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Methods and applications for single-cell and spatial multi-omics KU Leuven
The joint analysis of the genome, epigenome, transcriptome, proteome and/or metabolome from single cells is transforming our understanding of cell biology in health and disease. In less than a decade, the field has seen tremendous technological revolutions that enable crucial new insights into the interplay between intracellular and intercellular molecular mechanisms that govern development, physiology and pathogenesis. In this Review, we ...
Single-cell spatial multi-omics and deep learning dissect enhancer-driven gene regulatory networks in liver zonation KU Leuven Vlaams Instituut voor Biotechnologie
In the mammalian liver, hepatocytes exhibit diverse metabolic and functional profiles based on their location within the liver lobule. However, it is unclear whether this spatial variation, called zonation, is governed by a well-defined gene regulatory code. Here, using a combination of single-cell multiomics, spatial omics, massively parallel reporter assays and deep learning, we mapped enhancer-gene regulatory networks across mouse liver cell ...
The multi-omics single-cell landscape of sinus mucosa in uncontrolled severe chronic rhinosinusitis with nasal polyps Universiteit Gent Vlaams Instituut voor Biotechnologie
Uncontrolled severe chronic rhinosinusitis with nasal polyps (CRSwNP) is associated with elevated levels of type 2 inflammatory cytokines and raised immunoglobulin concentrations in nasal polyp tissue. By using single-cell RNA sequencing, transcriptomics, surface proteomics, and T cell and B cell receptor sequencing, we found the predominant cell types in nasal polyps were shifted from epithelial and mesenchymal cells to inflammatory cells ...
Single-Cell Analyses in the Multi-omics Era. Vlaams Instituut voor Biotechnologie KU Leuven
A multi-omics genome-plus-transcriptome single-cell atlas of human preimplantation development KU Leuven
The human genome is considered stable throughout development. However, recent analyses of human single cells -particularly of human preimplantation embryos following in vitro fertilization as well as of normal human primary tissue- challenge this dogma. Amazingly little is known about the true rate at which somatic DNA-mutation occurs, the different natures of the acquired mutations, as well as the cellular responses and selection processes that ...
Functional Precision Oncology: The Next Frontier to Improve Glioblastoma Outcome? KU Leuven
Glioblastoma remains the most malignant and intrinsically resistant brain tumour in adults. Despite intensive research over the past few decades, through which numerous potentially druggable targets have been identified, virtually all clinical trials of the past 20 years have failed to improve the outcome for the vast majority of GBM patients. The observation that small subgroups of patients displayed a therapeutic response across several ...
Development of novel methods for single-cell whole-genome amplification to study cancer heterogeneity. KU Leuven
All the cells in a human body have arisen from one single cell, the zygote. Throughout development cells divide, make fate decisions, and transition between different cell types and cell states. Every cell division the genetic code is copied and passed on to the daughter cells. While this is under tight control, mistakes do occur. In most cases these mutations have no effect, but they can have severe consequences as is exemplified by the birth ...
Bioinformatics for single-cell genome sequence analyses to study genome instability and intra-tumour genetic heterogeneity at high resolution KU Leuven
Although all cells in a human body are descendant from a single cell –i.e. the zygote– the genetic content in the different cells is not necessarily identical due to the accumulation of mutations during development and aging, making every individual a genetic mosaic. Such mutations may lead to the development of disease, like cancer or developmental disorders. Hence, it is important to study the spectrum of mutations that accumulate in a human ...
Single-cell profiling and zebrafish avatars reveal LGALS1 as immunomodulating target in glioblastoma KU Leuven Vlaams Instituut voor Biotechnologie
Glioblastoma (GBM) remains the most malignant primary brain tumor, with a median survival rarely exceeding 2 years. Tumor heterogeneity and an immunosuppressive microenvironment are key factors contributing to the poor response rates of current therapeutic approaches. GBM-associated macrophages (GAMs) often exhibit immunosuppressive features that promote tumor progression. However, their dynamic interactions with GBM tumor cells remain poorly ...