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:

  • efficient ways to query GEO for specific genes or experimental designs
  • how to navigate through GEO output displays to find the specific information you want
  • how to navigate GEO
TUTORIAL RELATED CONTENT

TUTORIALS

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

CATEGORIES

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).

BLOG POSTS

Video Tip of the Week: Digital Expression Explorer for RNA-seq: Coming over my digital transom in a couple of different ways recently, the Digital Expression Explorer caught my attention. I have a soft spot for expression. It's the business end of what's going on, ...

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...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Buckberry Sam et al., Placental transcriptome co-expression analysis reveals conserved regulatory programs across gestation Human and rodent genomics. BMC Genomics (2017) doi:10.1186/s12864-016-3384-9

Biswas Ranjita et al., Improved growth rate in Clostridium thermocellum hydrogenase mutant via perturbed sulfur metabolism. Biotechnology for Biofuels (2017) doi:10.1186/s13068-016-0684-x

Xu Zongli et al., RELIC: a novel dye-bias correction method for Illumina Methylation BeadChip Human and rodent genomics. BMC Genomics (2017) doi:10.1186/s12864-016-3426-3

Wu Jian et al., Nomogram integrating gene expression signatures with clinicopathological features to predict survival in operable NSCLC: a pooled analysis of 2164 patients. Journal of Experimental Clinical Cancer Research (2017) doi:10.1186/s13046-016-0477-x

Broustas G. Constantinos et al., Comparison of gene expression response to neutron and x-ray irradiation using mouse blood Human and rodent genomics. BMC Genomics (2017) doi:10.1186/s12864-016-3436-1