Question: How to get a list of all human protein targets and their target class? UniProt or ChEMBL?
0
gravatar for Leanna
2.2 years ago by
Leanna10
Leanna10 wrote:

Dear all,

I would like to gain (a) an up-to-date number for all human proteins, (b) the list of all human proteins (and their target classes). My thoughts after googling, searching forum (e.g.https://www.biostars.org/p/2619/) and reading literature are as follows:

I could use ChEMBL to get both a number and a list of all human targets (which have been explored), together with their target classes.

But what happens, when a human protein target has not been explored? I could parse UniProt for more human protein targets, but then I would probably get the different protein modifications of one human protein target, and also, I don't think that I can extract target classes from UniProt.

What would you suggest?

Many thanks for any suggestion! Leanna

target uniprot chembl • 1.0k views
ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by Leanna10

(a) a number for all human proteins

42

ADD REPLYlink written 2.2 years ago by Pierre Lindenbaum127k

If only it were that easy ....

ADD REPLYlink written 2.2 years ago by Leanna10
1
gravatar for genomax
2.2 years ago by
genomax80k
United States
genomax80k wrote:

You can get all human proteins (currently manually validated) from UniProt. There are 20258 as of this writing.

What exactly do you mean by target? You can explore that using OpenTargets or LINK, both from EMBL. There is an API available for OpenTargets to get information programmatically.

ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by genomax80k
0
gravatar for Leanna
2.2 years ago by
Leanna10
Leanna10 wrote:

Dear Genomax,

Many thanks & sorry for the late reply! Your links seem to be what I was looking for!

To clarify a few points:

Again, many thanks!

with best wishes, Leanna

ADD COMMENTlink written 2.2 years ago by Leanna10
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