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Status
Public on Jun 10, 2016
Title
FONN DNA [29862]
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
29862
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
29862.Score 29862.Theta 29862.R 29862.B Allele Freq 29862.Log R Ratio
Data table ID_REF VALUE 29862.Score 29862.Theta 29862.R 29862.B Allele Freq 29862.Log R Ratio BICF2G630100019
BB
0.8714491
0.9809734
0.9558572
1
0.03979141
BICF2G630100032
AA
0.9423809
0.01625173
1.116879
0.00
0.05462916
BICF2G630100034
BB
0.9264764
0.9878133
1.160743
1
0.04519556
BICF2G630100043
AB
0.8898949
0.6684452
1.759053
0.5493926
0.1766299
BICF2G630100054
AA
0.9355912
0.01763884
0.4170277
0.00
-0.2617654
BICF2G630100063
AB
0.870317
0.5447577
1.692289
0.4851193
0.02799287
BICF2G630100075
AA
0.8513578
0.02317424
0.652336
0.00
0.03852369
BICF2G63010009
BB
0.8352656
0.9875685
0.883308
1
-0.1361391
BICF2G630100090
AB
0.9588766
0.4840257
1.651673
0.5076688
0.2110748
BICF2G630100094
AB
0.9062778
0.5523098
1.93535
0.5123193
0.1266556
BICF2G63010010
AA
0.788362
0.06340014
0.622376
0.00
-0.1684576
BICF2G630100114
AB
0.939804
0.504141
1.368283
0.4659075
-0.04394171
BICF2G630100129
AB
0.8625047
0.4943543
1.617285
0.4928041
0.07449184
BICF2G63010014
NC
0.00
0.17925
0.5712959
0.3579216
-0.4297482
BICF2G630100157
AB
0.9132537
0.4297175
1.479904
0.4392351
-0.05344331
BICF2G63010018
NC
0.00
0.05681052
0.3145994
0.00
-0.1737654
BICF2G63010019
BB
0.7604493
0.974803
0.5058167
1
-0.3199603
BICF2G630100197
AB
0.4489847
0.4977913
2.508591
0.4791449
-0.03913157
BICF2G630100209
AB
0.9577258
0.5091071
1.433842
0.4849704
0.03353071
BICF2G630100251
AB
0.942551
0.4829097
1.371841
0.4830726
-0.0341967
173662 10860 Kbytes .Supplementary file Size Download File type/resource GSM2195639_3998887055_R02C02_Grn.idat.gz
1.3 Mb
(ftp) (http) IDAT
GSM2195639_3998887055_R02C02_Red.idat.gz
1.3 Mb
(ftp) (http) IDAT
Processed data included within Sample table
