Burt, Dave - The Roslin Institute - University of Edinburgh
Burt, Dave - The Roslin Institute - University of Edinburgh
Burt, Dave - The Roslin Institute - University of Edinburgh
- No tags were found...
You also want an ePaper? Increase the reach of your titles
YUMPU automatically turns print PDFs into web optimized ePapers that Google loves.
SNP Discovery for ArrayIllumina ultra highthroughputsequencingSequence alignment toreference genomeSNP detection: 78MSNPs (segregating inone or more lines)SNP selection(stage1): 24MSNP selection(stage2): 10MSNP selection(stage3): 2MSNP selection(stage4): 650K243 chickens from 24 lines, samplesin pools <strong>of</strong> 10-15 individuals;Av. coverage 7-17X per lineUsed new GGA genome assembly(still unpublished)Criteria: Samtools Phred score ≥ 20,MAF ≥ 5, coverage ≥ 5, variantpresent in at least 5% <strong>of</strong> the readsCriteria: Phred quality score ≥ 60Criteria: No other SNPs within 10bpat least on one side, uniformly pacedout according to genetic distanceCriteria: Predicted reproducibility inarray, 50:50 broiler and layer SNPsCriteria: True reproducibility,Mendelian inheritance, HWE, LD34
Change language