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
Prabhakar Puttachandra et al., Vitamin D Receptor (VDR) gene polymorphism and risk of ischemic stroke Proceedings of the International Conference on Human Genetics and 39th Annual Meeting of Indian Society of Human Genetics International Conference on Human Genetics and 39th Annual Meeting of the Indian Society of Human Genetics (ISHG). Molecular Cytogenetics (2014) doi:10.1186/1755-8166-7-S1-P33
Patnam Kiran Arun et al., Association of ESR and FOXP3 gene polymorphisms with outcome of ovarian stimulation in infertile females undergoing IVF Proceedings of the International Conference on Human Genetics and 39th Annual Meeting of Indian Society of Human Genetics International Conference on Human Genetics and 39th Annual Meeting of the Indian Society of Human Genetics (ISHG). Molecular Cytogenetics (2014) doi:10.1186/1755-8166-7-S1-P61
Qi Jianlong et al., kruX: matrix-based non-parametric eQTL discovery Transcriptome analysis. BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-11
Do Ngoc Duy et al., Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs Complex traits and quantitative genetics. BMC Genetics (2014) doi:10.1186/1471-2156-15-27
Gaio Vânia et al., Genetic variation at the CYP2C19 gene associated with metabolic syndrome susceptibility in a South Portuguese population: results from the pilot study of the European Health Examination Survey in Portugal. Diabetology Metabolic Syndrome (2014) doi:10.1186/1758-5996-6-23
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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