SNP Quality Assessment

Shaolin Wang, Hong Liu, Zhanjiang John Liu

Research output: Chapter in Book/Report/Conference proceedingChapter

Original languageEnglish (US)
Title of host publicationNext Generation Sequencing and Whole Genome Selection in Aquaculture
PublisherWiley Blackwell
Pages109-121
Number of pages13
ISBN (Print)9780813806372
DOIs
StatePublished - Dec 10 2010
Externally publishedYes

Keywords

  • Assessing SNP qualities after base calling - major criterion, sequence redundancy at SNP site
  • Genome sequencing projects, using traditional Sanger sequencing - single individual with two sets of chromosomes, from which SNPs can be identified
  • Number of sequences in contigs
  • Quality assessment parameters - for EST-derived SNPs
  • SNP quality assessment, and EST contig size and sequence frequency of alleles
  • SNP quality assessment, identification of single-nucleotide polymorphisms (SNPs), and alignment of multiple sequences from different genomes
  • SNPs derived from ESTs, important SNPs - residing within genes, differences in protein-coding capacities
  • SNPs, generated through whole genome sequencing project
  • Sequence allele distribution - most important indicator of SNP quality
  • Sequences flanking SNPs and their sequence quality

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)

Cite this

Wang, S., Liu, H., & Liu, Z. J. (2010). SNP Quality Assessment. In Next Generation Sequencing and Whole Genome Selection in Aquaculture (pp. 109-121). Wiley Blackwell. https://doi.org/10.1002/9780470958964.ch7