Question: How to analyse the gene expression matrix which I downloaded from GEO by Galaxy?
gravatar for fanwq907
22 months ago by
fanwq9070 wrote:

I downloaded the gene expression matrix from the GEO, it is excel format. In this file, there are 5 conditions. Now I want to get some data from this gene expression matrix file. How can I do this by Galaxy? I want to find differential expression gene in certain group.

Thanks a lot.

Best, WQ

galaxy • 940 views
ADD COMMENTlink modified 22 months ago by Jennifer Hillman Jackson25k • written 22 months ago by fanwq9070
gravatar for Jennifer Hillman Jackson
22 months ago by
United States
Jennifer Hillman Jackson25k wrote:


Upload the data in tabular format to start with (export from Excel first, or much better - skip cycling through Excel and load the tabular data from Geo into Galaxy directly as-is). Many tools in the group Text manipulation and others (Select, Filter), graph/run statistics on numerical data, and parse tabular datasets can be used for the data reduction/summary tasks.

If you need more help, please be specific. Geo data can be exported/retrieved in various formats, including custom tabular. Share a snippet of the exact tabular data (preserve format by using the "101/010" button to set display as "code" - or use something like a Gist link) - and the community here can offer advice/details about which tool/s to use.

Help at NCBI for reference:

Best, Jen, Galaxy team

ADD COMMENTlink written 22 months ago by Jennifer Hillman Jackson25k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 168 users visited in the last hour