Wankowicz Lab Posts

Topics:

• Government Shutdown/Reopening
• Travels
• The impact of Jane Richardson
• New science funding structures and Arena BioWorks closing

• AI Peer Review tools

• Big experiments are only big if they can fail

Preprints: ⁠

• Hit or Miss: Understanding Emergence and Absence of Homo-oligomeric Contacts in Protein Language Models

• The Drain of Scientific Publishing

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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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