biophysical modeling

This study identifies CEBPZ, NOC2L, and NOC3L as conserved regulators of rRNA processing and tumor growth, showing context-dependent expression patterns in cancers.

This study uses simulations to show cholesterol stabilizes EphA2 dimerization and TM-JM interactions with PIP2, highlighting membrane composition's role in EphA2 signaling and cancer progression.

This study identifies how NAF-144-67 targets CISD2/NAF-1 in cancer cells, disrupts its dimeric structure, and enhances anticancer activity through dimeric forms.

This study reconstitutes human DNA licensing, analyzes its intermediates, and identifies how cancer mutations disrupt helicase loading.

The paper isolates and characterizes novel bacteriophages targeting wheat phyllosphere bacteria, identifies DNA modifications and single-strand breaks, and finds widespread distribution of similar phages in public metagenomes.

This study identifies mitochondrial oxidative phosphorylation as a metabolic vulnerability in endocrine-tolerant persister ER+ breast cancer cells, suggesting therapeutic targeting of mitochondrial function could prevent recurrence.

This study examines the spatial organization of dendritic cell (DC) subsets and their interactions with CD8+ T cells in melanoma patients, finding that proximity between cDC1 and CD8+ T cells correlates with response to immune checkpoint inhibitors.

The paper identifies TGFBR2-high mesenchymal glioma stem cells that mimic regulatory T cells and suppress T cell function, showing TGFBR2 inhibition can reverse this effect.

This study investigates how Lsr2 protein interacts with DNA in Mycobacterium tuberculosis to compact the genome, revealing sequence-dependent co-condensation as a mechanism for gene regulation.

This study shows that negative charges, not phosphorylation, are required for 14-3-3ε binding, with at least one negative charge needed and two for high affinity.

The paper analyzes ergosterol metabolism in yeast to show how successive modifications balance lipid ordering and fluidity for membrane phase separation.

The paper shows that lipid degradation via PDATs limits ER membrane expansion by converting phospholipids into storage lipids in yeast.

This study investigates the multi-state kinetics of Tc toxin prepore-to-pore transition, identifying intermediate states and transition times under various conditions.

The paper investigates whether seagrass arabinogalactan-proteins show convergent glycan features across families, finding environmental factors influence their structure more than phylogeny.

This study characterizes ADAR1's RNA editing mechanism through biochemical profiling and structural analysis, revealing sequence and duplex length dependence, disease mutation impacts, and the role of RNA-binding domain 3.

This study shows that Vibrio cholerae biofilms undergo surface remodeling and inversion of cell-matrix interactions, shifting from attractive to repulsive as biofilms age, which facilitates dispersal.

This study shows GBM cells use Plexin-B2 to regulate membrane tension and mechano-electrical coupling for migration through confined spaces.

This study examines cytokine-induced gene expression changes in human neutrophils to uncover immune regulatory plasticity and its implications for inflammatory diseases.

The paper describes methods to study 3D cell cycle dynamics of glioma stem cells using fluorescent reporter systems and bioinformatics analysis.

The paper develops a biophysical model of symplasmic transport to show how it can generate steeper gradients in plant tissues, challenging the belief that it hinders pattern formation.

The paper uses atomistic simulations to study how the P1 domain of α-synuclein phase separates with temperature, revealing hydrophobic interactions and the role of tyrosine in condensate formation.

The paper investigates how substituting chlorophyll d for chlorophyll a at the ChlD1 site in PSII shifts the spectral range beyond far-red light, using quantum mechanical calculations and simulations.

The paper identifies two nuclear localization signals in the Anelloviridae capsid protein ORF1, showing their distinct roles in subcellular localization and evolutionary adaptation.

This study identifies CNPY3 as an antiviral mediator suppressed by flaviviruses via HuR-mediated mRNA destabilization and demonstrates LNP-CNPY3 as a therapeutic approach to enhance antiviral responses.

This study shows that cetylpyridinium chloride inhibits mast cell function by disrupting tyrosine phosphorylation of Syk kinase and LAT, without affecting Lyn kinase.

This study enhances the maturity and functionality of liver organoids by combining 3D bioprinting with vascular progenitor cells and a pillar plate culture system.

This study identifies a gut microbiome-derived peptide that mimics a myelin antigen and induces experimental autoimmune encephalomyelitis in mice.

This study identifies four novel fosfomycin resistance genes from environmental samples, which belong to the FosX family and show resistance to phosphonoformate inhibition.

This study identifies a conserved lysine in TM5 of BasC as critical for cytoplasmic gate dynamics, showing its role in gating transitions and modulation by substrates and mutations.

This study identifies a new molecular interaction between G3BP1 and SARS-CoV-2 N protein and shows small molecules disrupt this interaction, reducing viral replication.