GEO2R - GEO - NCBI

• Specify a GEO Series accession and a Platform if prompted.
• Click 'Define groups' and enter names for the groups of Samples you plan to compare, e.g., test and control.
• Assign Samples to each group. Highlight Sample rows then click the group name to assign those Samples to the group. Use the Sample metadata (title, source and characteristics) columns to help determine which Samples belong to which group.
• Click 'Analyze' to perform the calculation with default settings.
• You may change settings in the Options tab.

How to use

Top differentially expressed genes ^?

Download full table Show all columns Select columns

Apply adjustment to the P-values. More...

Benjamini & Hochberg (False discovery rate)
Benjamini & Yekutieli
Bonferroni
Hochberg
Holm
Hommel

Apply log transformation to the data. More...

Auto-detect
Yes
No

Apply limma precision weights (vooma). More...

Yes
No

Force normalization. More...

Yes
No

Plot displays. More...

Volcano and Mean-difference plot contrasts (select up to 5)
0 selected (clear) Define two or more groups to select contrasts.

If you edit Options after performing an analysis, click Reanalyze to apply the edits:

Enter ID: Download gene annotation

This tab allows you to view a specific gene expression profile graph by entering the corresponding identifier from the ID column of the Platform record. This feature does not perform any calculations; it merely displays the expression values of the gene across Samples. Sample groups may or may not be defined for this feature to work.

Enter gene symbol or ID: Download gene annotation

This tab allows you to view a specific gene expression profile graph by entering a gene symbol or the corresponding identifier from the GeneID column of the Human.GRCh38.p13.annot.tsv.gz annotation file. This feature does not perform any calculations; it merely displays the TPM normalized expression values of the gene across Samples. Sample groups may or may not be defined for this feature to work.