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Hi,
I am just curious is it possible to get the embedding of proteins and relations in https://www.zjukg.org/project/ProteinKG25/ separately using huggingface ontoprotein model ( https://huggingfa…
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Hi, I am working on analyzing one of the proteins of Group A Streptococcus, the M protein. Given the diversity of M protein with a lots of insertions and deletions, I wonder if I can apply virulign to…
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# New Protein Descriptor: Symmetric extractDC
The current extractDC is not symmetric, which generates 400 keys. This has some drawbacks:
- Proteins smaller than 400 AA: cannot contain all keys;
-…
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Hello, first of all, thank you very much for making such a valuable research publicly available. I have some questions regarding the application of molecular generation to new proteins:
I used the "s…
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Hi Vadim
Thanks for your work in DiaNN 1.9.
When analyzing the results from version 1.9, I've observed discrepancies between the number of Protein.Group entries filtered by R and those reported i…
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Hello, thanks for your development of this tool! I was curious of your thoughts on using it on meta-omic datasets which comprise genetic information (e.g. metatranscriptomics, gene-level metagenomics)…
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Hi all
I'm interested in generating contact maps from the ESM2 attention heads as described in the following github notebook:
https://github.com/facebookresearch/esm/blob/main/examples/contact_predi…
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when multiple small molecule inputs (B, C, D...) predicted with one protein molecule result clashes between small molecules. I assume that they don't consider interactions between small molecules... i…
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- [ ] icons for all 20 canonical amino acids and protonation states
- [ ] coevolution
- [ ] salt bridge icon
- [ ] epistasis icon
- [ ] interaction network in protein
Inspiration
![image](h…