SNP500Cancer -- A Public Resource for Sequence Validation and Assay Development for Genetic Variation in Candidate Genes

What you can do:
Search for sequence and genotype assay information for candidate single nucleotide polymorphisms (SNPs) useful in mapping complex diseases, such as cancer.
Highlights:
  • SNP500Cancer provides bi-directional sequencing information on a set of control DNA samples derived from anonymized subjects (102 Coriell samples representing four self-described ethnic groups: African/African-American, Caucasian, Hispanic and Pacific Rim). All SNPs are chosen from the choice of genes includes a bias towards non-synonymous and promoter SNPs in genes that have been implicated in one or more cancers.
  • It is searchable by gene, chromosome, gene ontology pathway and by known dbSNP ID. As of October 2005, the database contains >13 400 SNPs, 9124 of which have been sequenced in the SNP500Cancer population.
  • For each analyzed SNP, gene location and over 200 bp of surrounding annotated sequence (including nearby SNPs) are provided, with frequency information in total and per subpopulation, and calculation of Hardyx96Weinberg Equilibrium (HWE) for each subpopulation.
  • It provides the conditions for validated genotyping assays and enables investigators to select SNPs for analysis, design genotyping assays using validated sequence data, choose selected assays already validated on one or more genotyping platforms, and select reference standards for genotyping assays.
Keywords:
  • single nucleotide polymorphisms
  • SNPs
  • non-synonymous SNPs
  • nsSNPs
  • promoter SNPs
  • human cancer genes
  • genotyping assays
  • human single nucleotide polymorphisms
  • SNP validation
  • cancer gene validation
  • genotyping assay
  • genotype analysis
  • SNP annotation
This record last updated: 02-20-2006

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