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Status
Public on Jun 10, 2016
Title
AZWK DNA [23342]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Azawahk
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
23342
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
23342.Score 23342.Theta 23342.R 23342.B Allele Freq 23342.Log R Ratio
Data table ID_REF VALUE 23342.Score 23342.Theta 23342.R 23342.B Allele Freq 23342.Log R Ratio BICF2G630100019
AB
0.8714491
0.5110558
1.056949
0.4448609
-0.05877146
BICF2G630100032
AA
0.9423809
0.02543295
1.095622
0.003086389
0.02141701
BICF2G630100034
AB
0.9264764
0.5414466
1.255194
0.5177855
-0.2060258
BICF2G630100043
AB
0.8898949
0.6459923
1.634748
0.5163579
0.05505682
BICF2G630100054
AB
0.9355912
0.4693744
0.6113588
0.4682688
0.1539368
BICF2G630100063
AA
0.870317
0.03621806
1.459107
0.00770266
0.1686111
BICF2G630100075
AA
0.8513578
0.04677577
0.5818113
0.00255619
-0.1435777
BICF2G63010009
BB
0.8352656
0.9670091
1.155714
0.9930189
0.2218793
BICF2G630100090
BB
0.9588766
0.9808375
1.054014
0.9892554
0.002727301
BICF2G630100094
BB
0.9062778
0.9912453
1.319686
0.9932883
0.02218593
BICF2G63010010
BB
0.788362
0.9575144
0.9154377
0.9995313
-0.02993704
BICF2G630100114
BB
0.939804
0.9809634
1.030608
1
-0.0442741
BICF2G630100129
AB
0.8625047
0.4981306
1.608899
0.4968347
0.06512568
BICF2G63010014
NC
0.00
0.6509362
0.9924448
0.9716398
0.3670005
BICF2G630100157
BB
0.9132537
0.9683534
1.045646
0.9887489
-0.1184146
BICF2G63010018
NC
0.00
0.6908038
0.5636587
0.6054263
0.1455272
BICF2G63010019
NC
0.07461984
0.5645194
0.9222454
0.6581075
-0.07740716
BICF2G630100197
BB
0.4489847
0.9447192
1.986098
1
0.1197762
BICF2G630100209
AB
0.9577258
0.5066397
1.446881
0.48253
0.04783567
BICF2G630100251
AA
0.942551
0.03357949
1.28352
0.01107446
0.1443984
173662 11325 Kbytes .Supplementary file Size Download File type/resource GSM2195596_3998887021_R02C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195596_3998887021_R02C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
