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Sample GSM208635 Query DataSets for GSM208635
Status Public on Jan 01, 2008
Title Lateral substantia nigra disease-control case MS155 - A chip
Sample type RNA
 
Source name Post-mortem lateral substantia nigra
Organism Homo sapiens
Characteristics age: 80; gender: F
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy Mini Kit (Qiagen) according to the manufacturer's protocol (http://www.qiagen.com). Tissue samples were mechanically disrupted using a rotary homogenizer, lysed in buffer containing guanidine isothiocyanate (GITC) and then further homogenized (Shredder tubes, Qiagen).
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC to a Human Genome 133 A array (HG_U133A; Affymetrix). The GeneChips was washed and stained in an Affymetrix Fluidics Station 400. Standard Affymetrix Protocols were used (Affymetrix GeneChip Expression Analysis Technical Manual, 2001).
Scan protocol Standard Affymetrix protocol (Affymetrix GeneChip Expression Analysis Technical Manual, 2001).
Description Gene expression data from lateral substantia nigra (MS155A)
Data processing CEL files were read using ArrayAssist software (version 4.1, Stratagene) and PathwayStudio 5 (Ariadne). Intensity values were derived applying the (GeneChip) Robust Multi Array (RMA) algorithm.
 
Submission date Jul 09, 2007
Last update date Aug 14, 2011
Contact name Linda B Moran
Organization name Imperial College London
Department Neuropathology
Street address Fulham Palace Road
City London
ZIP/Postal code W6 8RF
Country United Kingdom
 
Platform ID GPL96
Series (1)
GSE8397 Expression profiling of the Parkinsonian Brain

Data table header descriptions
ID_REF probe set name
VALUE RMA-calculated Signal intensity

Data table
ID_REF VALUE
1007_s_at 9.9539211
1053_at 5.12883911
117_at 4.607840437
121_at 6.274252112
1255_g_at 2.840943282
1294_at 4.835925334
1316_at 3.591680353
1320_at 2.694448578
1405_i_at 4.868836167
1431_at 3.15984149
1438_at 2.220027102
1487_at 6.562265507
1494_f_at 4.338860499
1598_g_at 8.030498191
160020_at 3.350144475
1729_at 4.264785226
177_at 3.455466218
1773_at 5.163914632
179_at 5.386581307
1861_at 4.856713126

Total number of rows: 22283

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM208635.cel.gz 3.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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