Iwijn De Vlaminck

This study reveals synchronized temporal dynamics in the mouse gut microbiome using high-resolution sampling and analysis methods, showing phase-coherent groups linked to host circadian cycles.

The paper shows that in mixed E-qM breast tumors, qM cancer cells create immunosuppressive niches leading to MHC-I downregulation and immune evasion.

The paper analyzes canine glioma samples to reveal heterogeneous intratumoral niches with distinct cell plasticity and immunosuppression patterns, highlighting similarities to human gliomas.

This study uses high-resolution spatial transcriptomics to map viral tropism and immune responses in neonatal mouse brains infected with reovirus, revealing spatial patterns of infection and immune module organization.

This study identifies Notch3 as a non-canonical organizer of intestinal lymphatic niche development through PDGFR{beta} cell signaling.

This study uses single-nucleus RNA-seq to identify unique neuroepithelial features in canine acanthomatous ameloblastoma, revealing ERBB4 as a therapeutic target.

This study benchmarks large language models for disease classification using plasma cell-free RNA profiles, showing their potential in gene-panel design and end-to-end modeling for diagnostics.

Smoothie denoises spatial transcriptomics data and constructs co-expression networks to detect gene modules and annotate functions across tissues and conditions.

This study uses micropatterned cardioids to investigate mesoderm-endoderm interactions in heart development, finding that pattern size affects cavity formation and signaling.

The paper compares plasma cell-free RNA and protein levels in children with inflammatory diseases, finding minimal correlation but similar diagnostic utility for distinguishing Kawasaki Disease from MIS-C.

This study uses single-cell RNA sequencing to show that SOCE blockers BTP2 and CM4620 reduce cytotoxicity in CD8 T cells and NK cells while preserving anti-inflammatory programs in CD4 Tregs.

The paper introduces AIR-SPACE, a method combining spatial transcriptomics and immune receptor sequencing to map adaptive immune responses in lymph nodes post-viral infection, revealing spatial dynamics of immune cell activation and differentiation.

The paper generates a spatiotemporal atlas of heart development using flow perturbations and spatial transcriptomics to study how blood flow affects cellular, structural, and metabolic remodeling.

This study uses spatial transcriptomics to identify CD8+ T cell-driven mechanisms of kidney damage in ICI-AIN, showing increased IFN-γ signaling and proinflammatory myeloid cell activation.

This study shows that epithelial-mesenchymal plasticity in canine mammary carcinomas is linked to immunosuppressive features and recruitment of immunosuppressive cells.

The paper introduces HiPR-Map, a spectral imaging technology for high-phylogenetic-resolution spatial mapping of microbial communities, and applies it to analyze an LBP in the murine gut.

The paper uses single-cell sequencing to uncover hidden genetic diversity in pediatric ALL that is not detected by bulk sequencing, identifying treatment-resistant clones and their associated mutations.

The paper introduces a method to map microbiome-host interactions in the gut at high spatial resolution using in situ polyadenylation and spatial RNA sequencing, revealing microbial biogeography and host-microbe interactions in a mouse model.

The paper examines spatial bacterial arrangement in oral biofilms from healthy and diseased implants, finding that disease is associated with single-genus patches and proposing spatial structure as a biomarker for microbiome stability.

This study shows that bone mineral density influences tumor growth by altering microenvironmental complexity in an organism-dependent manner.

This study identifies NE rupture in LMNA-DCM cardiomyocytes as a driver of transcriptomic changes and immune activation, which can be reversed by LINC complex disruption.

This study uses plasma cell-free RNA profiles to monitor immune dynamics and predict graft-versus-host disease (GVHD) after hematopoietic stem cell transplantation.

This study identifies the origin and renewal mechanisms of gut lacteal smooth muscles from villus myofibroblasts in mice, revealing a NOTCH3-DLL4 signaling role in their development and function.

This study maps the spatiotemporal molecular changes during mouse ovary follicle maturation and ovulation, identifying key cell-type-specific programs and interactions.

This study uses spatiotemporal transcriptomics to map reovirus-induced myocarditis in neonatal mice, revealing immune responses and cellular interactions in the heart and intestine.

This paper uses a mouse lemur transcriptomic atlas to identify new genes, splice junctions, and disease-related features, highlighting their relevance to primate biology and human disease.

The paper introduces Coffee-seq, a metagenomic DNA sequencing method that reduces environmental contamination, and applies it to detect infections and microbial signatures in clinical samples.

This paper introduces a method to spatially map the total transcriptome by enabling detection of non-polyadenylated RNAs through in situ polyadenylation.

The paper creates an organism-wide hormone signaling atlas in mouse lemurs, identifying hormone-producing and -target cells and revealing species-specific rewiring and conservation compared to humans and mice.

The paper creates a comprehensive cell atlas of mouse lemurs using single-cell RNA sequencing, identifying over 750 cell types and comparing their molecular profiles to humans, mice, and macaques.