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Status |
Public on Apr 16, 2009 |
Title |
diffuse astrocytoma 9 |
Sample type |
genomic |
|
|
Source name |
diffuse astrocytoma
|
Organism |
Homo sapiens |
Characteristics |
pathology: diffuse astrocytoma site: cerebral cortex age: 9 yrs gender: F
|
Extracted molecule |
genomic DNA |
Extraction protocol |
DNA was extracted from fresh frozen tissue using the QIAamp DNA mini kit (Qiagen, Crawley, UK).
|
Label |
Biotin
|
Label protocol |
As per manufacturer (Affymetrix).
|
|
|
Hybridization protocol |
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
|
Scan protocol |
The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
|
Description |
Hybridized to 250K_Nsp
|
Data processing |
CHP files generated by Affymetrix GTYPE using the DM algorithm.
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|
|
Submission date |
Feb 23, 2009 |
Last update date |
Apr 15, 2009 |
Contact name |
Tim Forshew |
E-mail(s) |
t.forshew@qmul.ac.uk
|
Phone |
02078822597
|
Organization name |
Queen Mary's School of Medicine and Dentistry
|
Department |
Centre for Neuroscience
|
Street address |
4 Newark Street
|
City |
London |
ZIP/Postal code |
E1 2AT |
Country |
United Kingdom |
|
|
Platform ID |
GPL3718 |
Series (1) |
GSE14960 |
Affymetrix SNP array data for low-grade astrocytoma samples |
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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: 262338
Table truncated, full table size 20574 Kbytes.
Supplementary file |
Size |
Download |
File type/resource |
GSM373541.CEL.gz |
24.3 Mb |
(ftp)(http) |
CEL |
GSM373541.CHP.gz |
512.7 Kb |
(ftp)(http) |
CHP |
Processed data included within Sample table |
Processed data provided as supplementary file |
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