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Hi Vadim.
I analyzed the DIA data acquired by Q-Exactive using DIA-NN, but the output report did not assign any proteins or peptides.
What could be the cause of this?
The measured samples were BS…
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I want to perform multi-ligand docking on my receptor protein, and its mechanism of action requires that ligands enter the protein pocket cooperatively. Can DSDPFlex support this?
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Hi,
Can BFEE2 be used for membrane proteins?
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[IEA-process.txt](https://github.com/user-attachments/files/17434824/IEA-process.txt)
Would love to get rid of these over the next 6 months, either remove or PAINT
1. remove transposable elemen…
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GO:2000756 regulation of peptidyl-lysine acetylation
GO:2000757 negative regulation of peptidyl-lysine acetylation
GO:2000758 positive regulation of peptidyl-lysine acetylation
GO:2000759 regulatio…
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Systematic ID | Gene name | Product description | Budding yeast orthologs | Human orthologs | Targets
-- | -- | -- | -- | -- | --
SPBC115.02c | afg1 | AFG1 family mitochondrial ATPase/chaperone Afg1…
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To help transition out of the REACTO convention, a low-hanging fruit is simply extracting the UniProt ID xrefs for proteins from the Reactome BioPAX and instantiate using these UniProt classes rather …
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Hello,
Is there a way to extract the MCL graph edge weights between pairs of proteins that have been declared as orthologues?
As far as I can tell, the OrthoFinder_graph.txt file should have the…
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**Describe the bug**
When mapping `gufe` protein components that were built using multimeric PDBs, I'm observing that the map is only done to a part of the multimer, apparently only one of the monome…
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I was super curious to try this out on my favorite discrete data: protein sequences! I created a simple dataset class following the existing code:
https://github.com/dacarlin/protein-sedd/blob/mai…