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Status
Public on Jun 10, 2016
Title
SALU DNA [23362]
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
23362
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
23362.Score 23362.Theta 23362.R 23362.B Allele Freq 23362.Log R Ratio
Data table ID_REF VALUE 23362.Score 23362.Theta 23362.R 23362.B Allele Freq 23362.Log R Ratio BICF2G630100019
BB
0.8714491
0.975373
1.088279
0.9986885
0.2227807
BICF2G630100032
AA
0.9423809
0.02485671
0.8903481
0.002511994
-0.2775475
BICF2G630100034
BB
0.9264764
0.9794797
0.7997581
0.9982293
-0.499929
BICF2G630100043
AB
0.8898949
0.7232715
1.246266
0.6300577
-0.2811253
BICF2G630100054
BB
0.9355912
0.9600459
0.2770584
0.9860871
-0.689038
BICF2G630100063
AB
0.870317
0.5866951
1.272063
0.5319623
-0.3734749
BICF2G630100075
AA
0.8513578
0.03295384
0.4475192
0.00
-0.5122262
BICF2G63010009
BB
0.8352656
0.9619383
1.055953
0.9874914
0.08438978
BICF2G630100090
BB
0.9588766
0.9871671
0.9147933
0.995391
-0.1950855
BICF2G630100094
BB
0.9062778
0.9878222
1.473937
0.9895375
0.1775762
BICF2G63010010
BB
0.788362
0.9598461
1.057946
1
0.1811175
BICF2G630100114
BB
0.939804
0.9791051
1.148579
0.9984578
0.1099991
BICF2G630100129
AA
0.8625047
0.02241751
1.438027
0.00
0.1595654
BICF2G63010014
NC
0.00
0.6054571
0.909586
0.9187304
0.2412238
BICF2G630100157
BB
0.9132537
0.9727905
1.161282
0.9932483
0.03798926
BICF2G63010018
NC
0.00
0.5637233
0.6726305
0.4499731
0.4199125
BICF2G63010019
BB
0.7604493
0.9635986
0.5287035
1
-0.2772794
BICF2G630100197
BB
0.4489847
0.9316216
2.01815
0.9857686
0.1249872
BICF2G630100209
AA
0.9577258
0.01662125
1.347846
0.00
0.2169317
BICF2G630100251
AB
0.942551
0.4505248
1.292546
0.449054
-0.1019584
173662 11148 Kbytes .Supplementary file Size Download File type/resource GSM2195598_3998887021_R04C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195598_3998887021_R04C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
