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Status
Public on Jun 10, 2016
Title
TIMB DNA [25313]
Sample type
genomic
Source name
whole blood
Organism
Canis lupus familiaris Characteristics
breed: Tibetan Mastiff
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
25313
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
25313.Score 25313.Theta 25313.R 25313.B Allele Freq 25313.Log R Ratio
Data table ID_REF VALUE 25313.Score 25313.Theta 25313.R 25313.B Allele Freq 25313.Log R Ratio BICF2G630100019
AB
0.8714491
0.5430732
1.02896
0.4731538
-0.1147533
BICF2G630100032
AB
0.9423809
0.531235
1.432981
0.5079711
0.1430105
BICF2G630100034
BB
0.9264764
0.9852739
1.237353
1
0.1350495
BICF2G630100043
AB
0.8898949
0.639154
1.595455
0.5062969
0.01516575
BICF2G630100054
AB
0.9355912
0.5000651
0.4952673
0.5002694
-0.1584499
BICF2G630100063
AB
0.870317
0.5257462
1.832407
0.4672713
0.1545553
BICF2G630100075
AA
0.8513578
0.0343757
0.618222
0.00
-0.04707786
BICF2G63010009
BB
0.8352656
0.9723477
0.8840716
0.9988383
-0.1569963
BICF2G630100090
BB
0.9588766
0.9883286
1.067203
0.9965169
0.02843895
BICF2G630100094
AB
0.9062778
0.5199134
1.987446
0.4796035
0.1750207
BICF2G63010010
BB
0.788362
0.9693287
0.7637984
1
-0.2794046
BICF2G630100114
BB
0.939804
0.9852552
1.083563
1
0.03283305
BICF2G630100129
AA
0.8625047
0.03057254
1.390542
0.00
0.1063193
BICF2G63010014
NC
0.00
0.194137
0.4197464
0.3898331
-0.8744684
BICF2G630100157
BB
0.9132537
0.9810774
1.216766
1
0.1148582
BICF2G63010018
NC
0.00
0.1369895
0.1982969
0.05645235
-0.9317224
BICF2G63010019
BB
0.7604493
0.9743836
0.402103
1
-0.6518074
BICF2G630100197
BB
0.4489847
0.954052
1.893656
1
0.06389453
BICF2G630100209
AB
0.9577258
0.493876
1.485392
0.4699059
0.09219193
BICF2G630100251
AA
0.942551
0.02444949
1.187935
0.001483864
0.03890878
173662 11107 Kbytes .Supplementary file Size Download File type/resource GSM2195627_3998887042_R02C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195627_3998887042_R02C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
