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Status
Public on Jun 10, 2016
Title
FONN DNA [29860]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Fonni's Dog
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
29860
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
29860.Score 29860.Theta 29860.R 29860.B Allele Freq 29860.Log R Ratio
Data table ID_REF VALUE 29860.Score 29860.Theta 29860.R 29860.B Allele Freq 29860.Log R Ratio BICF2G630100019
BB
0.8714491
0.9862162
0.9434384
1
0.02485948
BICF2G630100032
AB
0.9423809
0.5485486
1.346719
0.5269159
0.06495306
BICF2G630100034
AB
0.9264764
0.5265917
1.694253
0.5014923
0.2160439
BICF2G630100043
AA
0.8898949
0.008043738
1.162493
0.00
-0.01413835
BICF2G630100054
AB
0.9355912
0.5304183
0.3793653
0.5323275
-0.5246819
BICF2G630100063
BB
0.870317
0.9789805
1.11778
1
-0.2181171
BICF2G630100075
AB
0.8513578
0.5795808
0.8250095
0.4429982
0.02110604
BICF2G63010009
BB
0.8352656
0.982076
0.6650493
1
-0.5536098
BICF2G630100090
AB
0.9588766
0.4458855
1.618874
0.4678298
0.1901523
BICF2G630100094
AB
0.9062778
0.5498694
1.963685
0.5096451
0.1454852
BICF2G63010010
AA
0.788362
0.06444472
0.6133395
0.00
-0.1911469
BICF2G630100114
AB
0.939804
0.4955919
1.185941
0.457509
-0.2459391
BICF2G630100129
AB
0.8625047
0.448834
1.777238
0.4442188
0.2332406
BICF2G63010014
NC
0.00
0.1970577
0.5163019
0.3960937
-0.5757714
BICF2G630100157
AB
0.9132537
0.4413938
1.631334
0.4517564
0.08078696
BICF2G63010018
NC
0.00
0.05202729
0.2888646
0.00
-0.2912026
BICF2G63010019
BB
0.7604493
0.9361126
0.3167861
0.9775732
-1.066868
BICF2G630100197
AB
0.4489847
0.4647478
2.520564
0.4243568
-0.02274873
BICF2G630100209
AA
0.9577258
0.01577848
1.35962
0.00
0.2299927
BICF2G630100251
AA
0.942551
0.01291216
0.9307951
0.00
-0.3051911
173662 10872 Kbytes .Supplementary file Size Download File type/resource GSM2195637_3998887055_R06C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195637_3998887055_R06C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
