A database to find out which genes are expressed in which cell type of origin for human?

Question

[LimMo]

I would like to find the different cell types that specific gene expressed on for human, is there any database provide that?

I tried Gene Expression Atlas (https://www.ebi.ac.uk/gxa/home) but I'm not sure if it's correct because I think they do some experiments and report what cells they found that specific gene is expressed on and also some genes I didn't find any such information for them.

Any help with that?

[GenoMax]

In humans this may be useful: https://www.proteinatlas.org/humanproteome/cell
If cancer lines: http://amp.pharm.mssm.edu/Harmonizome/dataset/CCLE+Cell+Line+Gene+Expression+Profiles

[LimMo]

I checked the first one, it doesn't specify the cell type of origin (which cell types they originate/first developed); they present the general cell location.

[Kevin Blighe]

And, for Mus musculus, there is the Mouse Cell Atlas

[LimMo]

Thanks for that but I'm interested more on human cell

[Kevin Blighe]

Human Cell Atlas is underway, but not complete. Otherwise, I note that different groups are using custom curated lists in order to do what you want.

[LimMo]

I have a look to there data here (https://prod.data.humancellatlas.org/explore/projects) because the one you shared as they stated will be discontinuing; and as you can see there is no specific data or I cannot search by gene and most of it raw data (fastq files).

Answer 1

[Jean-Karim Heriche]

The Gene Expression Atlas does have expression data by at least tissue type. It also includes the tissue data from the Human Protein Atlas. It's not that intuitive to navigate but if on the home page you select for example human as species and pancreas as biological condition, the search result is a list of experiments several of which have looked at multiple human tissues like those of the GTEx project. Clicking on one will show you a table of genes x tissues with the corresponding expression levels. For example selecting the GTEx data set, you can see that INS (insulin) is only expressed in the pancreas. If you want data by precisely defined cell types, you can have a look at the HPA tissue atlas, they have immunostaining data for cell types within tissues, e.g. check the left hand side of this page for pancreatic cell types.

[LimMo]

Thanks a lot, that's kind of explained to me how things going on.