Emil Thomasen

Computational structural biology. Postdoc at Flatiron Institute.

[Kresten Lindorff-Larsen @LindorffLarsen]

New preprint in which we built and simulated full-length models of α-Synuclein fibrils to reveal how the fuzzy coat mediates selective binding of peptides to amyloid fibrils

Work led by Carlos Pintado-Grima in a nice collaboration with Salvador Ventura's lab

[Kresten Lindorff-Larsen @LindorffLarsen]

Integrative structural biology by the sea

The Jan 31st deadline for our FEBS advanced course on integrative structural biology is getting closer, so get your applications in for Lost In Integrative Vol. 2
https://t.co/eoJTi58alk
https://t.co/pFFZVaVeiV

[Sonya @sonyahans]

Announcing cryo-EM heterogeneity challenge #2, now dubbed the 2025 Community-Wide Assessment of Cryo-EM Heterogeneous Reconstruction Algorithms (CAHRA)! Join us for a webinar next Friday (Nov 14th) to learn more. Datasets already posted here: https://t.co/fyrOLnELN5

[Pétur Heidarsson @Heidarsson_lab]

Exciting news! I am grateful and thrilled to join the Section for Biomolecular Sciences #UCPH. We use single-molecule tools to study how pioneer factors interact with chromatin and promote cell reprogramming. Join our ERC-project PIONEER, now recruiting on all levels!⬇️

[Nature Communications @NatureComms]

@EmilThomasen, @LindorffLarsen, @LabVanni and colleagues refine the MD simulations package Martini 3 to more accurately model multidomain proteins with flexible linkers and disordered regions.

https://t.co/xEyxUbWhpT

[Kresten Lindorff-Larsen @LindorffLarsen]

Our paper on rescaling protein-protein interactions in Martini 3 is now out

Work led by @EmilThomasen & @SkaalumTorur and in collaboration w collaboration with @sriraksha616
& @asmolsim in @LabVanni

https://t.co/LUvUs2vDwz

[Emil Thomasen @EmilThomasen]

@ditlevbrodersen @LindorffLarsen @CarloCamilloni @ProteinMagnus @aelangkilde Tak!

[Emil Thomasen @EmilThomasen]

I'm very happy to have defended my PhD thesis. I want to thank @CarloCamilloni, @ProteinMagnus, and @aelangkilde for a great discussion on integrative modelling in my defense, and thanks to @LindorffLarsen, SBiNLab, and our collaborators for making the PhD a great experience.

[Kresten Lindorff-Larsen @LindorffLarsen]

Big congratulations to @EmilThomasen on successfully defending his PhD today 🎓 🎉 🍾 🍿 🥃

And thanks to opponents @CarloCamilloni, @ProteinMagnus & @aelangkilde for leading an excellent discussion on integrative modelling, coarse grained models, and the future of the field 🙏

[Emil Thomasen @EmilThomasen]

@asmolsim @CarloCamilloni @ProteinMagnus @aelangkilde @LindorffLarsen Thanks Ashutosh!

[Emil Thomasen @EmilThomasen]

@smnlssn @LindorffLarsen @CarloCamilloni @ProteinMagnus @aelangkilde Tak!

[Emil Thomasen @EmilThomasen]

@TanjaMittag @CarloCamilloni @ProteinMagnus @aelangkilde @LindorffLarsen Thank you Tanja!

[Emil Thomasen @EmilThomasen]

@gsgothard Thanks Gemma!

[Emil Thomasen @EmilThomasen]

@BonomiMax @LindorffLarsen @CarloCamilloni @ProteinMagnus @aelangkilde Thanks Max!

[Emil Thomasen @EmilThomasen]

@CarloCamilloni @LindorffLarsen Thanks for a good discussion @CarloCamilloni

[Max Bonomi @BonomiMax]

Our EMMIVox approach for accurate model and ensemble refinement using #cryoEM maps and Bayesian inference is out in @biorxivpreprint Work led by Samuel Hoff @institutpasteur @DBSC_IP with contributions from @EmilThomasen and @LindorffLarsen https://t.co/ody3lregkd

[Emil Thomasen @EmilThomasen]

@LindorffLarsen Stort tillykke Kresten!

[Kresten Lindorff-Larsen @LindorffLarsen]

Very happy to share our preprint:

Recalibration of protein interactions in Martini 3

led by @EmilThomasen & @SkaalumTorur on our end, and in a collaboration with @sriraksha616 & @asmolsim in @LabVanni. 1/10

https://t.co/2a0XINzsyo

[Kresten Lindorff-Larsen @LindorffLarsen]

CALVADOS is on Colab. Run a coarse-grained simulation of your favourite IDR in 5–30 mins (depending on length of protein and simulation) using just sequence and conditions as input.

https://t.co/o6zfi6hXXx

[Emil Thomasen @EmilThomasen]

@FBrotzakis @LindorffLarsen Thanks Faidon!

[Emil Thomasen @EmilThomasen]

Happy to share our new paper on self-consistently determining the oligomeric states and conformational ensembles of SPOP using SAXS and MD simulations. Check out @LindorffLarsen's thread for a quick overview of the work.

[Kresten Lindorff-Larsen @LindorffLarsen]

How do you analyse SAXS data of a system when it shows both conformational and compositional heterogeneity?

For the answer, see work led by @EmilThomasen out in @eLife, where we determine conformational ensembles of the self-associating protein SPOP. 1/n

https://t.co/Hd8tvYc6ev