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Status
Public on Jun 10, 2016
Title
SALU DNA [24403]
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
24403
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
24403.Score 24403.Theta 24403.R 24403.B Allele Freq 24403.Log R Ratio
Data table ID_REF VALUE 24403.Score 24403.Theta 24403.R 24403.B Allele Freq 24403.Log R Ratio BICF2G630100019
AA
0.8714491
0.003942509
0.7244034
0.00
-0.2986382
BICF2G630100032
AA
0.9423809
0.01919209
1.232076
0.00
0.194488
BICF2G630100034
BB
0.9264764
0.9822081
1.035122
1
-0.125244
BICF2G630100043
AA
0.8898949
0.02104214
1.250764
0.00
0.08108663
BICF2G630100054
AA
0.9355912
0.02855683
0.5154064
0.008685767
0.04035445
BICF2G630100063
BB
0.870317
0.9677566
1.481068
0.9988545
0.1768881
BICF2G630100075
AB
0.8513578
0.6879595
0.6953285
0.5594569
-0.2543522
BICF2G63010009
BB
0.8352656
0.9734163
1.30611
1
0.407586
BICF2G630100090
BB
0.9588766
0.9927543
0.9077054
1
-0.2004879
BICF2G630100094
AB
0.9062778
0.5065879
1.76205
0.4667552
0.0140203
BICF2G63010010
AB
0.788362
0.6884284
1.004247
0.5618486
-0.141931
BICF2G630100114
BB
0.939804
0.9868472
1.277254
1
0.271887
BICF2G630100129
AA
0.8625047
0.02691102
1.158102
0.00
-0.1554119
BICF2G63010014
NC
0.00
0.5098346
0.5813183
0.8074852
-0.4046579
BICF2G630100157
BB
0.9132537
0.9615787
1.207455
0.981879
0.08143939
BICF2G63010018
NC
0.00
0.08496834
0.4492988
0.008480074
0.3073745
BICF2G63010019
BB
0.7604493
0.9742074
0.4962308
1
-0.3486963
BICF2G630100197
BB
0.4489847
0.955965
2.054615
1
0.1842425
BICF2G630100209
AA
0.9577258
0.0243965
1.162406
0.005561864
-0.001340281
BICF2G630100251
AA
0.942551
0.02420669
1.383557
0.001228817
0.2589991
173662 11209 Kbytes .Supplementary file Size Download File type/resource GSM2195604_3998887025_R04C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195604_3998887025_R04C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
