Emmanuel D. Levy

The paper addresses volumetric cell segmentation challenges due to limited labelled data by using synthetic 3D objects to generate unlimited training data, achieving accurate segmentations of real biological data.

The paper identifies atonosomes as tension-responsive plasma membrane-derived compartments in yeast, showing they form rapidly in response to membrane tension loss and are regulated by cell wall dynamics.

The paper investigates IDR-IDR interactions in synthetic systems to assess their ability to mediate specific condensate formation, finding high promiscuity among some IDRs and specific recognition in others.

This paper introduces PINCHs, bifunctional molecules that sequester homomeric proteins by inducing polymerization, demonstrating efficacy in knocking down protein function in cells.

This study investigates the physiological impact of folded-state protein agglomerates in yeast, finding they do not disrupt proteostasis or cell fitness and show minimal effects on cellular processes.

Foldseek-Multimer rapidly aligns protein complexes by clustering superposition vectors, outperforming the gold standard in speed while maintaining alignment quality.

The paper identifies co-translational assembly as a mechanism promoting homomerization of paralogs, which enhances their functional divergence.

The paper identifies structural determinants of co-translational protein complex assembly and shows how intertwined subunits require synchronized proteostasis, with implications for protein stability and mRNA localization.

The paper identifies 68 yeast genes that globally influence protein phase separation through genetic knockouts and synthetic biology.

The paper predicts homo-oligomerization across four proteomes using AlphaFold2, finding that 50% of archaea, 45% of bacteria, and 20% of eukaryotes form homomers, with disease mutations enriched at interfaces.

The paper shows that mutational biases can lead to the neutral evolution of heteromeric protein complexes over homomeric ones after gene duplication.

The paper updates a database of coiled-coil structures from experimental data and AlphaFold2 models, enabling searches and analysis of coiled-coil assemblies and their sequence-structure relationships.

The paper shows desolvation energy, not pairwise interactions, explains protein partitioning into phase-separated condensates using experimental data from nuclear pore complex and FUS systems.

The paper designs proteins that form tunable assemblies in cells and maps their phase diagrams to understand how interactions influence mesoscale structures.

The paper introduces CASTLING, a method for efficiently creating pooled yeast gene tagging libraries using CRISPR/Cas12a and recombineering, achieving high tagging success rates.

The paper describes a C-SWAT library for high-throughput tagging of yeast ORFs and validates it by tagging the yeast proteome with fluorescent proteins.

The paper shows that protein degradation, not just transcription, drives coordinated fluctuations in protein abundance in single cells.