556 papers
CellBench-LS introduces a comprehensive framework that systematically benchmarks single-cell foundation models against traditional methods in low-supervision scenarios, revealing that while foundation models excel in celltype recognition tasks, traditional methods remain competitive for precise gene expression quantification.
This study reveals that during *Drosophila* oogenesis, ER stress triggers an ATF4-dependent upregulation of the RNA-binding protein Bruno 1, which rapidly remodels P-bodies to selectively protect essential maternal mRNAs from degradation while allowing non-associated transcripts to be degraded.
This paper introduces NucleoNet and DropNet, crowdsourced deep learning models that enable robust, high-quality instance segmentation of nuclei and lipid droplets in electron microscopy images, facilitating the quantification of cellular differences across various cancer models.
This study demonstrates that insulin and somatostatin regulate glucagon secretion in αTC1-6 cells by utilizing Stathmin-2 to direct glucagon-containing vesicles and lysosomes away from the cell periphery via Arl8-mediated microtubule transport, thereby promoting their degradative retention as an alternative mechanism to inhibiting exocytosis.
This study reveals that human colonic stem cells rely on an AKT-mediated checkpoint to suppress ERK signaling and prevent differentiation, whereas the disruption of this temporal control leads to neoplastic transformation that can be reversed by restoring pulsatile ERK dynamics.
This study identifies a specific 19-amino acid hinge region in cingulin as essential for its interaction with nonmuscle myosin-2B and demonstrates that phosphorylation of Serine 1162 within this region by CK1 and CK2 kinases negatively regulates this binding, thereby controlling tight junction mechanics and morphology.
This study reveals that GRAF1-dependent endocytotic processes and the Golgi apparatus independently supply membrane material to drive the formation of novel intermediate doughnut-shaped structures during early ciliogenesis.
This study reveals that dysplastic basal cells drive chronic pulmonary fibrosis by secreting IL-1 to transform fibroblasts into an inflammatory phenotype, which subsequently recruits immune cells and sustains a pathologic wound-healing microenvironment.
This study reveals that cells employ a selective autophagy mechanism, termed "chromophagy," to detect and completely digest micronuclei with nuclear envelope defects, thereby preventing catastrophic chromosomal rearrangements and suppressing chromosomal instability.
This study identifies the conserved i-AAA protease Yme1 as a critical regulator that enables mitochondrial-derived compartment (MDC) formation by proteolytically remodeling lipid transfer and MICOS complex proteins to relieve constraints on membrane biogenesis during stress.
The paper introduces MitoAtlas, a comprehensive spatial systems biology resource that utilizes super-resolution proximity labeling, machine learning, and AlphaFold modeling to generate a high-resolution domain-level map of the human mitochondrial proteome, resolving membrane topologies, annotating previously uncharacterized proteins, and identifying novel protein-protein and protein-metabolite interactions.
The study reveals that the lipid phosphatase MTMR14 is recruited to damaged lysosomes via calcium-dependent binding to sphingomyelin, where it remodels phosphoinositides to facilitate membrane repair and simultaneously suppresses mTORC1 signaling to induce a protective proteostatic adaptation.
This study confirms a pulmonary-centric "catch-and-release" model of thrombopoiesis, demonstrating that the lungs entrap both murine and human megakaryocytes to process and release platelets over several hours, a mechanism heavily influenced by membrane stiffness and distinct from other tissue pathways.
This study demonstrates that the DNA repair protein RAD51 is upregulated in idiopathic pulmonary fibrosis, and its inhibition via siRNA or the drug B02 disrupts fibroblast metabolism and DNA repair to promote apoptosis, thereby offering a promising therapeutic strategy to reverse lung fibrosis.
This study elucidates the reciprocal masking mechanism between 2,3,5-trimethylpyrazine and L-menthol in food matrices by identifying their specific olfactory receptors (OR5K1 and OR2W1) and demonstrating through molecular modeling that they competitively bind to the same active pockets, thereby mutually antagonizing receptor activation.
Fibulin 7, a matricellular protein supporting epidermal stem cells, mitigates skin inflammation in a psoriasis model by directly binding to IL-17A to suppress its signaling, a protective mechanism that is compromised in human psoriatic lesions where Fibulin 7 levels are reduced.
This study reveals that while the STI1-II domain is essential for both baseline and stress-induced UBQLN2 condensate partitioning, the STI1-I domain plays a distinct, context-dependent role that is dispensable for baseline puncta formation but critical for robust stress-induced phase separation.
This study identifies Atf3 as a critical transcriptional regulator that drives IL-4-induced macrophage multinucleation by repressing Ch25h to maintain cholesterol and isoprenoid biosynthesis, thereby ensuring the cytoskeletal and nucleoskeletal remodeling necessary for cell fusion.
This study utilizes single-cell ATAC-seq to demonstrate that prolactin receptor signaling alters chromatin accessibility in pancreatic beta-cells, identifying OVOL2 as a novel downstream negative regulator of lactogen-dependent beta-cell proliferation.
This study introduces a genetically defined VWF knockout cord blood-derived endothelial colony forming cell (cbECFC) model that accurately recapitulates patient-specific VWF processing defects and distinguishes pathogenic from benign variants, offering a superior, scalable, and physiologically relevant platform for investigating Von Willebrand disease mechanisms compared to non-endothelial systems.