Learn to use the Gene Expression Omnibus, or GEO, which is a valuable resource designed to store high-throughput gene expression and molecular abundance data. GEO acts as a repository for the data, and provides interfaces to search, retrieve, and display a wealth of information about genes in many species. This includes microarray data and many other high-throughput techniques. GEO is one of the many useful resources supported by the National Center for Biotechnology Information, or NCBI.
You will learn:
This tutorial is a part of the tutorial group Expression resources. You might find the other tutorials in the group interesting:
Functional Glycomics Gateway: The home for Functional Glycomics research
CleanEx: A Database of Heterogeneous Gene Expression Data Based on A Consistent Gene Nomenclature
Allen Mouse Brain Atlas: Mapped gene expression data in mouse brain
miRBase: microRNA sequences, targets and gene nomenclature
DBTSS: Database of Transcriptional Start Sites
Alternative Splicing and Transcript Diversity (ASTD) database: A bioinformatics resource for alternative splice events and transcripts for human, mouse, and rat
GENSAT: Provides an extensive amount of high quality images of gene expression in the central nervous system of the mouse.
ArrayExpress: A public repository for microarray gene expression data at the EBI
Algorithms and Analysis : This category contains various tools that may help perform analysis of different genomics data types. This may include sequence alignment, large-scale or complex queries, motif finding, or comparative assessments.
Expression : This category may contain various expression data collections, annotation tools, or repositories of expression data.
NCBI : This category includes resources maintained at the National Center for Biotechnology Information (NCBI).
Video Tip of the Week: My Cancer Genome: There are a lot of cancer database resources out there. Most of the ones we've focused on have been the data repository types. TCGA, ICGC, CaBIG, COSMIC, Cancer Genome Workbench, UCSC Cancer Genomic Br...
Tip of the Week: BioGPS for expression data and more: This week's tip introduces BioGPS, or Gene Portal System. We get a lot of questions about two things that BioGPS can help you to tackle: what do I do with a list of genes to find out what they are? An...
Tip of the Week: Data Downloading from Gene Expression Omnibus (GEO): There are times when being able to download the data used to create a publication is very useful. Perhaps you want to compare interesting data to some of your own. Or you may want to analyze the data d...
Recent BioMed Central research articles citing this resource
Blanchard Zannel et al., BRCA1-IRIS inactivation overcomes paclitaxel resistance in triple negative breast cancers. Breast Cancer Research (2015) doi:10.1186/s13058-014-0512-9
Nestor E Colm et al., Rapid reprogramming of epigenetic and transcriptional profiles in mammalian culture systems. Genome Biology (2015) doi:10.1186/s13059-014-0576-y
Solomon A Lauren et al., Genome-wide comparison of PU.1 and Spi-B binding sites in a mouse B lymphoma cell line Human and rodent genomics. BMC Genomics (2015) doi:10.1186/s12864-015-1303-0
Wan Jun et al., Characterization of tissue-specific differential DNA methylation suggests distinct modes of positive and negative gene expression regulation. BMC Genomics (2015) doi:10.1186/s12864-015-1271-4
Ohkouchi Naohiko et al., Biochemical and physiological bases for the use of carbon and nitrogen isotopes in environmental and ecological studies Biogeosciences. Progress in Earth and Planetary Science (2015) doi:10.1186/s40645-015-0032-y