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Sunandan Mukherjee @sunandan.bsky.social · Aug 16

In our new review, we dive into the latest breakthroughs in modeling RNA and RNA–protein complexes: from deep learning and molecular simulations to hybrid AI–physics methods and even quantum approaches. 🧬

👉 Open access: www.sciencedirect.com/science/arti...

#RNA #MolecularModeling #AI

doi.org

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Sunandan Mukherjee @sunandan.bsky.social · Jun 17

The most comprehensive testament of the current trends of RNA structural biology:
doi.org/10.1038/s415...

Knowing when to fold ’em - Nature Methods

A steadily growing toolbox of techniques is helping researchers to understand the structural complexity that enables RNA molecules to perform a dizzying array of functions in the cell.

doi.org

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Reposted by Sunandan Mukherjee

Janusz M. Bujnicki @jmbujnicki.bsky.social · Apr 29

Proud to be part of this interdisciplinary work with @sebastianglatt.bsky.social, Ting-Yu Lin, our teams at @MCB_UJ & @IIMCB_Warsaw, and collaborators from France! #cryoEM + #biophysics + #modeling reveal how #pseudouridine shapes human tRNA structure and stability. 🧬 #RNAmodifications

The EMBO Journal @embojournal.org · Apr 29

tRNAs are small and sport heterogeneous base modifications – yet @sebastianglatt.bsky.social @jmbujnicki.bsky.social Ting-Yu Lin 林亭妤 et al show #cryoEM combined with biophysical & computational approaches can give insights into how #pseudouridine affects human tRNA!
www.embopress.org/doi/full/10....

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Sunandan Mukherjee @sunandan.bsky.social · Apr 30

Delighted to be a part of this wonderful collaborative work!
#tRNA #PSU #cryoEM

The EMBO Journal @embojournal.org · Apr 29

tRNAs are small and sport heterogeneous base modifications – yet @sebastianglatt.bsky.social @jmbujnicki.bsky.social Ting-Yu Lin 林亭妤 et al show #cryoEM combined with biophysical & computational approaches can give insights into how #pseudouridine affects human tRNA!
www.embopress.org/doi/full/10....

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Sunandan Mukherjee @sunandan.bsky.social · Dec 25

May this festive season bring you good health, success, and countless blessings. 🌟 Take time to reflect and find peace in the little moments. Here’s to joy, love, and togetherness!

Merry Christmas and Happy holidays! ❤️✨

#FestiveSeason #GoodHealth #Blessings

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Reposted by Sunandan Mukherjee

Alexey Amunts @amunts.bsky.social · Dec 14

ChimeraX 1.9 has been released! Session view can now be automatically saved and restored. New 'Find Cavities' tool identifying pockets in models. www.rbvi.ucsf.edu/chimerax/dow...

Download UCSF ChimeraX

www.rbvi.ucsf.edu

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Sunandan Mukherjee @sunandan.bsky.social · Dec 6

Sounds promising!

Frank Noe @franknoe.bsky.social · Dec 6

Super excited to preprint our work on developing a Biomolecular Emulator (BioEmu): Scalable emulation of protein equilibrium ensembles with generative deep learning from @msftresearch.bsky.social ch AI for Science.

www.biorxiv.org/content/10.1...

Sunandan Mukherjee @sunandan.bsky.social · Dec 3

We are not yet there to predict the large #RNA molecules unless the non-canonical contacts are detected more accurately!
#CASP16

Arne Elofsson @bioinfo.se · Dec 3

Conclusions from RNA section at #CASP16, without a template all fail. All small targets had a template.

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Sunandan Mukherjee @sunandan.bsky.social · Dec 3

Congratulations @nithinaneesh.bsky.social

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Sunandan Mukherjee @sunandan.bsky.social · Dec 2

RNA-Puzzles Round V paper is out:
www.nature.com/articles/s41...
It reports the evaluation of blind prediction of 23 targets predicted by 18 groups worldwide. I'm glad that our group ranked as one of the top four groups in this competition!

#RNA #prediction #RNApuzzles #CASP16

RNA-Puzzles Round V: blind predictions of 23 RNA structures - Nature Methods

The results of the Fifth RNA-Puzzles contest highlights advances in RNA three-dimensional structure prediction and uncovers new insights into RNA folding and structure.

www.nature.com

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Sunandan Mukherjee @sunandan.bsky.social · Sep 25

Excited to share our recently published review on #RNA structure prediction and modeling tools! 🧬 We reported advances using both theoretical approaches and experimental data. Free access available until Nov 13, 2024!👇

👉 authors.elsevier.com/a/1jpyq3SNvcAc…#RNAN#StructuralBiologyg#Modelingng

https://authors.elsevier.com/a/1jpyq3SNvcAc…

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Sunandan Mukherjee @sunandan.bsky.social · Jul 30

Happy to share that I had the opportunity to present our method, #SimRNA_Cry, for modeling RNA structures using #CryoEM data at the Computational Approach to RNA Structure and Function conference in #Benasque, Spain!

PC: Nithin C and Eugene Baulin

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Sunandan Mukherjee @sunandan.bsky.social · Feb 10

Happy to share our new publication on the discovery of the first ever genuine knot in a natural RNA molecules.
Full article: doi.org/10.1016/j.jm...

Redirecting

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Sunandan Mukherjee @sunandan.bsky.social · Jan 9

Demise of Ustad Rashid Khan is a great loss for Indian Classical Music! May his soul rest in peace!

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