proteomics

Serum protein profiling reveals hallmark-level aging trajectories and strain-specific resilience in CB6F1J and C57BL/6J male mice.

This paper uses serum protein profiling to identify aging trajectories and strain-specific resilience in mice, revealing pathway-level changes and heterogeneity between strains.

Respiration-Deficient Cells Require Pyruvate Carboxylase to Suppress Asparagine Auxotrophy

The paper shows that respiration-deficient cells rely on pyruvate carboxylase to prevent asparagine auxotrophy, with effects dependent on mitochondrial heteroplasmy levels.

DHX30 is a replication stress-responsive R-loop helicase that safeguards genome stability

This study identifies DHX30 as an R-loop helicase that resolves RNA:DNA hybrids, prevents replication stress, and maintains genome stability in human and zebrafish cells.

Kinetic Signatures of RAS-BRAF Engagement Reveal Isoform Selectivity, Oncogenic Amplification, and Mutation-Dependent Inhibitor Resistance

This study identifies kinetic differences in RAS-BRAF engagement between KRAS and NRAS, showing how oncogenic mutations and inhibitor sensitivity are influenced by these dynamics.

Asking the Data: Conversational Interrogation of LC-MS/MS Proteomics Data Sets with an LLM Agent

The paper introduces a conversational framework using an LLM agent to interrogate proteomics data sets, identifying issues in four LC-MS/MS datasets and demonstrating its feasibility in reanalyzing data.

N-glycoproteomic profiling of the hookworm Ancylostoma ceylanicum reveals heterogeneity and phosphorylcholine-modified glycans in larval and adult parasites.

This study performs N-glycoproteomic profiling of Ancylostoma ceylanicum, identifying stage-specific glycoproteins and phosphorylcholine-modified glycans in larval and adult parasites.

Lysosomal adaptation to extracellular acidity compromises CD8+ T cell cytotoxicity

This study shows that chronic extracellular acidosis remodels lysosomes in CD8+ T cells, impairing their cytotoxicity by depleting granzyme B through vesicle release.

Amino Acid Remodeling Precedes Malignant Transformation in Oral Epithelial Cells

The paper identifies distinct Raman and proteomic signatures in potentially malignant oral epithelial cells that differentiate them from healthy and malignant cells, highlighting amino acid metabolism changes as early indicators of malignancy.

Modeling of human MLH1 and MLH3 variants in mice reveals novel functions of MutLγ in meiotic DNA repair and the ovarian reserve

This study models human MLH1 and MLH3 variants in mice, revealing MutLγ's roles in meiotic DNA repair and ovarian reserve maintenance through multiple mechanisms.

Comparative Multi-omics Reveals Conserved Membrane Architecture and Selective Metabolic Cargo Enrichment Across Yeast-Derived Extracellular Vesicles

This study compares multi-omics data from yeast-derived extracellular vesicles to show conserved membrane architecture and strain-specific metabolic cargo enrichment.

Creatine phosphagen system regulates energy metabolism and growth of trophoblasts

This study investigates the role of the creatine phosphagen system in trophoblast development and shows that disrupting it impairs bioenergetics, proliferation, and survival.

Universal principles of protein resource allocation among cellular organelles revealed by yeast large-scale absolute quantitative proteomics

This study uses yeast large-scale absolute quantitative proteomics to reveal universal principles of protein resource allocation among cellular organelles and its relationship to physiological parameters and species divergence.

Proteomic Insights into Strong and Weak Biofilm Formation in Acinetobacter baumannii for Potential Therapeutic Targets

This study compares proteomic profiles of strong and weak biofilm-forming Acinetobacter baumannii isolates to identify potential therapeutic targets.

PBP1A and LdtJ support cell envelope homeostasis and impact selection of Colistin-resistance in Acinetobacter baumannii

This study identifies the functional interplay between PBP1A and LdtJ in Acinetobacter baumannii, showing that disrupting their coordination weakens the cell envelope and increases colistin resistance.

Early clonal dominance at priming sets the trajectory for broad HIV serum neutralization

The paper shows that early clonal dominance in B-cell precursors after vaccination predicts the breadth of HIV-neutralizing antibodies in rhesus macaques.

CD47 blockade augments anti-GD2 driven phagocytosis in vitro but fails to improve in vivo efficacy in immune competent, chemoresistant neuroblastoma preclinical models

This study shows CD47 blockade enhances anti-GD2 phagocytosis in vitro but does not improve in vivo efficacy in neuroblastoma models.

FennoTraits: Dataset of plant functional traits and community composition in northern European flora

The paper introduces FennoTraits, a dataset of plant functional traits and community composition from northern European flora, highlighting trait patterns and species distribution across seven study areas.

Affinity Maturation Enables Dual Targeting of Cancer-Associated MUC1-Tn/STn and Drives Potent Tumor Control

This study affinity-matures an antibody to recognize both MUC1-Tn and MUC1-STn glycoforms, enhancing its efficacy against heterogeneous tumors.

A Specific Ancestral Sequence Reconstruction of Flagellin Can Drive Motility in Salmonella enterica but not Escherichia coli

This study uses ancestral sequence reconstruction to generate flagellin sequences and tests their ability to restore motility in E. coli and S. Typhimurium, finding limited sequence tolerance and species-specific differences.

Early innate immune signatures correlate with Ad26.COV2.S vaccine durability and protective efficacy

This study identifies early innate immune signatures following Ad26.COV2.S vaccination that correlate with vaccine durability and protective efficacy in rhesus macaques and humans.

pamiR: INVESTIGATING PLANT CELLS ONE ORGANELLE AT A TIME

The paper introduces pamiR, a resource for plastid-specific gene silencing in plants, and demonstrates its use in identifying gene family members involved in plant physiology.

Lack of ancestral SARS-CoV-2 imprinting promotes BA.3.2.2 infection in children

This study shows that the lack of ancestral SARS-CoV-2 immune imprinting in children makes them more susceptible to BA.3.2.2 infection, as it evades neutralizing antibodies typically present in adults.

Tropomyosin 3.1 Regulates Chondrocyte Cortical F-actin Stability and Homeostasis

This study investigates how Tpm3.1 stabilizes cortical F-actin in chondrocytes and how its loss drives catabolic gene expression through YAP and MRTF.

Paired activity learning supports systematic identification of mutant-selective EGFR inhibitors

The paper develops a computational-experimental framework to identify mutant-selective EGFR inhibitors by leveraging paired activity measurements and structural analysis.

Mathematical AI Predicts 40% and 57% Influenza Vaccine Effectiveness Against H1N1 and H3N2, Respectively, for the 2026--2027 U.S. Season

The paper uses mathematical distances from HA sequences to forecast influenza vaccine effectiveness for the 2026--2027 season, predicting 40% and 57% effectiveness against H1N1 and H3N2, respectively.

Sequential vaccination matures VRC01-class HIV-1 neutralizing antibodies in humans

This study shows that sequential vaccination can mature VRC01-class B cells into antibodies that neutralize a broad range of HIV-1 viruses.

Horizontal transfer of an antimicrobial peptide across insects

The paper identifies horizontal gene transfer of the Drosomycin antimicrobial peptide gene across insect species, suggesting HGT contributes to immune system novelty and defense capabilities.

AKT1-phosphorylated TERT assembles a FOXO3-MYC transcriptional complex that drives ERphagy and proteostasis in post-mitotic RPE

This paper identifies an AKT1-TERT-FOXO3-MYC transcriptional complex that drives ERphagy and proteostasis in post-mitotic RPE cells under stress.

Identification by MALDI-TOF MS of Coleopteran insect pests collected in the field

This study evaluates MALDI-TOF MS for identifying Coleopteran pests, finding it effective for laboratory-reared specimens but with limitations for field-collected samples due to DNA degradation and low peak diversity.

Spatiotemporal proteomic profiling of genome editing-associated microenvironment

This study develops a Cas9-TurboID platform to map dynamic protein assemblies around genome editing sites and identifies factors that enhance editing efficiency in heterochromatic regions.