fold change, GEO gene expression omnibus, M male, LCM laser capture microdissecton, SAM significance analysis of microarrays, SN substantia nigra