CGDSNPdb: a database resource for error-checked and imputed mouse SNPs.
The Center for Genome Dynamics Single Nucleotide Polymorphism Database (CGDSNPdb) is an open-source value-added database with more than nine million mouse single nucleotide polymorphisms (SNPs), drawn from multiple sources, with genotypes assigned to multiple inbred strains of laboratory mice. All SNPs are checked for accuracy and annotated for properties specific to the SNP as well as those implied by changes to overlapping protein-coding genes. CGDSNPdb serves as the primary interface to two unique data sets, the 'imputed genotype resource' in which a Hidden Markov Model was used to assess local haplotypes and the most probable base assignment at several million genomic loci in tens of strains of mice, and the Affymetrix Mouse Diversity Genotyping Array, a high density microarray with over 600,000 SNPs and over 900,000 invariant genomic probes. CGDSNPdb is accessible online through either a web-based query tool or a MySQL public login. Database URL: http://cgd.jax.org/cgdsnpdb/
Hutchins
Lucie N
LN
Center for Genome Dynamics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, USA.
Ding
Yueming
Y
Szatkiewicz
Jin P
JP
Von Smith
Randy
R
Yang
Hyuna
H
de Villena
Fernando Pardo-Manuel
FP
Churchill
Gary A
GA
Graber
Joel H
JH
D000818:Animals; D030561:Databases, Nucleic Acid; D020407:Internet; D051379:Mice / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide; D014584:User-Computer Interface