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Status
Public on Jun 10, 2016
Title
AZWK DNA [23341]
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
23341
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
23341.Score 23341.Theta 23341.R 23341.B Allele Freq 23341.Log R Ratio
Data table ID_REF VALUE 23341.Score 23341.Theta 23341.R 23341.B Allele Freq 23341.Log R Ratio BICF2G630100019
BB
0.8714491
0.9802288
0.9223214
1
-0.01229196
BICF2G630100032
AA
0.9423809
0.02565283
1.077699
0.003305558
-0.002510119
BICF2G630100034
BB
0.9264764
0.9812027
1.123083
1
-0.008508601
BICF2G630100043
AA
0.8898949
0.02028459
1.062255
0.00
-0.153991
BICF2G630100054
AA
0.9355912
0.02526241
0.4264339
0.005251112
-0.2319947
BICF2G630100063
BB
0.870317
0.9682031
1.382527
0.9994017
0.07799408
BICF2G630100075
AB
0.8513578
0.5656672
0.7761467
0.4314964
-0.05906061
BICF2G63010009
BB
0.8352656
0.9641935
1.010893
0.9899497
0.02469533
BICF2G630100090
AB
0.9588766
0.4505953
1.607675
0.472842
0.177942
BICF2G630100094
AB
0.9062778
0.5365874
1.714326
0.4956806
-0.05394116
BICF2G63010010
AA
0.788362
0.06710359
0.7797351
0.00
0.1511149
BICF2G630100114
AB
0.939804
0.5266324
1.521528
0.4880029
0.09786399
BICF2G630100129
AB
0.8625047
0.5085011
1.762045
0.5076396
0.1984028
BICF2G63010014
NC
0.00
0.4519386
1.01056
0.7401303
0.3930962
BICF2G630100157
AB
0.9132537
0.4851645
1.582784
0.4986946
0.01375935
BICF2G63010018
NC
0.00
0.9580013
0.5207371
0.992205
0.1281797
BICF2G63010019
BB
0.7604493
0.9680473
0.686866
1
0.1086559
BICF2G630100197
AB
0.4489847
0.5238731
2.803648
0.515572
0.1308767
BICF2G630100209
BB
0.9577258
0.9875203
1.066551
0.9958578
0.01070856
BICF2G630100251
AA
0.942551
0.02543261
1.178556
0.00251658
0.02680776
173662 11146 Kbytes .Supplementary file Size Download File type/resource GSM2195595_3998887021_R01C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195595_3998887021_R01C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
