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OpenHelix

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

Pfeil M Alena et al., Multivariable regression analysis of febrile neutropenia occurrence in early breast cancer patients receiving chemotherapy assessing patient-related, chemotherapy-related and genetic risk factors Epidemiology, prevention and public health. BMC Cancer (2014) doi:10.1186/1471-2407-14-201

Petersen Britt-Sabina et al., Whole genome and exome sequencing of monozygotic twins discordant for Crohn’s disease Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-564

LaCroix Bonnie et al., Integrative analyses of genetic variation, epigenetic regulation, and the transcriptome to elucidate the biology of platinum sensitivity Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-292

Bacciu Nicola et al., QTL detection for coccidiosis ( Eimeria tenella ) resistance in a Fayoumi × Leghorn F 2 cross, using a medium-density SNP panel. Genetics Selection Evolution (2014) doi:10.1186/1297-9686-46-14

Müller Elisabeth et al., Confirmation of warfarin resistance of naturally occurring VKORC1 variants by coexpression with coagulation factor IX and in silico protein modelling Functional genetics. BMC Genetics (2014) doi:10.1186/1471-2156-15-17

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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