B. Schilling

Genomic heterogeneity and ploidy identify patients with intrinsic resistance to PD-1 blockade in metastatic melanoma

This study identifies genomic heterogeneity and ploidy as markers of intrinsic resistance to PD-1 blockade in metastatic melanoma, with a decision tree model predicting resistance with high confidence.

Sirt5 regulates chondrocyte metabolism and osteoarthritis development through protein lysine malonylation

This study identifies Sirt5's role in regulating chondrocyte metabolism and osteoarthritis through lysine malonylation, showing its dysregulation contributes to OA in aging and obesity.

Senescent cell heterogeneity and responses to senolytic treatment are related to cell cycle status during cell growth arrest.

This study identifies functionally distinct senescent cell subpopulations based on cell cycle status, showing G2-arrested cells secrete more IL-6 and are more sensitive to senolytic treatment.

Exosomes Released from Senescent Cells and Circulatory Exosomes Isolated from Human Plasma Reveal Aging-associated Proteomic and Lipid Signatures

This study identifies aging-associated proteomic and lipid signatures in exosomes from senescent cells and human plasma, revealing shared biomarkers and pathways linked to senescence and tissue damage.

A Fully-Automated Senescence Test (FAST) for the high-throughput quantification of senescence-associated markers

The paper introduces FAST, an automated method for high-throughput senescence quantification using image-based markers, showing it accurately measures senescence burden across cell types and reduces false positives.

β-hydroxybutyrate is a metabolic regulator of proteostasis in the aged and Alzheimer disease brain

This study identifies β-hydroxybutyrate as a metabolic regulator of protein solubility in aging and Alzheimer's disease, showing it reduces insolubility of pathological proteins like amyloid-β.

Concerted epithelial and stromal changes during progression of Barrett's Esophagus to invasive adenocarcinoma exposed by multi-scale, multi-omics analysis

This study uses multi-omics analysis to show coordinated changes in epithelial, stromal, and immune compartments during Barrett's Esophagus progression to adenocarcinoma, revealing early appearance of cancer-associated fibroblasts and immunosuppressive microenvironment.

Precision-engineered biomimetics: the human fallopian tube

The paper develops a precision-engineered multi-compartment organoid model of the human fallopian tube validated against a 3D single-cell reference map.

Dicarboxylic acid supplementation protects from acute kidney injury via stimulation of renal peroxisomal activity

This study shows that DC8 supplementation reduces AKI markers and promotes peroxisomal FAO over mitochondrial FAO in mice with kidney injury.

Localization and Quantification of Post-Translational Modifications of Proteins Using Electron Activated Dissociation Fragmentation on a Fast-Acquisition Time-of-Flight Mass Spectrometer

This study compares electron activated dissociation (EAD) to collision-induced dissociation (CID) for characterizing and quantifying labile protein post-translational modifications using a fast-acquisition mass spectrometer.

Deep Coverage and Quantification of the Bone Proteome Provides Enhanced Opportunities for New Discoveries in Skeletal Biology and Disease

This paper introduces a novel mass spectrometric workflow for deep bone proteome coverage and quantification, identifying key proteins and post-translational modifications relevant to bone aging and disease.

Ketone body metabolism declines with age in mice in a sex-dependent manner

This study shows that ketone body metabolism declines with age in mice, with sex-dependent differences in metabolic responses to a ketogenic diet.

In-depth Analysis of the Sirtuin 5-regulated Mouse Brain Acylome using Library-free Data-Independent Acquisitions

This study presents a DIA-based workflow to analyze PTMs in mouse brains, identifying SIRT5-regulated malonylation and succinylation sites and their impact on metabolic and neurodegenerative pathways.

Data-Independent Acquisition and Quantification of Extracellular Matrix from Human Lung in Chronic Inflammation-Associated Carcinomas

The paper develops a proteomic pipeline to analyze ECM remodeling in lung squamous cell carcinoma, identifying 529 differentially expressed proteins and potential biomarkers.

Coenzyme A binding sites induce proximal acylation across protein families

The paper identifies that CoA-binding sites promote proximal lysine acylation in mitochondria through computational analysis and experimental validation.

SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein

This study identifies SIRT5 as a proviral factor that interacts with SARS-CoV-2 Nsp14, enhancing viral replication and suggesting it as a therapeutic target.

Comprehensive Proteomic Quantification of Bladder Stone Progression in a Cystinuric Mouse Model Using Data-Independent Acquisitions

This study uses proteomic analysis in a cystinuria mouse model to identify proteomic changes during bladder stone progression, highlighting key pathways involved in stone growth and recurrence.

Comprehensive Profiling of Plasma Exosomes Using Data Independent Acquisitions, New Tools for Aging Cohort Studies

The paper develops a method to isolate and analyze plasma exosomes, identifying age-related protein and miRNA differences in an aging cohort.

Differential effects of PD-1 and CTLA-4 blockade on the melanoma-reactive CD8 T cell response

The paper shows PD-1 blockade in melanoma patients does not increase the breadth or magnitude of melanoma-reactive CD8 T cells in peripheral blood, suggesting PD-1 acts mainly at the tumor site.

Improved SILAC quantification with data independent acquisition to investigate bortezomib-induced protein degradation

This paper improves SILAC quantification using DIA to study bortezomib-induced protein degradation, finding enhanced accuracy and sensitivity in protein turnover models.

A Proteomic Atlas of Senescence-Associated Secretomes for Aging Biomarker Development

The paper develops a proteomic atlas of senescence-associated secretomes to identify aging biomarkers, finding that GDF15, STC1, and SERPINs correlate with age in human plasma.

Aging-related inflammation driven by cellular senescence enhances NAD consumption via activation of CD38+ macrophages

This study identifies CD38+ macrophages as a driver of NAD decline during aging through inflammation linked to cellular senescence in metabolic tissues.

Global lysine acetylation in Escherichia coli results from growth conditions that favor acetate fermentation

This study shows that lysine acetylation in E. coli is primarily influenced by sugar concentration rather than the type of sugar, with higher concentrations leading to more acetylation.

Identification of novel protein lysine acetyltransferasesin Escherichia coli

This study identifies four new Nε-lysine acetyltransferases in E. coli and shows they have distinct substrate specificity and regulatory roles in bacterial motility.