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Status
Public on Jun 10, 2016
Title
SALU DNA [22848]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Saluki
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
22848
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
22848.Score 22848.Theta 22848.R 22848.B Allele Freq 22848.Log R Ratio
Data table ID_REF VALUE 22848.Score 22848.Theta 22848.R 22848.B Allele Freq 22848.Log R Ratio BICF2G630100019
AB
0.8714491
0.5617622
1.211622
0.4896687
0.1110182
BICF2G630100032
AA
0.9423809
0.03582268
1.090731
0.01344269
0.008775842
BICF2G630100034
BB
0.9264764
0.9831544
1.122819
1
-0.007043949
BICF2G630100043
AA
0.8898949
0.02152384
1.113816
0.00
-0.08659402
BICF2G630100054
BB
0.9355912
0.9606513
0.4111765
0.9867264
-0.1190194
BICF2G630100063
AB
0.870317
0.554908
1.762332
0.4946484
0.08024225
BICF2G630100075
AA
0.8513578
0.04689174
0.6427231
0.002652055
-1.496257E-05
BICF2G63010009
BB
0.8352656
0.9558555
0.9169977
0.9808608
-0.1278152
BICF2G630100090
BB
0.9588766
0.9872569
0.9821439
0.995478
-0.09250342
BICF2G630100094
BB
0.9062778
0.9858063
1.382082
0.9873286
0.08234122
BICF2G63010010
AA
0.788362
0.1051829
0.6329013
0.01059284
-0.2064891
BICF2G630100114
BB
0.939804
0.9722759
0.9479606
0.9907259
-0.1745758
BICF2G630100129
AA
0.8625047
0.04470835
1.384397
0.01288267
0.09164231
BICF2G63010014
NC
0.00
0.1671443
0.6062049
0.331972
-0.3441809
BICF2G630100157
AB
0.9132537
0.4371635
1.470609
0.44722
-0.06656543
BICF2G63010018
NC
0.00
0.9652276
0.4432065
1
-0.1016826
BICF2G63010019
BB
0.7604493
0.9488009
0.4842233
0.9884816
-0.4315489
BICF2G630100197
BB
0.4489847
0.9444912
1.886423
1
0.04517923
BICF2G630100209
AA
0.9577258
0.01230941
1.142547
0.00
-0.01884135
BICF2G630100251
AB
0.942551
0.4777749
1.590228
0.4776788
0.1817836
173662 11331 Kbytes .Supplementary file Size Download File type/resource GSM2195592_3998887021_R04C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195592_3998887021_R04C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
