proteomics

Optimization of Search and Acquisition Strategies for DSSO Crosslinking Mass Spectrometry using Protein Prospector and Touchstone.

The paper evaluates DSSO crosslinking strategies using Protein Prospector and Touchstone, finding that DSSO's advantage comes from backbone fragmentation, not diagnostic ions, and that MS3 is better for proteome-scale samples.

Proteomic mapping of novel tubulin post-translational modifications in Trypanosoma cruzi cytoskeleton

The paper identifies and maps novel tubulin post-translational modifications in Trypanosoma cruzi using proteomic analysis.

P4HA1 and P4HA2 accept both shared and isoenzyme-specific substrate residues in type I collagen to directly and indirectly orchestrate its post-translational modification landscape

This study investigates the substrate specificity of P4HA1 and P4HA2 in collagen post-translational modifications using proteomic and peptide analysis in mouse cells.

Subcellular spatial proteomics of the heterotrophic nanoflagellate, Cafeteria roenbergensis

This study uses subcellular spatial proteomics to map protein localization in Cafeteria roenbergensis, identifying 2,945 proteins across 14 compartments.

Rational Design of a Photoactivated Fluorescent Probe for Thiol-ene Mediated Protein Labelling

This paper introduces a photoactivated fluorescent probe, AbzSH, for selective alkene labelling in proteins and complex biological samples.

Benchmarking the Performance of a Commercial Electrostatic Linear Ion Trap (ELIT) Charge Detection Mass Spectrometer For Higher-Order Antibody Aggregate Analysis

This study evaluates a commercial CDMS platform for analyzing higher-order antibody aggregates, showing its ability to measure mass and charge with high precision and differentiate complex ion populations.

Allosteric covalent inhibition of cereblon through cryptic cysteine targeting

The paper identifies covalent ligands targeting a cryptic cysteine in CRBN, demonstrating their ability to inhibit neosubstrate degradation by trapping CRBN in an inactive conformation.

Dietary Exposure to Purified Gliadins and Avenins: Effects on Intestinal and Immune Responses in BALB/c Mice

This study evaluates the effects of dietary gliadin and avenin on intestinal and immune responses in mice, finding differential impacts on villus length, IgG responses, and proteomic profiles.

Protein Response to ACL Injury in Humans Show Early Cartilage Remodeling and Sex-Specific Effects

The paper identifies sex-specific protein responses in human cartilage after ACL injury, showing early remodeling and differences in inflammation, metabolism, and ECM pathways.

Cholesterol constrains pore formation by mammalian gasdermins

This study identifies Rabgef1 as a regulator of gasdermin pore formation by controlling membrane cholesterol, showing cholesterol depletion restores pyroptosis in cancer cells and tumors.

Reverse engineering Lewy bodies suggests alpha-synuclein pathology as condensatopathy

The paper shows that alpha-synuclein phase separation can form Lewy body-like structures without pre-existing seeds, suggesting a new mechanism for neurodegeneration.

Dishevelled2 Condensates control Axon Initial Segment (AIS) assembly and function through MTCL1-Dependent microtubule recruitment.

This study identifies Dvl2 as a novel component of the axon initial segment (AIS) and reveals its role in AIS assembly through MTCL1-dependent microtubule recruitment.

Thermotolerant pollen tube growth is controlled by RALF signaling.

This study identifies RALF signaling as a regulator of thermotolerant pollen tube growth in tomato, showing that RALF peptides repress germination at normal temperatures but are antagonized by heat stress.

Does specific membrane surface area constrain Escherichia coli energy spillage and therefore aerobic and anaerobic growth rates?

This study quantifies how specific membrane surface area (sMSA) constrains Escherichia coli growth rates and energy metabolism across aerobic and anaerobic conditions.

Cytoplasmic recapping commences the translation of a micropeptide, MARS from MALAT1 after the removal of an inhibitory RNA G-quadruplex

This study shows that cytoplasmic recapping of MALAT1 produces the micropeptide MARS, which is regulated by RNA G-quadruplex structures and involved in oxidative stress response.

Xenoglycosylation of the HIV-1 Glycan Shield Promotes Cross-Clade Neutralization and Diverse Human Antibody Lineages

This study shows that xenoglycosylation of HIV-1 Env with core (1,3)-fucose enhances cross-clade neutralization and diversifies human antibody lineages.

NoiTox: A Machine Learning Strategy for Peptide Toxicity Prediction Reveals Label Noise in Benchmark Datasets

NoiTox presents a multi-model approach for peptide toxicity prediction, revealing label noise in datasets and showing that physicochemical descriptors are informative.

Boldine prevents diabetes-induced skeletal muscle dysfunction by inhibiting large-pore channels

This paper shows boldine prevents diabetes-induced skeletal muscle dysfunction by inhibiting large-pore channels and reducing inflammation and lipid accumulation.

Bringing the Lab to the Field: Exploring Water-Borne Corticosterone as a Physiological Indicator in Captive and Wild Common Frog Larvae (Rana temporaria)

This study evaluates water-borne corticosterone as a physiological indicator in common frog larvae, finding it reflects internal corticosterone but does not detect nitrate stress responses.

Parallels in leg and wing proximal-distal patterning in Diptera and Lepidoptera

The paper compares proximal-distal gene expression patterns in leg and wing development across Diptera and Lepidoptera, finding conserved regulatory networks and lineage-specific changes.

Development, validation and clinical implementation of cellular swab materials for quality assurance of pharmacogenomic point-of-care testing

The paper develops and validates cell-based swab materials for pharmacogenomic point-of-care testing, demonstrating their effectiveness in quality assurance and external quality assessment.

Spatial Tumour Tissue Distribution Dynamics of a Bicycle Peptide-MMAE Toxin Conjugate Profiled by Targeted Mass Spectrometry

This paper develops a spatial pharmacology workflow using LCM-LC-PRM to profile MMAE distribution in tumour and healthy tissues, revealing heterogeneous and time-dependent accumulation patterns.

Microfluidic Extraction of Extracellular Vesicle-Associated Nucleic Acids for Downstream Molecular Analysis

The paper develops a microfluidic workflow for extracting EV-associated nucleic acids from biofluids and demonstrates its compatibility with downstream molecular analysis.

Noncanonical CD11b on CD8+ T cells promotes cytotoxic effector function

This study identifies CD11b as a noncanonical marker of cytotoxic competence in CD8+ T cells, enhancing their antitumor activity in mouse and human tumors.

The modulatory effects of Hericium erinaceus and donepezil on amyloid accumulation and autophagy-associated clearance in Aβ1-42-induced N2a cells

This study evaluates the effects of Hericium erinaceus and donepezil on amyloid accumulation and autophagy in Aβ1-42-induced N2a cells, finding synergistic effects on cell viability and protein expression.

Post-assembly proteostasis of the respiratory chain is independent of respirasome organization

This study shows that respirasomes are not essential for maintaining respiratory-chain complexes after their assembly, even under mitochondrial stress or impaired OXPHOS biogenesis.

Early-onset spontaneous murine mammary tumors show increased lymphocyte representation and reduced MHC antigen presentation

This study shows that introducing the PWK/PhJ genetic background in HER2/neu-driven breast cancer mice leads to earlier tumor onset, increased immune cell presence, and reduced MHC antigen presentation.

AMPK Signalling Rewires WWP1 mediated RUNX1 Ubiquitination in CML Progression

This study identifies WWP1 as a regulator of RUNX1 ubiquitination in CML, showing that AMPK modulates WWP1 and RUNX1 phosphorylation to influence leukemic progression.

Membrane proteomics of the Drosophila circadian neural network

The paper identifies novel membrane proteins in Drosophila circadian neurons and shows their roles in regulating locomotor rhythms under different photoperiods.

Unifying N- and O-glycopeptide dissociation methods with expedient electron transfer dissociation

This paper improves ETD-based fragmentation for glycopeptide analysis by optimizing ion handling and scan parameters, making it faster and more efficient for both N- and O-glycopeptides.