Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Genetic architecture of the murine serum metabolome reveals carboxyl esterases as master regulators of circulating fatty acid metabolism.

bioRxiv : the preprint server for biology·2026
Same author

GPX4 regulates lipid peroxidation and ferroptosis of stored red blood cells.

Blood. Red cells & iron·2026
Same author

Improve genetic quality control to increase rigor and reproducibility of mouse research.

Science (New York, N.Y.)·2026
Same author

Contrasting the genetic architecture of cardiac glutathione against other organs: unveiling a unique tissue-specific locus.

Mammalian genome : official journal of the International Mammalian Genome Society·2026
Same author

Distinct genetic architecture of gene and isoform level QTL in the Diversity Outbred (DO) mouse population.

bioRxiv : the preprint server for biology·2026
Same author

Dietary folate supplementation modifies effects of arsenic exposure on DNA methylation profiles in sperm of mice expressing the human AS3MT.

Archives of toxicology·2026
Same journal

Development of CypriSSR: a genome-wide, chromosome-level microsatellite database for multiple cyprinidae species.

Database : the journal of biological databases and curation·2026
Same journal

KitBase Expanded: An Integrated Genomic and Phenotypic Resource for 3,268 Fast-Neutron-Irradiated Rice Mutants.

Database : the journal of biological databases and curation·2026
Same journal

PhaLP 2.0: extending the community-oriented phage lysin database with a SUBLYME pipeline for metagenomic discovery.

Database : the journal of biological databases and curation·2026
Same journal

A similarity metric, rubric, and unified hierarchy for biomedical publication types and study designs.

Database : the journal of biological databases and curation·2026
Same journal

GUTAID: a curated database linking gut microbial antigens to autoimmune mechanisms.

Database : the journal of biological databases and curation·2026
Same journal

Rosetta Statements: simplifying FAIR knowledge graph construction with a user-centred approach.

Database : the journal of biological databases and curation·2026
See all related articles

Related Experiment Video

Updated: Jun 11, 2026

In Vivo Functional Study of Disease-associated Rare Human Variants Using Drosophila
06:41

In Vivo Functional Study of Disease-associated Rare Human Variants Using Drosophila

Published on: August 20, 2019

CGDSNPdb: a database resource for error-checked and imputed mouse SNPs.

Lucie N Hutchins1, Yueming Ding, Jin P Szatkiewicz

  • 1Center for Genome Dynamics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, USA.

Database : the Journal of Biological Databases and Curation
|July 14, 2010
PubMed
Summary
This summary is machine-generated.

The Center for Genome Dynamics Single Nucleotide Polymorphism Database (CGDSNPdb) offers over nine million mouse SNPs for research. This valuable resource provides accurate genotype data and annotations for mouse strains, aiding genetic studies.

More Related Videos

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
09:34

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

Published on: April 4, 2018

Genetic Profiling and Genome-Scale Dropout Screening to Identify Therapeutic Targets in Mouse Models of Malignant Peripheral Nerve Sheath Tumor
09:33

Genetic Profiling and Genome-Scale Dropout Screening to Identify Therapeutic Targets in Mouse Models of Malignant Peripheral Nerve Sheath Tumor

Published on: August 25, 2023

Related Experiment Videos

Last Updated: Jun 11, 2026

In Vivo Functional Study of Disease-associated Rare Human Variants Using Drosophila
06:41

In Vivo Functional Study of Disease-associated Rare Human Variants Using Drosophila

Published on: August 20, 2019

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
09:34

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

Published on: April 4, 2018

Genetic Profiling and Genome-Scale Dropout Screening to Identify Therapeutic Targets in Mouse Models of Malignant Peripheral Nerve Sheath Tumor
09:33

Genetic Profiling and Genome-Scale Dropout Screening to Identify Therapeutic Targets in Mouse Models of Malignant Peripheral Nerve Sheath Tumor

Published on: August 25, 2023

Area of Science:

  • Genomics
  • Bioinformatics
  • Mouse Genetics

Background:

  • Single Nucleotide Polymorphisms (SNPs) are crucial for understanding genetic variation in laboratory mice.
  • Accurate and comprehensive SNP data is essential for genetic research and trait mapping.
  • Existing resources may lack the scale or integrated analysis provided by CGDSNPdb.

Purpose of the Study:

  • To introduce the Center for Genome Dynamics Single Nucleotide Polymorphism Database (CGDSNPdb) as a comprehensive resource for mouse SNPs.
  • To highlight the database's integration of multiple data sources and advanced analytical tools.
  • To provide researchers with accessible genotype and annotation data for inbred mouse strains.

Main Methods:

  • Aggregated and curated over nine million mouse single nucleotide polymorphisms (SNPs) from multiple sources.
  • Implemented quality control and annotation pipelines for SNP accuracy and functional impact.
  • Integrated the imputed genotype resource utilizing a Hidden Markov Model for haplotype analysis.
  • Incorporated data from the Affymetrix Mouse Diversity Genotyping Array.

Main Results:

  • CGDSNPdb provides access to over nine million mouse SNPs with assigned genotypes for multiple inbred strains.
  • Detailed SNP annotations include specific properties and implications for overlapping protein-coding genes.
  • The database offers an imputed genotype resource with probable base assignments across millions of genomic loci.
  • High-density genotyping data from the Affymetrix Mouse Diversity Genotyping Array is included.

Conclusions:

  • CGDSNPdb serves as a primary, open-source interface for accessing extensive mouse SNP and genotype data.
  • The database facilitates advanced genetic research by providing accurate, annotated, and integrated genomic information.
  • Researchers can access CGDSNPdb online via a web tool or MySQL login for diverse applications.