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E-GEOD-20163 - Systematic meta-analysis and replication of genome-wide expression studies of Parkinson's disease: 2

Status
Released on 20 January 2011, last updated on 27 March 2012
Organism
Homo sapiens
Samples (17)
Array (1)
Protocols (8)
Description
Systematic meta-analysis and replication of genome-wide expression studies identifies molecular pathways of Parkinson's disease. Examination of substantia nigra from postmortem brains of 8 patients with Parkinson's disease (PD). The substantia nigra samples from 8 PD subjects were obtained from the Human Brain and Spinal Fluid Resource Center, VAMC, Los Angeles, CA, the Mind Unit Brain Bank at the University of Rochester, Rochester, NY, and from Dr. E. Masliah at UCSD, San Diego, CA, and 9 control subjects were obtained from the University of Rochester Alzheimer's Disease Center brain bank. The RNA was extracted using Trizol reagent (Invitrogen), DNAse treated with Qiagen DNAse, and analyzed on a bioanalyzer. The complementary RNA was fragmented and hybridized to Affymetrix human U133A arrays. The total 17 Affymetrix .CEL files were normalized to "all probe sets" in a standardized matter, and scaled to 100 by the MAS5 algorithm implemented in the Bioconductor package.
Experiment type
transcription profiling by array 
Contacts
Bin Zheng <geo@ncbi.nlm.nih.gov>, Clemens R Scherzer, Howard J Federoff, Renee M Miller
Citation
PGC-1α, a potential therapeutic target for early intervention in Parkinson's disease. Zheng B, Liao Z, Locascio JJ, Lesniak KA, Roderick SS, Watt ML, Eklund AC, Zhang-James Y, Kim PD, Hauser MA, Grünblatt E, Moran LB, Mandel SA, Riederer P, Miller RM, Federoff HJ, Wüllner U, Papapetropoulos S, Youdim MB, Cantuti-Castelvetri I, Young AB, Vance JM, Davis RL, Hedreen JC, Adler CH, Beach TG, Graeber MB, Middleton FA, Rochet JC, Scherzer CR, Global PD Gene Expression (GPEX) Consortium. , PMID:20926834
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-20163.idf.txt
Sample and data relationshipE-GEOD-20163.sdrf.txt
Raw data (1)E-GEOD-20163.raw.1.zip
Processed data (1)E-GEOD-20163.processed.1.zip
Array designA-AFFY-33.adf.txt
R ExpressionSetE-GEOD-20163.eSet.r
Links