breed: Bernese Mountain Dog (BMD) phenotype: histiocytic sarcoma (HS) origin: The Netherlands tissue: whole blood
Extracted molecule
genomic DNA
Extraction protocol
Genomic DNA was extracted from whole blood using either Proteinase K and phenol/chloroform with standard protocols (NIH and University of Utrecht) or the Nucleon BACC Genomic DNA extraction kit (University of Rennes).
Label
C-Bio and A-DNP
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 48oC. Single-base extension and allele-specific staining were 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
394
Data processing
Image data was analyzed using GenomeStudio with GT module (Illumina).
