Stanisław Dunin-Horkawicz
@staszekdh.bsky.social
Max Planck Institute for Biology, Tübingen & University of Warsaw. Using computational tools to study protein evolution and function.
It should also be illegal to force cats to wear collars with bells :)
August 5, 2025 at 2:59 PM
It should also be illegal to force cats to wear collars with bells :)
a fire truck's diesel engine?
July 28, 2025 at 1:51 PM
a fire truck's diesel engine?
A 6-year internship? that’s something! ;)
July 7, 2025 at 10:53 AM
A 6-year internship? that’s something! ;)
We have benchmarked the AF2 multimer on coiled-coil domains and the results are also very good (even outperforming dedicated tools). Interestingly, the performance does not depend on the use of MSA: onlinelibrary.wiley.com/doi/full/10.....
March 16, 2025 at 8:05 AM
We have benchmarked the AF2 multimer on coiled-coil domains and the results are also very good (even outperforming dedicated tools). Interestingly, the performance does not depend on the use of MSA: onlinelibrary.wiley.com/doi/full/10.....
This chopped alignment does not look meaningful. Or do I miss something?
January 18, 2025 at 11:05 AM
This chopped alignment does not look meaningful. Or do I miss something?
Maybe “Logicomix: An epic search for truth”?
December 13, 2024 at 1:46 PM
Maybe “Logicomix: An epic search for truth”?
We’ve seen such cases among coiled-coil domains. Fig. 8 here www.biorxiv.org/content/10.1...
Applicability of AlphaFold2 in the modeling of dimeric, trimeric, and tetrameric coiled-coil domains
Coiled coils are a common protein structural motif involved in cellular functions ranging from mediating protein-protein interactions to facilitating processes such as signal transduction or regulatio...
www.biorxiv.org
December 1, 2024 at 10:15 AM
We’ve seen such cases among coiled-coil domains. Fig. 8 here www.biorxiv.org/content/10.1...
Reposted by Stanisław Dunin-Horkawicz
Related to that, there is a fun PPI prediction challenge by @chembiobryan.bsky.social, which I'd like to advertise to everyone developing PPI prediction models. Tests like that are crucial for assessing model generalization capabilities!
www.dickinsonlab.uchicago.edu/ppi-challenge
www.dickinsonlab.uchicago.edu/ppi-challenge
PPI Challenge 1 | dickinson-group
www.dickinsonlab.uchicago.edu
November 28, 2024 at 9:31 AM
Related to that, there is a fun PPI prediction challenge by @chembiobryan.bsky.social, which I'd like to advertise to everyone developing PPI prediction models. Tests like that are crucial for assessing model generalization capabilities!
www.dickinsonlab.uchicago.edu/ppi-challenge
www.dickinsonlab.uchicago.edu/ppi-challenge
"If only there was some way to remove viruses from milk" - it's easy, just drink plant-based milks :)
November 27, 2024 at 9:25 AM
"If only there was some way to remove viruses from milk" - it's easy, just drink plant-based milks :)
Not only is this an illusion, but it is a western culture-oriented illusion.
November 24, 2024 at 8:13 AM
Not only is this an illusion, but it is a western culture-oriented illusion.
This reminds me of www.cell.com/fulltext/S00...
Protein Sectors: Evolutionary Units of Three-Dimensional Structure
Proteins display a hierarchy of structural features at primary, secondary, tertiary,
and higher-order levels, an organization that guides our current understanding of
their biological properties and e...
www.cell.com
November 23, 2024 at 7:35 AM
This reminds me of www.cell.com/fulltext/S00...