Searching NCBI's dbSNP Database

The Single‐Nucleotide Polymorphism database (dbSNP) is a variation database at the National Center for Biotechnology Information (NCBI). It is a public repository of submitted nucleotide variations and is part of NCBI's search and retrieval system Entrez. This unit describes two basic protocols to search dbSNP effectively, one to perform a text‐based search and another to perform a sequence‐based search. The unit also describes one of the result display formats called GeneView to obtain information about all submitted SNPs in a particular gene. Curr. Protoc. Bioinform. 32:1.19.1‐1.19.18. © 2010 by John Wiley & Sons, Inc.

[1]  D. Mccormick Sequence the Human Genome , 1986, Bio/Technology.

[2]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[3]  Andreas D. Baxevanis,et al.  Bioinformatics - a practical guide to the analysis of genes and proteins , 2001, Methods of biochemical analysis.

[4]  Lewis Y. Geer,et al.  Cn3D: sequence and structure views for Entrez. , 2000, Trends in biochemical sciences.

[5]  Elizabeth M. Smigielski,et al.  dbSNP: the NCBI database of genetic variation , 2001, Nucleic Acids Res..

[6]  Francis S. Collins,et al.  Genomic medicine--a primer. , 2002, The New England journal of medicine.

[7]  Gregory D. Schuler,et al.  Database resources of the National Center for Biotechnology Information: update , 2004, Nucleic acids research.

[8]  Alan F. Scott,et al.  Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders , 2004, Nucleic Acids Res..

[9]  Ourania Horaitis,et al.  A database of locus-specific databases , 2007, Nature Genetics.

[10]  Timothy B. Stockwell,et al.  The Diploid Genome Sequence of an Individual Human , 2007, PLoS biology.

[11]  Tatiana Tatusova,et al.  NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins , 2004, Nucleic Acids Res..

[12]  Alejandro A. Schäffer,et al.  Database indexing for production MegaBLAST searches , 2008, Bioinform..

[13]  F. Collins,et al.  Genomic medicine--an updated primer. , 2010, The New England journal of medicine.