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Status
Public on Jun 10, 2016
Title
FONN DNA [29857]
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
29857
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
29857.Score 29857.Theta 29857.R 29857.B Allele Freq 29857.Log R Ratio
Data table ID_REF VALUE 29857.Score 29857.Theta 29857.R 29857.B Allele Freq 29857.Log R Ratio BICF2G630100019
BB
0.8714491
0.9876828
0.8963193
1
-0.04795332
BICF2G630100032
AB
0.9423809
0.5135489
1.423815
0.4896321
0.134091
BICF2G630100034
AB
0.9264764
0.5153366
1.641407
0.4898263
0.1741712
BICF2G630100043
BB
0.8898949
0.9794313
1.222195
1
-0.1092426
BICF2G630100054
AA
0.9355912
0.0108494
0.3768512
0.00
-0.4057656
BICF2G630100063
AB
0.870317
0.5587612
1.739827
0.4982657
0.05933093
BICF2G630100075
AA
0.8513578
0.02256628
0.6990983
0.00
0.1388453
BICF2G63010009
AA
0.8352656
0.08028083
0.8777013
0.00
-0.2559134
BICF2G630100090
BB
0.9588766
0.994618
1.169005
1
0.1664435
BICF2G630100094
BB
0.9062778
0.99567
1.356988
0.9981368
0.06770384
BICF2G63010010
BB
0.788362
0.9717543
0.9540427
1
0.04389238
BICF2G630100114
BB
0.939804
0.984475
1.047155
1
-0.01735207
BICF2G630100129
AB
0.8625047
0.477507
1.687551
0.4748224
0.1442039
BICF2G63010014
NC
0.00
0.1533216
0.6121229
0.3023418
-0.330165
BICF2G630100157
BB
0.9132537
0.9854276
1.176456
1
0.07128543
BICF2G63010018
NC
0.00
0.06600048
0.2709353
0.00
-0.4001929
BICF2G63010019
BB
0.7604493
0.9772459
0.4724843
1
-0.4136526
BICF2G630100197
BB
0.4489847
0.9598855
1.745779
1
-0.0452987
BICF2G630100209
AA
0.9577258
0.01309725
1.192243
0.00
0.04210253
BICF2G630100251
AB
0.942551
0.4703238
1.497786
0.4698518
0.09954301
173662 10854 Kbytes .Supplementary file Size Download File type/resource GSM2195634_3998887055_R03C01_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195634_3998887055_R03C01_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
