A. Franke

Discovery of rare antigen-specific TCRs via replicate profiling

The paper develops a high-throughput TCR discovery assay to identify antigen-specific T cells, finding over 90 SARS-CoV-2-specific TCR clonotypes in one donor and nearly 1,000 in five donors.

Antigen-driven expansion of public clonal T cell populations in inflammatory bowel diseases

The paper identifies public TCRB sequences expanded in CD or UC, associated with HLA alleles and antigen-specific immune responses, showing differential expansion in CD compared to UC and healthy controls.

Splicing-aware resolution of scRNA-Seq data

The paper introduces SANSARA, a method for splicing-aware scRNA-Seq analysis, revealing splicing heterogeneity in T cell subsets and interactions between transcription factors.

Cell therapy with human iPSC-derived cardiomyocyte aggregates leads to efficient engraftment and functional recovery after myocardial infarction in non-human primates

This study transplants human iPSC-derived cardiomyocyte aggregates into non-human primates with myocardial infarction, showing efficient engraftment and functional recovery with lower cell doses than previous single-cell approaches.

Repertoire-based mapping and time-tracking of helper T cell subsets in scRNA-Seq

This paper introduces TCR-Track, a method to map and track helper T cell subsets in scRNA-Seq data, revealing their clonal relationships and functional programs over time.

Tryptophan wasting and disease activity as a systems phenomenon in inflammation - an analysis across 13 chronic inflammatory diseases.

This study examines tryptophan wasting across 13 chronic inflammatory diseases, finding reduced serum tryptophan levels and increased kynurenine pathway activity linked to disease activity.

p90RSK2, a new MLCK, rescues contractility in myosin light chain kinase null smooth muscle

The paper shows RSK2 compensates for MLCK loss in smooth muscle contractility through a novel signaling pathway involving PDK1 and Erk1/2.

Amino acid auxotrophies in human gut bacteria are linked to higher microbiome diversity and long-term stability

This study links amino acid auxotrophies in human gut bacteria to increased microbiome diversity and long-term stability through a combined metabolomic, metagenomic, and metabolic modeling approach.

Functional host-specific adaptation of the intestinal microbiome in hominids

The paper analyzes gut microbiome composition and function across hominids to identify host-specific adaptations and evolutionary changes.

Characterization of SARS-CoV-2 public CD4+ αβ T cell clonotypes through reverse epitope discovery

The paper identifies public CD4+ T cell clonotypes reactive to SARS-CoV-2 and predicts their HLA-restriction and epitopes using reverse epitope discovery.

Protective and aggressive bacterial subsets and metabolites modify hepatobiliary inflammation and fibrosis in PSC.

This study identifies protective and aggressive bacterial subsets and metabolites in PSC patients and mice, showing their impact on hepatobiliary inflammation and fibrosis.

Sugar Signaling Induces Dynamic Changes during Meristem Development to Regulate Flowering in Arabidopsis

The paper shows sugar signaling regulates flowering in Arabidopsis by linking meristem maintenance regulators to the age pathway through dynamic feedback loops.

Primate phageomes are structured by superhost phylogeny and environment

The study examines primate phageomes across 23 wild non-human primate taxa, revealing phylosymbiotic patterns and social transmission of phages.

Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T cell memory formation after mild COVID-19 infection

This study tracks T cell memory formation after mild COVID-19 infection using longitudinal TCR sequencing, showing clonal expansion and memory phenotype acquisition in infected individuals.

Arrhythmic gut microbiome signatures for risk profiling of Type-2 Diabetes

The paper identifies arrhythmic gut microbiome signatures associated with Type-2 Diabetes risk and validates them in a separate cohort.

Neolithic genomes reveal a distinct ancient HLA allele pool and population transformation in Europe

The paper analyzes Neolithic genomes from Germany to show genetic heterogeneity and a high hunter-gatherer ancestry component in a WBC population, with distinct HLA allele pools related to viral immunity.

Comprehensive analysis of antiviral adaptive immunity formation and reactivation down to single-cell level

The paper tracks T-cell clone dynamics and TCR repertoire changes after primary and secondary yellow fever vaccination using single-cell RNAseq and TCRseq.

Hemibiotrophic fungal pathogen induces systemic susceptibility and systemic shifts in wheat metabolome and microbiome composition

This study investigates how the hemibiotrophic fungus Zymoseptoria tritici induces systemic susceptibility in wheat by suppressing immune-related metabolites and altering the leaf microbiome.

Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms