proteomics

TransPepMS: A Tool to Verify Peptides Absent from Reference Proteomes

TransPepMS verifies peptides not in reference proteomes by resolving ambiguities in mass-spectrometry data to distinguish genuine non-canonical peptides from false positives.

Neuronal Hyperactivity Induces Tau Phosphorylation Selectively in Excitatory Pyramidal Neurons Which Contributes to GluA2 Regulation

This study shows that neuronal hyperactivity selectively increases tau phosphorylation at S202/T205 in excitatory hippocampal neurons, which reduces GluA2 surface expression and may contribute to Alzheimer's disease pathology.

Janusein and EB Cooperate to Enhance Microtubule Plus-end Catastrophe

This study identifies Janusein as a microtubule-associated protein that cooperates with EB proteins to enhance microtubule plus-end catastrophe.

High-throughput mapping of kinase-substrate interactions with protein language models and phospho-PCA

This paper develops a framework combining a protein language model and a screening assay to predict kinase-substrate interactions and map the human kinome.

Inhibition of p65 NF-κB enhances production of galactose-deficient IgA1 through suppression of C1GALT1 and SP1 in plasmablast-like cell subpopulations

The paper shows that inhibiting NF-κB/p65 increases galactose-deficient IgA1 production by reducing C1GALT1 expression and altering B cell subpopulations in IgAN patients.

Secretory ferritins mediate iron delivery during magnetite tooth formation in chitons

The paper identifies secretory ferritins as iron transporters in chitons, showing they deliver iron to developing teeth via hemolymph.

Mechanistic insights into proteolytic activation ofmembrane-bound NAC transcription factor SlNACMTF3 intomato plants under heat stress

This study identifies SlRP3 as a membrane protease that activates SlNACMTF3, a transcription factor, through proteolytic cleavage under heat stress in tomato plants.

Neuronal tRNA Modifications in Aplysia californica are Repatterned during Behavioral Habituation

The paper characterizes neuronal tRNA modifications during behavioral habituation in Aplysia californica, revealing a post-transcriptional mechanism of learning and memory.

Root endophyte sulfur metabolites enhance redox balance and drought tolerance in Arabidopsis

This study shows that the root endophyte Pseudomonas argentinensis SA190 enhances drought tolerance in Arabidopsis by supplying glutathione, improving redox balance.

The self-sufficient Aspergillus fumigatus Δ9-fatty acid desaturase SdeA requires a fused cytochrome b5 domain and hinge-dependent self-association for virulence

Kcs1-dependent inositol pyrophosphates promote DNA double-strand break repair via Pho80-Pho85 in budding yeast

This study identifies Kcs1-dependent inositol pyrophosphates as regulators of DNA repair via Pho80-Pho85 in budding yeast, independent of homologous recombination.

Cell-type resolved prenylomics in mouse liver enabled by a low-input proteomics workflow

This paper develops a low-input prenylomic workflow to enable cell-type-specific analysis of prenylated proteins in mouse liver tissue.

ProtCell: a foundation model for single-cell proteomics

ProtCell connects fragmented proteomic profiles, extends information beyond measured panels, and guides more informative measurements.

Cellulase catalysis on cell surfaces using Caulobacter S-layer display

This study uses Caulobacter S-layer display to express functional cellulases for lignocellulosic biomass conversion, demonstrating synergistic catalytic activities.

CREBBP variants underlying Menke-Hennekam syndrome exhibit histone acetyltransferase hyperactivity with divergent phase behaviors

This study identifies two CREBBP variants causing Menke-Hennekam syndrome that increase HAT activity but disrupt phase separation differently, with HAT inhibition restoring condensate dynamics in one variant.

Mitochondrial and bioenergetic processes are enriched in large-but are reciprocally depleted in small extracellular vesicles

The paper shows that mitochondrial and bioenergetic processes are enriched in large EVs but depleted in small EVs using proteomics and gene-set enrichment analysis.

A Cell-Autonomous Cold Sensor Promotes Lipolysis Through Phase Separation

The paper identifies a cell-intrinsic cold-sensing mechanism that enhances lipolysis through phase separation of perilipin 1 in adipose tissue.

Beyond Delta Masses: MS Andrea Directly Resolves Combinatorial Peptide Modifications in Open Searches

MS Andrea, a tag-filtered open search engine, scores and localizes up to four Unimod modifications per peptide-spectrum match, with identification counts competitive with MSFragger and Sage.

POI-associated LMD-3 mutation impairs B12-regulated lysosomal function and reproductive capacity in C. elegans

This study shows that the LMD-3 mutation in C. elegans causes reproductive failure by disrupting lysosomal function and proteostasis, which can be reversed with vitamin B12 supplementation.

ESX-1 substrates ESAT-6 and CFP-10 limit cGAS-STING activation via DNA and Zn2+ restriction

The paper shows ESAT-6 and CFP-10 limit cGAS-STING activation by degrading DNA and restricting Zn2+ availability during mycobacterial infection.

Dynamic Changes in the Urinary Proteome of Normal Pregnant Mice Carrying Phenylketonuria-Affected Fetuses

This study identifies candidate urinary proteomic biomarkers in pregnant mice carrying PKU-affected fetuses, showing temporal dynamics and non-invasive potential for early screening.

Understanding How Actomyosin Dynamics Drive Apical Constriction by Systematically Tagging and Mapping Actin-Binding Proteins

The paper systematically maps the localization of 49 actin-binding proteins during C. elegans gastrulation to understand their roles in apical constriction.

Fine-tuning an intracellular allosteric pocket programs GPCR signaling bias

This study fine-tunes an intracellular allosteric pocket of NTSR1 to program GPCR signaling bias, revealing how ligand modifications alter transducer coupling and downstream signaling.

Functional analysis of PRPS1 disease alleles reveals altered polymerization and cytoskeletal organization

The paper investigates how PRPS1 disease alleles affect polymerization and cytoskeletal organization in yeast and human cells, linking these changes to metabolic state and phenotypic overlap.

Glycogen removal enhances ethylene production in Synechocystis sp. PCC 6803 but exposes a 2-oxoglutarate-GS-GOGAT-phosphate constraint

This study shows that removing glycogen in Synechocystis sp. PCC 6803 increases ethylene production but creates a metabolic constraint involving 2-oxoglutarate, GS-GOGAT, and phosphate.

Asymmetrical Glyco-Engineering of Monoclonal Antibodies Provides Insights into α-Gal Immunogenicity

This paper develops an enzymatic platform to synthesize diverse mAb glycoforms and uses them to study α-Gal immunogenicity and FcγR binding.

Molecular glue degraders of CK1α remodel lysosomes and limit ferroptosis in glioblastoma stem-like cells

This study identifies CK1 as a regulator of lysosomal fitness and ferroptotic sensitivity in glioblastoma stem-like cells through molecular glue degraders.

Targeting alpha-ketoglutarate starvation within the tumor-immune microenvironment rescues T cell effector function in cancer immunotherapy

This study shows that supplementing alpha-ketoglutarate (aKG) improves T cell function and immunotherapy effectiveness in NSCLC by reversing epigenetic changes associated with T cell exhaustion.

Recognition-dependent activation of the RRS1-R/RPS4 immune receptor complex

This study investigates the oligomerization and activation mechanism of the RPS4-RRS1 immune receptor complex in Arabidopsis, showing that effector recognition triggers conformational changes that enable NADase activity.

Systems level phosphoproteomics reveals CAMKK2 driven kinase signaling underlying malignant phenotypes in gastric cancer

This study identifies CAMKK2 as a key driver of kinase signaling in gastric cancer through phosphoproteomic analysis, showing its role in promoting proliferation and malignant traits.