mechanistic / dynamical model

This study uses long-read transcriptome sequencing to analyze SF3B1 mutations in CLL and MDS patients, revealing common splicing alterations and their impact on disease prognosis.

This study shows ATP prevents protein aggregation and dissolves pre-formed aggregates, suggesting it could be a therapeutic agent for protein-aggregation diseases.

This study identifies APC's role in SLIT2-induced ROBO1 endocytosis and its impact on cell morphology.

The paper proposes lipid osmosis as a mechanism for lipid flow driven by membrane protein density and tension differences, and explores its biological functions and testing methods.

This study investigates 3-epicaryoptin's anti-cancer effects on MCF-7 cells, showing it induces G2/M arrest and apoptosis by disrupting microtubules.

This paper investigates how dynamic structural networks in IL-2 superkines affect receptor binding and signaling, showing that modulating core dynamics can improve immune cell selectivity.

This study uses molecular dynamics simulations to investigate the dynamics of short HA chains near a DPPC bilayer, revealing subdiffusive behavior and concentration-dependent diffusion.

The paper develops a viscoelastic-plastic model to simulate tip growth in Arabidopsis zygotes and identifies non-dimensional parameters that maintain a hemisphere-like shape.

The paper estimates carbon fluxes in microbial communities using mechanistic inference, finding that internal recycling by heterotrophic prokaryotes compensates for mismatches between phytoplankton production and consumption.

This study designs gramicidin-derived antimicrobial peptides using molecular dynamics simulations and evaluates their efficacy based on structural and conductance properties.

This study uses molecular dynamics simulations to investigate the interaction of TIM-3 with phosphatidylserine lipids in a membrane, revealing molecular mechanisms and thermodynamics relevant to immune regulation and cancer.

This paper shows EGCG inhibits TDP-43 aggregation and cytotoxicity in vitro through binding to its C-terminal domain.

The paper uses single-molecule imaging and molecular dynamics simulations to study early MET receptor activation in situ, revealing structural dynamics and a refined dimer model.

The paper identifies CDC20 expression as a determinant of sensitivity to SAC inhibitors, showing that aneuploid cells with high CDC20 levels are more sensitive to these drugs.

The paper extends the vertex model to explain how the amnioserosa remains solid during Drosophila dorsal closure despite increased cell shape index.

This study uses molecular dynamics and bioinformatics to analyze structural and dynamic differences across MBOAT family members, identifying key features relevant to inhibitor design.

The paper uses an experimentally parameterized mathematical model to show how hematopoietic stem cells dynamically adjust and resist mutant invasion during steady state hematopoiesis.

This study identifies key residues in claudin-4 that enable polymerization when supplemented with claudin-3 residues, enhancing tight junction formation and barrier function.

This study uses molecular dynamics simulations to design HIV-1 immunogens that select for specific mutations in broadly neutralizing antibodies.

This paper optimizes food waste hydrolysis using glucoamylase and sonication, showing improved sugar yield and reaction kinetics through structural and computational analysis.

The paper determines structures of conductive and non-conductive HERG selectivity filters and identifies a mechanism for rapid inactivation kinetics.

This study demonstrates a method to generate electro-osmotic flow using sticky ions, showing it works in both biological and solid-state nanopores.

This paper identifies a pivot-clip mechanism that enhances 5β1 integrin-fibronectin binding dynamics, reinforcing cell adhesion through conformational changes induced by mechanical forces.

The paper proposes a radical pair mechanism and amplification model to explain magnetic field effects on planarian regeneration through modulation of superoxide production.

The paper reports the cryo-EM structure of connexin-36 bound to mefloquine, revealing how small molecules inhibit gap junction channels by partially occluding the pore and altering electrostatics.

The paper shows that epithelial cells exhibit superdiffusive migration in tissues due to directional memory from velocity coordination and adhesion dynamics, enhancing their range compared to isolated cells.

The paper models how environmental changes during Snowball Earth glaciations created selective pressures that favored multicellularity in eukaryotes but not prokaryotes.

This study uses molecular dynamics simulations to show that O-glycans in lubricin increase its conformational extension, reduce viscosity, but weaken shear thinning at high shear rates.

This study uses molecular dynamics simulations to explore cofilin dimer structures formed via disulfide bonds and their interactions with actin filaments.

This study shows that self-organised spatial heterogeneity in homogeneous habitats can maintain species coexistence through dispersal rate adjustments and plastic emigration responses.