Antoine‐Emmanuel Saliba

This study shows TREM2 drives pro-scarring macrophage accumulation in infarcted myocardium, leading to fibrosis and reduced cardiac repair.

This study shows that M-CSF enhances alveolar macrophage function to protect against invasive aspergillosis in immunocompromised mice.

The paper uses temporal single-cell RNA-seq and other methods to study how Salmonella rewires macrophage gene expression and transcription factor activity during infection.

The paper identifies a microbiota-dependent type 3 immune response in mice during weaning that involves γδ T cells, which limit C. difficile growth and maintain intestinal barrier integrity.

The paper identifies a fibroblast-IL-7 feedback loop that promotes immunosuppressive monocyte-derived cells, which restrain CD4+ T cell responses during infection.

This study shows that murine cytomegalovirus infection exacerbates inflammation in Pkp2 mutant mice but not in Ttn mutant mice, highlighting the interaction between genetic predisposition and environmental factors in cardiomyopathy.

This study shows that neutrophils in the ischemic heart undergo terminal programming to drive fibrosis after myocardial infarction.

This study shows CD4+ T cells drive cardiomyopathy in Duchenne muscular dystrophy by promoting fibrosis and dysfunction, using Mdx mice and single-cell RNA sequencing.

This study identifies blood endothelial cells in secondary lymphoid organs as key APCs that prime donor CD4 T cells, leading to acute graft-versus-host disease.

This paper introduces UltraMarathonRT for scRNA-seq, revealing new transcriptomic features and demonstrating its utility in capturing additional genes and genomic elements.

This study shows RSV causes ciliated cell dedifferentiation and downregulates immune response genes, with IRF1 remaining expressed and reducing viral replication.

This paper introduces append editing, a method that uses ADP-ribosylation to achieve distinct genome editing outcomes in bacteria and eukaryotes.

This study identifies PAPP as a receptor for UPEC FimH binding, enabling bacterial invasion of luminal prostate cells in a murine organoid model.

Heterogeneity-seq identifies causal factors driving heterogeneous cellular responses by combining single-cell RNA-seq with metabolic labeling and double machine learning.

This paper uses neural networks to match disease states between human and hamster COVID-19 scRNAseq data, finding similar cellular responses in specific cell types across species.

The paper identifies a novel myosin antigen and specific CD8+ T cell receptors in C57BL/6 mice, expanding tools for studying heart-directed immune responses.

The paper shows that genetically perturbed myelin increases neuroinflammation-driven axon degeneration through immune-glial interactions in mice.

The paper identifies cytotoxic CNS-associated T cells as drivers of axon degeneration in PLP1 mutant mice through single-cell transcriptomics and functional experiments.

The paper identifies the spatial organisation and regulatory mechanisms of epithelial lineages at the gastroesophageal junction using multi-omics approaches and shows that Wnt microenvironments maintain homeostasis without lineage plasticity.

scSLAM-seq measures transcription dynamics in single cells by distinguishing newly synthesized from pre-existing RNA, revealing stochastic transcription and gene-specific differences.