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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.
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You'll learn:

  • 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


Categories

View additional tutorials for resources in

  • Variation & Medical
  • NCBI : This category includes all resources maintained at the National Center for Biotechnology Information (NCBI)

Recent BioMed Central research articles citing this resource

Pearson Talima et al., High prevalence and two dominant host-specific genotypes of Coxiella burnetii in U.S. milk Ecological and evolutionary microbiology. BMC Microbiology (2014) doi:10.1186/1471-2180-14-41

Kaiser B Vera et al., De novo transcriptome assembly reveals sex-specific selection acting on evolving neo-sex chromosomes in Drosophila miranda Multicellular invertebrate genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-241

Chu Jen-hwa et al., Analyzing networks of phenotypes in complex diseases: methodology and applications in COPD Systems physiology, pharmacology and medicine. BMC Systems Biology (2014) doi:10.1186/1752-0509-8-78

Lee Tae-Ho et al., SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data Comparative and evolutionary genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-162

Sharma Eshita et al., Transcriptome assemblies for studying sex-biased gene expression in the guppy, Poecilia reticulata Non-human and non-rodent vertebrate genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-400

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.


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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.

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