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Sample GSM173764 Query DataSets for GSM173764
Status Public on Mar 12, 2007
Title 0395m_hd
Sample type genomic
 
Source name Unaffected biological mother of mentally retarded child 0395c (child).
Organism Homo sapiens
Characteristics Tissue: whole blood
Biomaterial provider Jan M Friedman
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated from whole blood using the Puregen Gentra® DNA Purification Kit following the manufacturer's protocol.
Label Biotin with Streptavidin, R-phycoerythrin conjugate (SAPE).
Label protocol Labeling was performed according to the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com).
 
Hybridization protocol Hybridization, washes and staining were performed as described in the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com). Samples were hybridized to GeneChip® Human Mapping 50K Xba240 or Hind240 arrays in an Affymetrix Hybridization Oven 640. Washes and staining of the arrays were performed with an Affymetrix Fluidics Station 450.
Scan protocol Array images were obtained using an Affymetrix GeneChip® Scanner 3000, as described in the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com).
Description 50K Hind Array data
Data processing Mapping algorithm settings: Gtype(dm) heterozygote call threshold= 0.25, homozygote call threshold=0.25
 
Submission date Mar 08, 2007
Last update date Mar 12, 2007
Contact name BCGSC BC Cancer Agency
E-mail(s) support@mouseatlas.org
Organization name Canada's Michael Smith Genome Sciences Centre
Department Gene Expression
Lab Marco Marra
Street address 675 West 10th Avenue
City Vancouver
State/province BC
ZIP/Postal code V5Z 1L3
Country Canada
 
Platform ID GPL2004
Series (1)
GSE7226 Oligonucleotide microarray analysis of genomic imbalance in children with mental retardation.

Data table header descriptions
ID_REF
VALUE Genotypes: AA, AB, BB, No Call
CONFIDENCE
RAS1 Relative allele signal for the data in the first probe group
RAS2 Relative allele signal for the data in the second probe group
P-VALUE AA
P-VALUE AB
P-VALUE BB
P-VALUE NO CALL

Data table
ID_REF VALUE CONFIDENCE RAS1 RAS2 P-VALUE AA P-VALUE AB P-VALUE BB P-VALUE NO CALL
AFFX-5Q-123 No Call 0 0 0 0 0 0 0
AFFX-5Q-456 No Call 0 0 0 0 0 0 0
AFFX-5Q-789 No Call 0 0 0 0 0 0 0
AFFX-5Q-ABC No Call 0 0 0 0 0 0 0
AFFX-barcodeA No Call 0 0 0 0 0 0 0
AFFX-barcodeB No Call 0 0 0 0 0 0 0
AFFX-barcodeC No Call 0 0 0 0 0 0 0
AFFX-barcodeD No Call 0 0 0 0 0 0 0
AFFX-barcodeE No Call 0 0 0 0 0 0 0
AFFX-barcodeF No Call 0 0 0 0 0 0 0
AFFX-barcodeG No Call 0 0 0 0 0 0 0
AFFX-barcodeH No Call 0 0 0 0 0 0 0
AFFX-barcodeI No Call 0 0 0 0 0 0 0
AFFX-barcodeJ No Call 0 0 0 0 0 0 0
AFFX-barcodeK No Call 0 0 0 0 0 0 0
AFFX-barcodeL No Call 0 0 0 0 0 0 0
AFFX-barcodeM No Call 0 0 0 0 0 0 0
AFFX-barcodeN No Call 0 0 0 0 0 0 0
AFFX-barcodeO No Call 0 0 0 0 0 0 0
AFFX-barcodeP No Call 0 0 0 0 0 0 0

Total number of rows: 57299

Table truncated, full table size 4842 Kbytes.




Supplementary file Size Download File type/resource
GSM173764.CEL.gz 12.7 Mb (ftp)(http) CEL

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