i am trying to compile a list of OCTs (human, mouse, rat) best to check the resolute knowledgebase and uniprot
and check for which of them we have data in ChEMBL and extract the data
i use get request node to bring the data but all i got are missing data
this api request https://rest.uniprot.org/uniprotkb/search?query=(gene_exact:SLC22A1 OR gene_exact:SLC22A2 OR gene_exact:SLC22A3) AND (organism_id:9606 OR organism_id:10090 OR organism_id:10116) AND reviewed:true&fields=accession,gene_primary,organism_name,length&format=tsv
I really would like to help you, but I don’t see a question or even a description of the problem and what you’ve tried so far. Maybe you can add some more information?
is the response from UniProt empty in your workflow? Because the API request returns data, so that should work. Or is the later request from ChEMBL empty? You will need to identify the ChEMBL target ID from the UniProt accession number first to retrieve bioactivity values. I’ve created a metanode once which can retrieve bioactivity values from ChEMBL starting with a UniProt ID, so let me know if that would help.
thanks for your reply
i am a pharmacist and make master thesis and the professor told me to do this steps
compile a list of OCTs (human, mouse, rat) best to check the resolute knowledgebase and uniprot
-) check for which of them we have data in ChEMBL and extract the data
-) perform multiple sequence alignment if all OCTs
-) check if we have complexes in pdb to identify the binding site
i feel lost
i have a background in knime and python but i think i need to learn more skills
maybe you can only guide me to specific courses that help me to well understand these topics and accomplisch these steps
