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Status
Public on Dec 01, 2012
Title
Whole blood 77
Sample type
genomic
Source name
Whole blood
Organism
Homo sapiens Characteristics
gender: F
Extracted molecule
genomic DNA
Extraction protocol
Extraction of genomic DNA from whole blood with Gentra Puregene Blood Kit (QIAGEN)
Label
Biotin-NTP
Label protocol
Standard Illumina protocol for HumanOmniExpress and HumanOmni2.5-Quad Beadchips
Hybridization protocol
Standard Illumina protocol for HumanOmniExpress and HumanOmni2.5-Quad Beadchips
Scan protocol
Standard Illumina protocol for HumanOmniExpress and HumanOmni2.5-Quad Beadchips
Description
sample id: 4235
Data processing
Genomic DNA extracted from whole blood was genotyped using Illumina HumanOmniExpress_12v1 and HumanOmni2.5-Quad_4v1 Beadchips
Submission date
Sep 30, 2012
Last update date
Dec 01, 2012
Contact name
Boyko Kabakchiev
Organization name
Mount Sinai Hospital
Department
Samuel Lunenfeld Research Institute
Lab
Silverberg Lab
Street address
60 Murray Street, Room L3-004
City
Toronto
State/province
Ontario
ZIP/Postal code
M5T 3L9
Country
Canada
Platform ID
GPL13135 Series (2)
GSE41238 eQTL Analysis Identifies Novel Associations Between Genotype and Gene Expression in the Human Intestine (Illumina SNP)
GSE41269 eQTL Analysis Identifies Novel Associations Between Genotype and Gene Expression in the Human Intestine
Data table header descriptions ID_REF VALUE SNP Calls
Top Geno HumanOmniExpress_12v1: Top Geno in NN format where N equals A, T, C, G, - ; HumanOmni2.5-Quad_4v1: Top Alleles in NN format where N equals A, T, C, G, -
Theta R X Raw Y Raw X Y B Allele Freq Log R Ratio
Data table ID_REF VALUE Top Geno Theta R X Raw Y Raw X Y B Allele Freq Log R Ratio rs1000000
BB
GG
0.988
1.458
363
19729
0.027
1.431
0.9976
-0.0613
rs1000002
NC
NC
0.020
1.003
10105
503
0.972
0.030
0.0000
-0.0362
rs10000023
AA
AA
0.015
1.795
18559
649
1.753
0.042
0.0000
-0.1682
rs1000003
AB
AG
0.478
1.161
6306
7624
0.601
0.560
0.5253
-0.2382
rs10000030
NC
NC
0.972
0.625
298
7629
0.027
0.598
0.9977
0.0657
rs10000037
BB
GG
0.976
0.847
346
10414
0.030
0.817
1.0000
-0.0933
rs10000041
AA
AA
0.019
1.531
13867
674
1.486
0.045
0.0000
-0.1688
rs10000042
BB
GG
0.977
0.852
362
11343
0.030
0.822
1.0000
-0.0121
rs10000049
AA
AA
0.023
1.333
15159
818
1.286
0.047
0.0007
0.1751
rs1000007
AA
AA
0.007
1.283
11848
256
1.269
0.014
0.0000
0.0228
rs10000073
AA
AA
0.012
0.970
11217
348
0.952
0.018
0.0000
-0.1994
rs10000081
AA
AA
0.025
0.793
8085
453
0.763
0.030
0.0000
-0.3241
rs10000092
AA
AA
0.015
0.701
7258
263
0.685
0.017
0.0000
-0.1578
rs10000105
BB
GG
0.982
1.222
518
17661
0.034
1.189
1.0000
0.1481
rs10000119
BB
GG
0.984
1.359
420
18283
0.033
1.326
1.0000
0.1321
rs10000124
BB
CC
0.986
1.256
363
16936
0.028
1.228
1.0000
-0.1489
rs10000154
AA
AA
0.018
0.838
8639
349
0.815
0.022
0.0000
0.0585
rs1000016
AA
AA
0.023
0.584
5270
301
0.564
0.021
0.0000
-0.3101
rs10000160
BB
GG
0.971
0.695
362
9168
0.030
0.664
1.0000
-0.1892
rs10000169
AA
AA
0.024
1.382
14110
742
1.332
0.050
0.0000
0.2782
730525 46128 Kbytes .Supplementary data files not provided Processed data included within Sample table
