Wankowicz Lab Posts

Topics:

• Compact for Academic Excellence in Higher Education
• Government Shutdown
• HHMI’s new open science policies
• Shrinking PhD pools
• The Nobel Prizes
• The Bear
• TLOS Reactions

Preprint: ⁠Experiment-guided AlphaFold3 resolves accurate protein ensembles⁠

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Episode 7 is out now!

Latest News: H1B changes & chaos; who determines what gets into PubMed (Literature Selection Technical Review Committee).

Preprints:

• Generative design of novel bacteriophages with genome language models
• Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching

• High-resolution ab initio reconstruction enables cryo-EM structure determination of small particles (see the great bioRxiv comment thread).

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We chatted about the recent meetings, latest news, open science, social media, and, of course, the recent engagement.

Preprints:

• Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes
• Computational design of conformation-biasing mutations to alter protein functions

• Why do we still publish in scientific journals? - Pedro Beltrao’s blog

• Project diffUSE

• OpenADMET

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We chatted about the latest news, including the new NIH open access policy, trends observed with scientists using LLMs, & the Montpelier Mile race.

“The new Administration began weaponizing what should not be weaponized - the health of all Americans…creating chaos and promoting an…unreasoned agenda of blacklisting certain topics, that…has absolutely nothing to do with the promotion of science.” - Judge William Young (reported by Max Kozlov, Nature News)

• An Evaluation of Biomolecular Energetics Learned by AlphaFold

• Product-stabilized filamentation by human glutamine synthetase allosterically tunes metabolic activity

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The fourth episode of The Tortured Proteins Department is out now!

We chatted about the latest news, our Conformational Ensembles Conference, vibe coding in science, and the Dipsea and Montpelier Mile races.

The pre-prints discussed in this episode:

• Multiscale guidance of AlphaFold3 with heterogeneous cryo-EM data

• Boltz-2 Towards Accurate and Efficient Binding Affinity Prediction

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