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Status
Public on Jun 10, 2016
Title
SALU DNA [23361]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Saluki
Extracted molecule
genomic DNA
Extraction protocol
Genomic DNA was extracted from whole blood using Proteinase K and phenol/chloroform with standard protocols.
Label
biotin
Label protocol
200ng of genomic DNA was amplified in an overnight reaction at 37oC. The amplified DNA was enzymatically fragmented, precipitated with isopropanol, and resuspended in hybridization buffer.
Hybridization protocol
Resuspended DNA was loaded onto BeadChips arrays and hybridized overnight at at 48oC. Single-base extension and allele-specific staining was performed by hand.
Scan protocol
After allele-specific staining BeadChip arrays were coated with XC4/ethanol , dried for 1 hour and scanned on a BeadArray Reader (Illumina).
Description
23361
Data processing
Image data was analyzed using GenomeStudio with GT module (Illumina).
Submission date
Jun 09, 2016
Last update date
Jun 10, 2016
Contact name
Dayna Dreger
E-mail(s)
dayna.dreger@nih.gov Organization name
National Institutes of Health
Department
NHGRI
Street address
50 South Drive
City
Bethesda
State/province
MD
ZIP/Postal code
20892
Country
USA
Platform ID
GPL17481 Series (2)
GSE83151 Studies of canine breed development on the island of Sardinia recapitulate genomic features of human population isolates [COO]
GSE83160 Studies of canine breed development on the island of Sardinia recapitulate genomic features of human population isolates
Data table header descriptions ID_REF VALUE genotypes AA, AB, BB, NC=no call
23361.Score 23361.Theta 23361.R 23361.B Allele Freq 23361.Log R Ratio
Data table ID_REF VALUE 23361.Score 23361.Theta 23361.R 23361.B Allele Freq 23361.Log R Ratio BICF2G630100019
AB
0.8714491
0.5763606
1.184926
0.503607
0.07446506
BICF2G630100032
AA
0.9423809
0.03634238
0.9148902
0.01396072
-0.2451584
BICF2G630100034
BB
0.9264764
0.9826158
1.094665
1
-0.04417807
BICF2G630100043
AA
0.8898949
0.02416175
1.038281
0.001983313
-0.1900023
BICF2G630100054
AB
0.9355912
0.5360426
0.6164776
0.5382678
0.1792118
BICF2G630100063
AB
0.870317
0.5553157
1.766367
0.4950311
0.08329103
BICF2G630100075
AB
0.8513578
0.6459936
0.8741145
0.4978981
0.06732587
BICF2G63010009
BB
0.8352656
0.9567378
0.8283929
0.9818225
-0.2731668
BICF2G630100090
AB
0.9588766
0.4333447
1.65924
0.4544836
0.2315489
BICF2G630100094
AB
0.9062778
0.5167918
1.87877
0.4765937
0.09684929
BICF2G63010010
AA
0.788362
0.1239272
0.4521104
0.02741833
-0.7188608
BICF2G630100114
AB
0.939804
0.5619139
1.434341
0.526119
0.02598421
BICF2G630100129
AB
0.8625047
0.4888791
1.817523
0.4869603
0.2456016
BICF2G63010014
NC
0.00
0.8117856
0.4192032
1
-0.8763366
BICF2G630100157
AB
0.9132537
0.4680549
1.751065
0.4803469
0.1686455
BICF2G63010018
NC
0.00
0.0974839
0.3842145
0.02002154
0.06717353
BICF2G63010019
BB
0.7604493
0.952148
0.3076903
0.9913591
-1.079572
BICF2G630100197
AB
0.4489847
0.5103295
2.64581
0.499934
0.03410745
BICF2G630100209
BB
0.9577258
0.9897722
1.109127
0.9982684
0.06949828
BICF2G630100251
AB
0.942551
0.4705561
1.448157
0.4700958
0.05079906
173662 11239 Kbytes .Supplementary file Size Download File type/resource GSM2195597_3998887021_R03C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195597_3998887021_R03C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
