S. Chan

Atomically accurate de novo design of antibodies with RFdiffusion

This paper designs antibodies de novo with atomic precision using RFdiffusion and yeast display, validated by cryo-EM and biophysical methods.

2D and 3D multiplexed subcellular profiling of nuclear instability in human cancer

The paper shows nuclear rupture is common in cancer, especially glioblastoma, and links it to lamin proteins and immune signaling.

Antigen spacing on protein nanoparticles influences antibody responses to vaccination

This study shows that antigen spacing on protein nanoparticles affects antibody responses to vaccination, with decreased spacing improving hemagglutination inhibition and neutralization potency.

Computational design of non-porous, pH-responsive antibody nanoparticles

This paper designs pH-responsive antibody nanoparticles with three distinct protein components that disassemble at tunable pH levels, enabling targeted delivery of biologics.

Tipifarnib potentiates the antitumor effects of PI3Kα inhibition in PIK3CA- and HRAS-dysregulated HNSCC via convergent inhibition of mTOR activity

This study combines tipifarnib and alpelisib to target PI3K-mTOR and HRAS in HNSCC, showing synergy in mTOR inhibition and clinical potential for R/M HNSCC patients.

Improving the secretion of designed protein assemblies through negative design of cryptic transmembrane domains

This study identifies cryptic transmembrane domains in designed protein nanoparticles that hinder secretion and introduces a computational tool, Degreaser, to remove them while maintaining stability, improving secretion efficiency.

Increasing computational protein design literacy through cohort-based learning for undergraduate students

This paper describes a remote cohort-based curriculum for undergraduate students to learn computational protein design, enhancing their research skills and connecting them with the lab.

SR Ca2+ handling in unbranched, immediately post-necrotic fast-twitch mdx fibres is similar to wt littermates

This study finds that dystrophin deficiency in mdx mice does not significantly affect SR Ca2+ handling in unbranched, immediately post-necrotic fibres, challenging the traditional view of significant Ca2+ pathology.

A mean-field approach for modeling the propagation of perturbations in biochemical reaction networks

The paper develops a mean-field model to predict the temporal behavior of protein expression in response to perturbations in biochemical networks, validated against RNA sequencing data.

Whole blood immunophenotyping uncovers immature neutrophil-to-VD2 T-cell ratio as an early prognostic marker for severe COVID-19

The paper identifies an immature neutrophil-to-VD2 T-cell ratio as a prognostic marker for severe COVID-19 using flow cytometry data.

Dendritic cells require TMEM176A/B ion channels for optimal MHC II antigen presentation to naive CD4+ T cells

The paper shows TMEM176A/B ion channels are essential for dendritic cells to present antigens to CD4+ T cells, but not for Th17 or ILC3 function.

Topoisomerase III-beta is required for efficient replication of positive-sense RNA viruses

The paper identifies TOP3B as essential for replication of positive-sense RNA viruses, including SARS-CoV-2, suggesting it as a potential antiviral target.

Structural variability of EspG chaperones from mycobacterial ESX-1, ESX-3 and ESX-5 type VII secretion systems

The paper reports crystal and SAXS structures of EspG chaperones from mycobacterial ESX systems, revealing structural variability and potential substrate binding modes.