Philipp Kirchner

Cross-Cohort Optimal Transport Maps Macrophage Plasticity and Competing Routes to Inflammation and Fibrosis in Human Atherosclerotic Plaques

The paper develops a computational framework using optimal transport to analyze macrophage state transitions in atherosclerosis, identifying origin-dependent plasticity mechanisms and shared regulatory circuits in inflammation and fibrosis.

Aberrant brain-type neuronal programs in large-cell pancreatic neuroendocrine carcinoma

The paper identifies two neuroendocrine cell states in large-cell pancreatic neuroendocrine carcinoma using single-nucleus transcriptomics, revealing an aberrant brain-type neuronal program and a stress-responsive state.

Exonuclease ISG20 inhibits human cytomegalovirus replication by inducing an innate immune defense signature

This study identifies ISG20 as an antiviral factor against HCMV by inducing an innate immune defense signature that enhances IFN production and response.

IgA displays site- and subclass-specific glycoform differences despite equal glycoenzyme expression

The paper compares glycosylation patterns of IgA1 and IgA2, finding subclass-specific differences despite similar glycosylation enzyme expression.

Dual inhibition of lactate transporters MCT1 and MCT4 in pancreatic neuroendocrine tumors targets metabolic heterogeneity and functional redundancy

The paper investigates MCT1 and MCT4 expression in PanNETs, showing their role in metabolic heterogeneity and functional redundancy, and demonstrates that dual inhibition targets tumor aggressiveness.

Morpho-molecular features of Epithelial Mesenchymal Transition associate with clinical outcome in patients with rectal cancer

The paper links morpho-molecular features of epithelial-mesenchymal transition (EMT) in rectal cancer biopsies to clinical outcomes, showing their association with survival after chemoradiotherapy.

scRNA-Sequencing uncovers a TCF-4-dependent transcription factor network regulating commissure development

The paper identifies a TCF-4-dependent transcription factor network regulating commissure development in mice using scRNA-seq and bioinformatic analysis.

CRNKL1 is a highly selective regulator of intron-retaining HIV-1 and cellular mRNAs

The paper identifies CRNKL1 as a regulator that enhances nuclear retention of intron-retaining HIV-1 and cellular mRNAs, affecting their cytoplasmic levels.