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ventolab / CellphoneDB

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
https://www.cellphonedb.org/
MIT License
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interacting_pair is ligand_receptor or receptor_ligand? #181

Open yanwuanxin opened 2 months ago

yanwuanxin commented 2 months ago

interacting_pair is ligand_receptor or receptor_ligand?

yanwuanxin commented 2 months ago

celltypeA|celltypeB which is celtype of ligand, which is celltype of receptor？

cakirb commented 2 months ago

Hi @yanwuanxin,

You can check for the details of the interactions from "directionality" column since there are some interactions different than ligand-receptor. If an interaction was annotated as ligand-receptor, it is a ligand-receptor, not receptor-ligand.

Hope this helps you!

Best, Batu

yanwuanxin commented 2 months ago

what does the mean of Ligand-Ligand？does the interacting_pair have practical significance?

cakirb commented 2 months ago

Hi @yanwuanxin,

Our database curators are currently not available to comment, but we've noticed that all ligand-ligand interactions have 'inhibitory' set in 'modulatory effect' column in interaction_input.csv. You can see the 'source' column to see where each interaction is coming from. For example, HHIP inhibiting Sonic Hedgehog (SSH) pathway by binding to SSH and sequestering it (see https://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC8660895&blobtype=pdf).

Hope that helps!

Best, Batu

yanwuanxin commented 2 months ago

thank you for your answer.