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Status
Public on Jun 10, 2016
Title
SLOU DNA [24407]
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
24407
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
24407.Score 24407.Theta 24407.R 24407.B Allele Freq 24407.Log R Ratio
Data table ID_REF VALUE 24407.Score 24407.Theta 24407.R 24407.B Allele Freq 24407.Log R Ratio BICF2G630100019
BB
0.8714491
0.9805484
0.8278682
1
-0.1679211
BICF2G630100032
AA
0.9423809
0.02753567
1.172042
0.005182344
0.1174375
BICF2G630100034
BB
0.9264764
0.9820083
1.13755
1
0.01070139
BICF2G630100043
AB
0.8898949
0.6818377
1.705101
0.5690968
0.1412206
BICF2G630100054
AB
0.9355912
0.497625
0.4602982
0.497722
-0.2636173
BICF2G630100063
BB
0.870317
0.9660506
1.389198
0.9967643
0.08283821
BICF2G630100075
AA
0.8513578
0.05869457
0.5222446
0.01240883
-0.3079315
BICF2G63010009
AA
0.8352656
0.0507066
1.0877
0.00
0.09041339
BICF2G630100090
BB
0.9588766
0.9922986
0.9675776
1
-0.1088102
BICF2G630100094
BB
0.9062778
0.9956604
1.267876
0.9981263
-0.03030143
BICF2G63010010
BB
0.788362
0.9767549
0.8186632
1
-0.1718582
BICF2G630100114
BB
0.939804
0.9858233
0.9317405
1
-0.1843114
BICF2G630100129
AB
0.8625047
0.5216839
1.473059
0.5212405
-0.05366517
BICF2G63010014
NC
0.00
0.6913192
0.5361605
1
-0.5213212
BICF2G630100157
BB
0.9132537
0.97414
1.10437
0.9946169
-0.03295637
BICF2G63010018
NC
0.00
0.6998798
0.3868767
0.6185641
-0.3942333
BICF2G63010019
BB
0.7604493
0.9452789
0.3740461
0.9854537
-0.8104702
BICF2G630100197
BB
0.4489847
0.9440174
2.033305
1
0.1527015
BICF2G630100209
AA
0.9577258
0.0154554
1.091436
0.00
-0.08678597
BICF2G630100251
AB
0.942551
0.4120971
1.474363
0.4086877
0.1097374
173662 11221 Kbytes .Supplementary file Size Download File type/resource GSM2195605_3998887025_R05C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195605_3998887025_R05C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
