What is a GEO dataset?
What is a GEO dataset?
GEO DataSets is a study-level database which users can search for studies relevant to their interests. The database stores descriptions of all original submitter-supplied records, as well as curated DataSets.
How many Tcga tumors are there?
The Cancer Genome Atlas (TCGA), a landmark cancer genomics program, molecularly characterized over 20,000 primary cancer and matched normal samples spanning 33 cancer types.
How do I retrieve gene expression from GEO data?
It can be accessed from the site www.ncbi.nlm.nih.gov/geo/. GEO also contains different options to retrieve and study the various gene expression data submitted by different scientist.
What is Cibersort?
CIBERSORT is an analytical tool from the Alizadeh Lab developed by Newman et al. to provide an estimation of the abundances of member cell types in a mixed cell population, using gene expression data.
What is a geo example?
A prefix that means “earth,” as in geochemistry, the study of the Earth’s chemistry. Geo is defined as related to the Earth. An example of geo is geophone which is a device that detects seismic activity beneath the earth’s surface.
What is a geo profile?
The GEO Profiles database stores gene expression profiles derived from curated GEO DataSets. Each Profile is presented as a chart that displays the expression level of one gene across all Samples within a DataSet.
How do I access TCGA?
Popular Answers (1)
- Connect to https://tcga-data.nci.nih.gov/tcga/
- Select the cancer subtype you are interested in (i.e breast invasive carcinoma)
- Select mRNA.
- Now you can see a table where rows are representing different patients.
Where does TCGA data come from?
Data collection for TCGA began as a joint effort by the National Cancer Institute (NCI), National Human Genome Research Institute (NHGRI), National Institutes of Health (NIH), and the Department of Health and Human Services.
