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Status
Public on Jun 10, 2016
Title
SLOU DNA [24408]
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
24408
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
24408.Score 24408.Theta 24408.R 24408.B Allele Freq 24408.Log R Ratio
Data table ID_REF VALUE 24408.Score 24408.Theta 24408.R 24408.B Allele Freq 24408.Log R Ratio BICF2G630100019
BB
0.8714491
0.9782797
0.864468
1
-0.1072087
BICF2G630100032
AA
0.9423809
0.02528973
1.187393
0.002943631
0.1375503
BICF2G630100034
BB
0.9264764
0.9943257
1.293198
1
0.2071448
BICF2G630100043
AB
0.8898949
0.6990175
1.573409
0.5943732
0.03757896
BICF2G630100054
AA
0.9355912
0.04406193
0.352721
0.02485091
-0.51171
BICF2G630100063
AB
0.870317
0.5368714
1.720629
0.4777156
0.05683547
BICF2G630100075
AA
0.8513578
0.05465205
0.5943067
0.009067091
-0.1185628
BICF2G63010009
AB
0.8080102
0.612824
0.9462585
0.6069328
-0.5016161
BICF2G630100090
BB
0.9588766
0.9883166
1.132249
0.9965053
0.1137832
BICF2G630100094
BB
0.9062778
0.9933321
1.447027
0.995575
0.1575832
BICF2G63010010
BB
0.788362
0.9488856
0.9925934
0.9854962
0.07824497
BICF2G630100114
BB
0.939804
0.9890071
1.058206
1
0.002895344
BICF2G630100129
AA
0.8625047
0.02163796
1.433151
0.00
0.1551249
BICF2G63010014
NC
0.00
0.6341183
0.867795
0.9520742
0.173368
BICF2G630100157
BB
0.9132537
0.9725535
1.298812
0.993008
0.1991916
BICF2G63010018
NC
0.00
0.6463557
0.4893439
0.541086
-0.07395507
BICF2G63010019
BB
0.7604493
0.9588777
0.4779127
0.9971448
-0.4318163
BICF2G630100197
BB
0.4301251
0.8962883
1.944939
0.9450239
0.02450783
BICF2G630100209
AA
0.9577258
0.01657679
1.050616
0.00
-0.1424624
BICF2G630100251
BB
0.942551
0.9758728
0.9546566
0.9922867
-0.1419809
173662 11234 Kbytes .Supplementary file Size Download File type/resource GSM2195606_3998887025_R06C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195606_3998887025_R06C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
