Understanding and downloading GEO ARRAY data for Big Data Analysis

DOWNLOADING AND USING GEO ARRAY DATASETS 

In this video I have discussed about publicly available data that can be used for the bioinformatics data analysis using BRB Array Analysis tool.

GEO DATABASE 

GEO stands for "Gene Expression Omnibus".It  is a public repository that archives and freely distributes high throughput gene expression data submitted by the scientific community. 

• GEO currently stores approximately a billion individual gene expression measurements, derived from over 100 organisms.

• It also addresses data science related issues.

AVAILABILITY OF DATA

The data in GEO can be queried using two NCBI Entrez databases:

Entrez GEO-DataSets 

1. It provides an experiment-centric view of the data in GEO.
2. Experiments of interest may be located by searching for attributes such as free text keywords, organism, and experimental variable information. 
3. When a relevant DataSet is identified, that experiment can be further explored for gene expression profiles of interest.

Entrez GEO-Profiles 

1. It provides a gene-centric view of the data in GEO. 
2. Gene expression profiles of interest may be located by searching for attributes such as 

• gene name
• GenBank accession number 
• SAGE tag
• GEO accession number

For more details please watch my videos

Thank you