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Status
Public on Jun 10, 2016
Title
AZWK DNA [15369]
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
15369
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
15369.Score 15369.Theta 15369.R 15369.B Allele Freq 15369.Log R Ratio
Data table ID_REF VALUE 15369.Score 15369.Theta 15369.R 15369.B Allele Freq 15369.Log R Ratio BICF2G630100019
BB
0.8714491
0.984549
0.9460798
1
0.02764063
BICF2G630100032
AA
0.9423809
0.02839932
1.113386
0.006043217
0.04285116
BICF2G630100034
BB
0.9264764
0.9842826
1.123444
1
-0.005197034
BICF2G630100043
AA
0.8898949
0.01853373
1.121047
0.00
-0.07488178
BICF2G630100054
AA
0.9355912
0.04915007
0.4005726
0.03015566
-0.3297725
BICF2G630100063
AB
0.870317
0.5272163
1.792189
0.4686514
0.121622
BICF2G630100075
BB
0.8513578
0.9832646
0.8571469
1
0.1235335
BICF2G63010009
BB
0.8352656
0.9789584
0.9002854
1
-0.1212184
BICF2G630100090
AB
0.9588766
0.4377726
1.557604
0.4591958
0.1382815
BICF2G630100094
AB
0.9062778
0.4786928
1.789974
0.4398587
0.06357349
BICF2G63010010
BB
0.788362
0.966526
0.8292376
1
-0.1636196
BICF2G630100114
BB
0.939804
0.9731173
0.8969865
0.9916785
-0.2533795
BICF2G630100129
AA
0.8625047
0.03991092
1.297567
0.007762219
0.001000592
BICF2G63010014
NC
0.00
0.9845787
0.8000762
1
0.05615114
BICF2G630100157
BB
0.9132537
0.9689443
1.158032
0.9893481
0.02954168
BICF2G63010018
NC
0.00
0.9621132
0.4165978
0.9981573
-0.1921766
BICF2G63010019
AB
0.7604493
0.3330537
0.781893
0.4220853
-0.5046883
BICF2G630100197
BB
0.4489847
0.934084
1.71798
0.9886081
-0.1039874
BICF2G630100209
AB
0.9577258
0.5512055
1.504349
0.5287983
0.1160944
BICF2G630100251
AB
0.942551
0.4565864
1.483796
0.4554214
0.09370624
173662 11220 Kbytes .Supplementary file Size Download File type/resource GSM2195590_3998887021_R02C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195590_3998887021_R02C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
