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Status
Public on Oct 25, 2012
Title
ZR7PXN47
Sample type
genomic
Source name
ZR7PXN47
Organism
Homo sapiens Characteristics
tissue: Normal
Extracted molecule
genomic DNA
Extraction protocol
Acquired from Tissue Solutions Ltd
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
EA09054_0710-05B_GenomeWideSNP_6_ZR7PXN47.birdseed-v2.chp
Data processing
CEL files were generated with GCOS, and further processed using default algorithms for normalization and genotype calling in Affymetrix Genotyping Consol.
Submission date
Jun 15, 2011
Last update date
Oct 25, 2012
Contact name
Joanna Dawn Holbrook
E-mail(s)
Joanna_Holbrook@sics.a-star.edu.sg Organization name
Singapore Institute of Clinical Sciences
Street address
30 Medical Drive
City
Singapore
ZIP/Postal code
117609
Country
Singapore
Platform ID
GPL6801 Series (2)
GSE29996 Deep sequencing of gastric carcinoma reveals somatic mutations relevant to personalized medicine [Affymetrix SNP array data]
GSE29999 Deep sequencing of gastric carcinoma reveals somatic mutations relevant to personalized medicine
Data table header descriptions ID_REF VALUE Genotype Call (SNP call): AA, AB, BB, NC, and NoCall
Confidence strengh of the call (smaller is better)
Signal A Summarized signal for allele A
Signal B Summarized signal for allele B
Data table ID_REF VALUE Confidence Signal A Signal B SNP_A-2131660
AA
0.003
2065.327
469.271
SNP_A-1967418
BB
0.005
337.375
819.005
SNP_A-1969580
BB
0.020
2107.678
5048.430
SNP_A-4263484
AB
0.003
1455.462
1008.132
SNP_A-1978185
AA
0.003
1379.303
356.070
SNP_A-4264431
AA
0.005
1129.224
283.127
SNP_A-1980898
BB
0.001
267.782
886.584
SNP_A-1983139
AA
0.002
1933.082
535.437
SNP_A-4265735
AB
0.025
495.198
549.582
SNP_A-1995832
AB
0.004
1488.280
1311.778
SNP_A-1995893
AB
0.004
1533.444
1631.193
SNP_A-1997689
BB
0.003
601.025
3004.786
SNP_A-1997709
AA
0.001
1507.662
269.149
SNP_A-1997896
AA
0.002
1319.186
501.553
SNP_A-1997922
AB
0.008
513.661
570.112
SNP_A-2000230
AB
0.011
1181.713
1539.019
SNP_A-2000332
AB
0.002
1957.006
1939.534
SNP_A-2000337
AA
0.002
1747.450
301.942
SNP_A-2000342
AA
0.001
2878.308
891.071
SNP_A-4268173
AB
0.005
815.057
657.455
909622 35533 Kbytes .Supplementary file Size Download File type/resource GSM742328.CEL.gz
34.9 Mb
(ftp) (http) CEL
GSM742328.chp.gz
13.2 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
