Microarray data?

[Hsu, Amy (NIH/NIAID) [E]]

Hi –

 

Thank you for the valuable resource. As a long time UCSC Browser user, I frequently will look at genes of interest and look to see if they are expressed in relevant systems. While I appreciate the high-dimension dataset from GTex, there is still a role for the microarray data that used to be included in the UCSC genes information. Specifically, being able to see immune cell subsets rather than just “whole blood” or “transformed lymphoblasts” from GTex.

 

Is there a way to still access those data? Currently the microarray section has a header but no associated data.

 

Thank you for your time,

 

Amy P. Hsu, PhD

biologist

Laboratory of Clinical Immunology and Microbiology

National Institute of Allergy and Infectious Diseases

National Institutes of Health

Building 10 rm 11s257

301-761-7104

tw...@niaid.nih.gov

[Luis Nassar]

Hello, Amy.

We are looking into a solution to make similar data available directly from the primary gene annotation page.

If you use hg38, however, we offer our single cell expression track (https://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg38&c=chr6&g=singleCellMerged) which can be tailored to specific cell types including various immune cells. Here is an example of that track: https://genome.ucsc.edu/s/Lou/RM35845

Let us know if you have any feedback on that data or would like suggestions on another assembly.

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[Hsu, Amy (NIH/NIAID) [E]]

Thank you – I was not aware of that track – it’s great!

 

I appreciate all you and the group at UCSC to maintain and continue integrating data

 

Amy P. Hsu, PhD

biologist

Laboratory of Clinical Immunology and Microbiology

National Institute of Allergy and Infectious Diseases

National Institutes of Health

Building 10 rm 11s257

301-761-7104

tw...@niaid.nih.gov

 

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