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Status
Public on Jun 10, 2016
Title
SLOU DNA [23547]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Sloughi
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
23547
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
23547.Score 23547.Theta 23547.R 23547.B Allele Freq 23547.Log R Ratio
Data table ID_REF VALUE 23547.Score 23547.Theta 23547.R 23547.B Allele Freq 23547.Log R Ratio BICF2G630100019
BB
0.8714491
0.975876
0.9361048
0.9993126
0.005850837
BICF2G630100032
AA
0.9423809
0.02921164
1.050238
0.006852916
-0.04187054
BICF2G630100034
BB
0.9264764
0.9850417
1.179443
1
0.0656827
BICF2G630100043
AA
0.8898949
0.03025852
1.043547
0.006955038
-0.1875302
BICF2G630100054
AA
0.9355912
0.04383357
0.3851514
0.02461283
-0.3847404
BICF2G630100063
AB
0.870317
0.5549669
1.566114
0.4947036
-0.09009026
BICF2G630100075
AA
0.8513578
0.04512112
0.7616002
0.001188377
0.2460927
BICF2G63010009
AB
0.8352656
0.5013027
1.193094
0.4843453
-0.2555524
BICF2G630100090
BB
0.9588766
0.9894419
1.087849
0.9975961
0.05724182
BICF2G630100094
BB
0.9062778
0.9957533
1.344162
0.9982281
0.05410298
BICF2G63010010
AB
0.788362
0.6624041
1.118883
0.5195187
-0.007661583
BICF2G630100114
BB
0.939804
0.9688466
1.101956
0.9868432
0.0387787
BICF2G630100129
AB
0.8625047
0.5012211
1.673786
0.5001288
0.1207628
BICF2G63010014
NC
0.00
0.6334263
1.041339
0.9512691
0.4363815
BICF2G630100157
BB
0.9132537
0.9658319
1.140614
0.9861919
0.004123577
BICF2G63010018
NC
0.00
0.64088
0.5093848
0.5331597
-0.01794715
BICF2G63010019
BB
0.7604493
0.965595
0.663609
1
0.05434348
BICF2G630100197
BB
0.4489847
0.9462385
1.967038
1
0.1079534
BICF2G630100209
BB
0.9577258
0.9969321
1.096025
1
0.05975093
BICF2G630100251
AB
0.942551
0.4861954
1.551312
0.4865241
0.1413516
173662 11263 Kbytes .Supplementary file Size Download File type/resource GSM2195599_3998887021_R05C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195599_3998887021_R05C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
