|
| Status |
Public on Oct 02, 2024 |
| Title |
38662 |
| Sample type |
genomic |
| |
|
| Source name |
Saliva
|
| Organism |
Canis lupus familiaris |
| Characteristics |
breed: Karakachan
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from whole blood or Buccal cells using Proteinase K and phenol/chloroform with standard protocols. Genomic DNA extracted from saliva using standard Performagene genotek DNA extraction protocols.
|
| Label |
Cy3,Cy5
|
| 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 |
KARA
|
| Data processing |
Image data was analyzed using GenomeStudio with GT module (Illumina).
genotypes AA, AB, BB, NC=no call
|
| |
|
| Submission date |
Oct 02, 2024 |
| Last update date |
Oct 02, 2024 |
| Contact name |
Alexander Christian Harris |
| E-mail(s) |
alex.harris@nih.gov
|
| Phone |
301-402-2016
|
| Organization name |
National Institutes of Health
|
| Department |
National Human Genome Research Institute
|
| Lab |
Ostrander
|
| Street address |
50 South Drive
|
| City |
Bethesda |
| State/province |
Maryland |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL17481 |
| Series (1) |
| GSE278600 |
A genotype-first approach identifies variants for orofacial clefts and other phenotypes in dogs |
|
