Akis (Argyris) Papantonis
@akispapantonis.bsky.social
Biologist by training, basketball player at heart
Professor for Translational Epigenetics & Genome Architecture, University Medical Center Goettingen, Germany.
www.papantonislab.eu
Professor for Translational Epigenetics & Genome Architecture, University Medical Center Goettingen, Germany.
www.papantonislab.eu
Expected. If you ask me: cruel. If you asked my lab members: understated.
January 28, 2026 at 4:50 PM
Expected. If you ask me: cruel. If you asked my lab members: understated.
The LoopBin code is already available here: github.com/YajieZhu018/...
So feel free to try it out and come back to us with praise or complaints! We would be happy for any feedback.
So feel free to try it out and come back to us with praise or complaints! We would be happy for any feedback.
GitHub - YajieZhu018/LoopBin: A deep-learning-based pipeline to cluster genomic loop types with micro-C and Cut&Tag data.
A deep-learning-based pipeline to cluster genomic loop types with micro-C and Cut&Tag data. - YajieZhu018/LoopBin
github.com
January 21, 2026 at 9:17 AM
The LoopBin code is already available here: github.com/YajieZhu018/...
So feel free to try it out and come back to us with praise or complaints! We would be happy for any feedback.
So feel free to try it out and come back to us with praise or complaints! We would be happy for any feedback.
4/n
We then used MD simulations to test whether these loop classes are the result of the same or different underlying mechanisms with some surprising conclusions ― so do read the preprint and lets us know!
This work was supported by the DFG SPP2202 priority program (@spp2202.bsky.social).
We then used MD simulations to test whether these loop classes are the result of the same or different underlying mechanisms with some surprising conclusions ― so do read the preprint and lets us know!
This work was supported by the DFG SPP2202 priority program (@spp2202.bsky.social).
January 21, 2026 at 9:15 AM
4/n
We then used MD simulations to test whether these loop classes are the result of the same or different underlying mechanisms with some surprising conclusions ― so do read the preprint and lets us know!
This work was supported by the DFG SPP2202 priority program (@spp2202.bsky.social).
We then used MD simulations to test whether these loop classes are the result of the same or different underlying mechanisms with some surprising conclusions ― so do read the preprint and lets us know!
This work was supported by the DFG SPP2202 priority program (@spp2202.bsky.social).
3/n
...which allowed the automated and unbiased clustering of >20,000 loops into 6 well-separated clusters, with distinct epigenomic and physical attributes.
The key here is that raw signal structure is considered (not peaks) allowing the neural network to identify differences in signal structure.
...which allowed the automated and unbiased clustering of >20,000 loops into 6 well-separated clusters, with distinct epigenomic and physical attributes.
The key here is that raw signal structure is considered (not peaks) allowing the neural network to identify differences in signal structure.
January 21, 2026 at 9:11 AM
3/n
...which allowed the automated and unbiased clustering of >20,000 loops into 6 well-separated clusters, with distinct epigenomic and physical attributes.
The key here is that raw signal structure is considered (not peaks) allowing the neural network to identify differences in signal structure.
...which allowed the automated and unbiased clustering of >20,000 loops into 6 well-separated clusters, with distinct epigenomic and physical attributes.
The key here is that raw signal structure is considered (not peaks) allowing the neural network to identify differences in signal structure.
2/n
Yajie and Mariano implemented a variational deep embedding (VaDE) neural network trained on Micro-C loop signal structure and concatenated CUT&Tag signal overlapping the anchors of these loops...
Yajie and Mariano implemented a variational deep embedding (VaDE) neural network trained on Micro-C loop signal structure and concatenated CUT&Tag signal overlapping the anchors of these loops...
January 21, 2026 at 9:08 AM
2/n
Yajie and Mariano implemented a variational deep embedding (VaDE) neural network trained on Micro-C loop signal structure and concatenated CUT&Tag signal overlapping the anchors of these loops...
Yajie and Mariano implemented a variational deep embedding (VaDE) neural network trained on Micro-C loop signal structure and concatenated CUT&Tag signal overlapping the anchors of these loops...
I feel very ready for retirement :-)
December 16, 2025 at 9:02 PM
I feel very ready for retirement :-)
…I feel very grateful for how this coincidence has come about: via the generosity of my mentors, many collaborators, and all members of our lab. Let's see what the next two decades have in store for us.
December 11, 2025 at 3:07 PM
…I feel very grateful for how this coincidence has come about: via the generosity of my mentors, many collaborators, and all members of our lab. Let's see what the next two decades have in store for us.
By coincidence, this year my 100th peer-reviewed paper was published―on the subject closest to my heart. Although scientific output is not a mere reflection of the number of papers published (or so we hope), looking back at these two decades…
December 11, 2025 at 3:07 PM
By coincidence, this year my 100th peer-reviewed paper was published―on the subject closest to my heart. Although scientific output is not a mere reflection of the number of papers published (or so we hope), looking back at these two decades…
Are you being pleasantly sarcastic????
November 20, 2025 at 1:46 PM
Are you being pleasantly sarcastic????