NCBI's SNP database
Tutorial and training materials by OpenHelix
|Learn to use the dbSNP resource, a large and valuable NCBI database that serves both as a repository for genomic variation data (including single nucleotide polymorphisms, microsatellites and small insertion/deletion mutations) and as a computational analysis resource. Learning to mine the dbSNP data will provide the researcher with extensive data and information about variations, evolution, disease and more. Understanding the structure of rs identifiers and ss identifiers will provide important conceptual features of SNP stored records within dbSNP and at other sites that employ dbSNP data. Access points from the dbSNP and the EntrezSNP interface will be explored.|
- how to query the database by SNP attributes, submitter and other information
- how to understand the contents of the rsID records and ssID records
- where to find detailed information about individual variations
- how to accomplish additional search types of the database
Recent BioMed Central research articles citing this resource
De Wilde Bram et al., Target enrichment using parallel nanoliter quantitative PCR amplification Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-184
Liedvogel Miriam et al., No evidence for assortative mating within a willow warbler migratory divide. Frontiers in Zoology (2014) doi:10.1186/s12983-014-0052-2
Alavian N Kambiz et al., The lifelong maintenance of mesencephalic dopaminergic neurons by Nurr1 and engrailed. Journal of Biomedical Science (2014) doi:10.1186/1423-0127-21-27
Korir K Paul et al., A mutation in a splicing factor that causes retinitis pigmentosa has a transcriptome-wide effect on mRNA splicing Genomics. BMC Research Notes (2014) doi:10.1186/1756-0500-7-401
Shah Sonia et al., Functional properties of the HIV-1 long terminal repeat containing single-nucleotide polymorphisms in Sp site III and CCAAT/enhancer binding protein site I Retroviruses. Virology Journal (2014) doi:10.1186/1743-422X-11-92
More about the resource:
dbSNP is one of the many useful resources supported by the National Center for Biotechnology Information, or NCBI, and acts as a repository for individual submissions from labs and institutions, and provides interfaces to search, retrieve, and display a wealth of information about variation in many species. Additionally, reference variation data is computed from the entire database of individual variation submissions. dbSNP can be browsed or queried in several ways, including basic searches on submission type, SNP attributes, submitter information and much more. Additionally, there is advanced searching using the Entrez system.
The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.