期刊
NUCLEIC ACIDS RESEARCH
卷 39, 期 -, 页码 D901-D907出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkq1054
关键词
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资金
- National Institute on Drug Abuse [K01 DA024722]
- American Cancer Society [IRG 5801050]
- National Institute on Mental Health [U24 MH068457]
- National Institutes of Health [DA024722, MH068457]
- NATIONAL INSTITUTE OF MENTAL HEALTH [U24MH068457] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE ON DRUG ABUSE [K01DA024722] Funding Source: NIH RePORTER
Genome-wide association studies often incorporate information from public biological databases in order to provide a biological reference for interpreting the results. The dbSNP database is an extensive source of information on single nucleotide polymorphisms (SNPs) for many different organisms, including humans. We have developed free software that will download and install a local MySQL implementation of the dbSNP relational database for a specified organism. We have also designed a system for classifying dbSNP tables in terms of common tasks we wish to accomplish using the database. For each task we have designed a small set of custom tables that facilitate task-related queries and provide entity-relationship diagrams for each task composed from the relevant dbSNP tables. In order to expose these concepts and methods to a wider audience we have developed web tools for querying the database and browsing documentation on the tables and columns to clarify the relevant relational structure. All web tools and software are freely available to the public at http://cgsmd.isi.edu/dbsnpq. Resources such as these for programmatically querying biological databases are essential for viably integrating biological information into genetic association experiments on a genome-wide scale.
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