|
| Status |
Public on Mar 01, 2018 |
| Title |
CKCS_Saliva_Affected_40 |
| Sample type |
genomic |
| |
|
| Source name |
Saliva
|
| Organism |
Canis lupus familiaris |
| Characteristics |
breed: Cavalier King Charles Spaniel
disease state: case
sm: 1
ccd size: 6
vd: 3
f-diam: 46.57
ab: 15.26
bc: 17.55
cd: 13.84
bd: 30.86
ae: 35.85
ID: 29.93
ac: 27.68
ai: 22.73
cj: 12.86
fh: 25.27
fg: 25.65
bk: 11.82
l1 (hae): 120.36
l2 (fac): 64.14
l3 (dib): 88.5
l4 (fae): 40.57
l5 (aeb): 24.61
l6(dba): 103.49
l7(dbi): 14.75
l8 (ebd): 7.38
l9 (jcb): 46.6
l10 (afg): 52.02
l11(ebk): 44.43
f-d/cd: 3.364884393
f-d/bc: 2.653561254
l4+l7: 55.32
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted from blood or saliva using the ORAGENE Animal kit (DNAgenotek)
|
| Label |
CY3 and CY5
|
| Label protocol |
200ng of genomic DNA was whole-genome amplified in an overnight reaction at 37¡C using amplification master mix (WG-MA1, WG-MA2) and primer/neutralization mix (WG-MSM). After incubation the amplified DNA was fragmented with fragmentation mix (WG-FMS), precipitated with isopropanol and precipitation mix (PA1) and resuspended in hybridization buffer (RA1).
|
| |
|
| Hybridization protocol |
RA1 resuspended DNA was loaded onto BeadChips arrays. After overnight incubation at 48¡C, single-base extension and allele-specific staining was performed on a Teflow chamber rack system (Tecan, Maennedorf, Switzerland).
|
| Scan protocol |
After allele-specific staining BeadChip arrays were coated with XC4/ethanol , dried for 1 hour and scanned on a iScan Autoloader 2X (Illumina).
|
| Description |
11404-D0002537-WG3318316-DNA-D04
|
| Data processing |
Genomic DNA extracted from saliva was genotyped using Infinium CanineHD Genotyping BeadChips (Illumina).
GenomeStudio 2.0 was used to generate processed data using the final report function.
|
| |
|
| Submission date |
Aug 22, 2017 |
| Last update date |
Mar 01, 2018 |
| Contact name |
Philippe Lemay |
| E-mail(s) |
lemayph@gmail.com
|
| Organization name |
Université de Montréal
|
| Street address |
3175 Chemin de la Côte-Sainte-Catherine
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3T 1C5 |
| Country |
Canada |
| |
|
| Platform ID |
GPL17481 |
| Series (1) |
| GSE102906 |
Whole genome QTL study identifies candidate loci associated to syringomyelia |
|
