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Status
Public on Jun 10, 2016
Title
CIRN DNA [26635]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Cirneco dell'Etna
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
26635
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
26635.Score 26635.Theta 26635.R 26635.B Allele Freq 26635.Log R Ratio
Data table ID_REF VALUE 26635.Score 26635.Theta 26635.R 26635.B Allele Freq 26635.Log R Ratio BICF2G630100019
BB
0.8714491
0.9837231
0.864279
1
-0.1034441
BICF2G630100032
AA
0.9423809
0.01237046
1.025155
0.00
-0.06667458
BICF2G630100034
BB
0.9264764
0.9886229
1.083547
1
-0.0533406
BICF2G630100043
AA
0.8898949
0.01820449
0.9781107
0.00
-0.2713972
BICF2G630100054
AA
0.9355912
0.01375848
0.4644713
0.00
-0.1050922
BICF2G630100063
BB
0.870317
0.9750338
1.223786
1
-0.09127911
BICF2G630100075
AA
0.8513578
0.02655144
0.5960866
0.00
-0.09401978
BICF2G63010009
BB
0.8352656
0.9814387
0.9987144
1
0.03207399
BICF2G630100090
BB
0.9588766
0.9966075
1.094591
1
0.0736351
BICF2G630100094
BB
0.9062778
0.99968
1.314847
1
0.02701589
BICF2G63010010
BB
0.788362
0.9820572
0.9795268
1
0.09231277
BICF2G630100114
AA
0.939804
0.01882613
1.157548
0.00
-0.0157308
BICF2G630100129
BB
0.8625047
0.9864836
1.276329
1
-0.01587138
BICF2G63010014
NC
0.00
0.766323
0.5426291
1
-0.5040199
BICF2G630100157
AA
0.9132537
0.01685063
1.322979
0.00
0.02812932
BICF2G63010018
NC
0.00
0.07121672
0.2926567
0.00
-0.2950598
BICF2G63010019
BB
0.7604493
0.9674276
0.3868099
1
-0.7209163
BICF2G630100197
AA
0.4489847
0.1757683
2.582775
0.00
0.09841141
BICF2G630100209
BB
0.9577258
0.9940146
1.076425
1
0.03069946
BICF2G630100251
BB
0.942551
0.993269
0.9176877
1
-0.1808546
173662 10819 Kbytes .Supplementary file Size Download File type/resource GSM2195633_3998887055_R02C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195633_3998887055_R02C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
