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Status
Public on Jun 10, 2016
Title
SLOU DNA [24401]
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
24401
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
24401.Score 24401.Theta 24401.R 24401.B Allele Freq 24401.Log R Ratio
Data table ID_REF VALUE 24401.Score 24401.Theta 24401.R 24401.B Allele Freq 24401.Log R Ratio BICF2G630100019
AB
0.8714491
0.5796183
0.9377153
0.5076491
-0.2610906
BICF2G630100032
AA
0.9423809
0.02333131
1.140651
0.000991503
0.08077899
BICF2G630100034
BB
0.9264764
0.9897207
1.261628
1
0.1672039
BICF2G630100043
AA
0.8898949
0.02718608
1.232583
0.004449559
0.0550896
BICF2G630100054
AB
0.9355912
0.537021
0.5446981
0.5393011
0.001218155
BICF2G630100063
AB
0.870317
0.5355919
1.683664
0.4765144
0.026297
BICF2G630100075
AA
0.8513578
0.0429631
0.5949486
0.00
-0.1086253
BICF2G63010009
BB
0.8352656
0.9668965
1.01154
0.9928962
0.02948675
BICF2G630100090
BB
0.9588766
0.9905342
0.9864157
0.998655
-0.08283146
BICF2G630100094
BB
0.9062778
0.9926105
1.367973
0.9947844
0.07566618
BICF2G63010010
BB
0.788362
0.9607248
0.7731659
1
-0.270423
BICF2G630100114
BB
0.939804
0.9778847
1.123451
0.997076
0.0767215
BICF2G630100129
AB
0.8625047
0.4690496
1.497902
0.4657956
-0.02357153
BICF2G63010014
NC
0.00
0.757255
0.55194
1
-0.479475
BICF2G630100157
BB
0.9132537
0.9744287
1.164499
0.9949096
0.04386085
BICF2G63010018
NC
0.00
0.9653616
0.432492
1
-0.1369378
BICF2G63010019
BB
0.7604493
0.9446054
0.3823847
0.9848746
-0.7798944
BICF2G630100197
BB
0.4489847
0.9465426
1.966295
1
0.1078267
BICF2G630100209
BB
0.9577258
0.986406
1.080162
0.994665
0.02785741
BICF2G630100251
AB
0.942551
0.4633794
1.677506
0.462557
0.2669179
173662 11286 Kbytes .Supplementary file Size Download File type/resource GSM2195602_3998887025_R02C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195602_3998887025_R02C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
