Sören Franzenburg

The paper identifies negative hysteresis as a robust phenomenon in Pseudomonas aeruginosa that enhances antibiotic efficacy through increased aminoglycoside uptake after beta-lactam treatment.

This study benchmarks porcine pancreatic ductal organoids (PPDO) against human pancreatic ductal organoids (HPDO) and primary porcine pancreas using scRNA-Seq, showing PPDO's potential for drug screening with conserved toxicity profiles.

The paper shows that sea urchin eggs incorporate plastid components, which enhance offspring developmental fitness and survival by influencing phytohormone regulation and lipid use.

The paper tests local adaptation in Arctic asexual Daphnia using respiration rates and genome sequencing, finding two genetic clusters with distinct metabolic adaptations to oxygen environments.

This study compares trio, singleton, and standard genome sequencing in rare disease diagnosis, finding trio sequencing has the highest diagnostic yield.

This paper uses metatranscriptomics and metabolic modeling to analyze patient-specific urinary microbiomes during infection, identifying metabolic dependencies and potential interventions for antibiotic-resistant UTIs.

This study improves the safety of stem cell-derived islets by enriching endocrine cells and reducing off-target cell types, enhancing long-term in vivo outcomes.

This study evaluates how methodological choices in bulk TCR-Seq affect T cell repertoire profiling, finding that RNA/DNA quality significantly impacts results and that low quantities can be partially compensated by increasing PCR cycles.

The paper integrates multi-omics data from mice to identify molecular features linked to aging-related cognitive decline, highlighting systemic inflammation and microbiome-driven gut-brain axis dysfunction.

This study investigates alternative splicing and miRNA regulation in a zebrafish FSGS model, identifying key splicing events and miRNAs associated with disease progression.

This study uses exome sequencing to identify genetic variants in dystonia patients, finding 137 likely pathogenic variants in 51 genes and expanding the known phenotypic spectrum of dystonia-related genes.

This study shows that JAK/STAT signaling in Drosophila airway epithelia must be balanced to maintain homeostasis and stress adaptation, with both insufficient and excessive activity causing pathology.

The paper shows that two RDRs in Paramecium are required to convert exogenous dsRNA into siRNAs for RNAi, contrasting with known functions in other organisms.

This study shows that extracellular vesicles from Entamoeba histolytica drive pro-inflammatory monocyte signaling, contributing to male-biased immunopathology in amebic liver abscesses.

The paper identifies differentially expressed lncRNAs in Alzheimer's disease brains using RNA-seq data from multiple studies and brain regions.

This study uses multi-omics and metabolic modeling in mice to show that aging reduces host-microbiome metabolic interactions, affecting key host pathways involved in intestinal barrier function and homeostasis.

The paper provides sequencing depth guidelines for comprehensive alternative splicing analysis across tissues, showing that current depths are insufficient and recommending deeper sequencing or long-read technologies.

This study shows that sedentary life in zoo-housed King penguins accelerates epigenetic ageing, similar to humans, linked to methylation changes in metabolic and heart-related pathways.

The paper shows that Hydra's microbiota influences stem cell decision making, affecting budding capacity through changes in chromatin and transcriptomic landscapes.

The paper shows FoxO factors in Drosophila, mouse, and human airway epithelial cells respond to stressors by nuclear translocation, with FoxO-dependent stress pathways altered in asthma across species.

This study examines transcriptomic responses of two sponge species to different microbial consortia, finding species-specific immune gene expression and a role for NLRs in microbial discrimination.

This study identifies four novel DNA methylation loci in the entorhinal cortex associated with Alzheimer's disease and finds significant epigenetic age acceleration in patients.

The paper identifies SATB1 as a tissue-specific genome organizer that regulates 3D enhancer networks in developing T cells, affecting immune system homeostasis and lineage specification.

The paper identifies differentially expressed miRNAs in two brain regions of Alzheimer's patients using qPCR and RNA-seq, highlighting potential targets involved in AD pathogenesis.

This study characterizes the genomes of mouse lines selected for specific traits over 140 generations, revealing genetic variation and candidate genes associated with fertility, obesity, and endurance.

This paper introduces Swarm Learning, a decentralized machine learning approach for disease classification using transcriptomic data, demonstrating its effectiveness in developing classifiers for COVID-19, tuberculosis, and leukemias while preserving privacy.

The paper identifies two peptides, Eco1 and Eco2, regulated by bacteria and temperature that modulate beta-catenin signaling and pattern formation in Hydra.