Learn to use the GeneSNPs resource whose goal was to provide an integrated, gene-centric view of cDNA, genomic and SNP sequence information for human genes. This web resource was developed and maintained by the University of Utah Genome Center with funding from the National Institute of Environmental Health Sciences (NIEHS) as part of their Environmental Genome Project (EGP). This EGP web resource integrated gene, sequence and polymorphism data into individually annotated gene models. High quality and high density data are provided.

  • NOTE: The GeneSNPs resource is still available, but is no longer being maintained. GeneSNPs was last updated March of 2008. Our tutorial on this resource remains available for anyone wishing to use the GeneSNPs resource in its current state.

    You will learn:

    • to perform text and sequence searches to find genes of interest
    • to understand the displays and data types available
    • to use the unique PDBViewer to examine SNPs in the context of protein structure
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Human variations. You might find the other tutorials in the group interesting:

GAD: Genetic Association Database: An archived database associating human genes and polymorphisms with diseases

Madeline 2.0: Human pedigree diagram tools

DrugBank: A chemoinformatics and bioinformatics resource

DGV: Database of Genomic Variants: Database of Genomic Variants, DGV, catalogs and displays structural variation in the human genome

NIEHS SNPs: National Institute for Environmental Health Sciences Environmental Genome Project (EGP) SNPs

OMIM: Online Mendelian Inheritance in Man (OMIM): A database of human genes, genetic diseases and disorders

CGAP: Characterize the molecular genetic changes that cause a normal cell to become a cancer cell

ENCODE Foundations: ENCyclopedia of DNA Elements

HapMap: HapMap, a database and analysis resource of human variation

Genetics Home Reference: A collection of data describing the effects of genetic variability on human health and disease

dbGaP: A database of genotypes and phenotypes with extensive variation data and clinical details

SeattleSNPs: Human SNPs in genes

dbSNP: NCBI's SNP database

GeneTests: GeneTests, a current, comprehensive genetic testing resource

CATEGORIES

Ye Olde Tutorials : These tutorials are those that are no longer being updated due to various reasons: the resource is not being updated or maintained any longer, is no longer licensed, etc. Some people may be running legacy copies, however. References to the use of these tools in the literature may be found, and without examples of the tool features the details may be difficult to understand. The materials are still useful, therefore, and are offered to our users as an additional resource.

BLOG POSTS

Video Tip of the Week: GWATCH, for flying over chromosomes: Ok, so it's not *just* for flying over chromosomes. There's more to it, of course. But that's the part of GWATCH (Genome-Wide Association Tracks Chromosome Highway) that caught my attention. I'm always...

Tip of the Week: A year's worth of tips: So, this week we will have finished a full year of our "Tips of the Week" series. Every Wednesday we post a short 3-5 minute movie of a tip on how to use a resource or database. We've done one year's w...

Tip of the week: SNPs on Protein Structure: The wealth of SNP data we are seeing these days is providing major insights into inheritance, population frequencies, effects on regulatory regions, splice sites and--of course--coding regions. Coding ...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Matsui Katsuyuki et al., Combined effect of regulatory polymorphisms on transcription of UGT1A1 as a cause of Gilbert syndrome. BMC Gastroenterology (2010) doi:10.1186/1471-230X-10-57

Choudhury Ananya et al., Analysis of variants in DNA damage signalling genes in bladder cancer. BMC Medical Genetics (2008) doi:10.1186/1471-2350-9-69

Scheckenbach Kathrin et al., An intronic alteration of the fibroblast growth factor 10 gene causing ALSG-(aplasia of lacrimal and salivary glands) syndrome. BMC Medical Genetics (2008) doi:10.1186/1471-2350-9-114

Dvornyk Volodymyr et al., Current limitations of SNP data from the public domain for studies of complex disorders: a test for ten candidate genes for obesity and osteoporosis. BMC Genetics (2004) doi:10.1186/1471-2156-5-4

Riva Alberto et al., A SNP-centric database for the investigation of the human genome. BMC Bioinformatics (2004) doi:10.1186/1471-2105-5-33