Learn to use The National Cancer Institutes Cancer Genome Anatomy Project, CGAP, an integrated resource that provides a collection of databases and analytical tools to help researchers investigate the biology of cancer. You can explore human and mouse gene expression changes related to, or concurrent with, cancer. The CGAP resource includes genes, detailed large-scale microarray and SAGE analyses of gene expression, cytogenetic, and sequence data. The goal of CGAP is to determine the gene expression profiles of normal, precancerous, and cancerous cells, and use this information for improved detection, diagnosis, and treatment.

You will learn:

  • to perform basic gene searches and understand the displays
  • to query the many types of gene expression data using CGAP tools
  • to access additional searches to query the Mitelman Database of Chromosome Aberrations in Cancer
  • to query a variety of CGAP databases and locate SAGE tags, BAC clones, SNPs, RNAi constructs and more


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

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

ENCODE Foundations: ENCyclopedia of DNA Elements

GeneSNPs: An integrated view of gene structure and SNP variations

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

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


Variation & Medical : Resources that include information about sequence variation, phenotypes, or medically-relevant conditions.


(one) Video Tip of the Week (to hold them all): Variation and Disease Databases: After again reading Daniel MacArthur's good rundown about the state of databases of human disease-causing variation from last year (One database to hold them all), I thought it might be nice to do a ti...


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