A5024552119- Single-cell and spatial transcriptomics
- Cancer Genomics and Diagnostics
- Genetic Associations and Epidemiology
- Atherosclerosis and Cardiovascular Diseases
- Immune Cell Function and Interaction
- T-cell and B-cell Immunology
- Bioinformatics and Genomic Networks
- Gene expression and cancer classification
- Renal Diseases and Glomerulopathies
- Renal and related cancers
- Adipokines, Inflammation, and Metabolic Diseases
- Healthcare Technology and Patient Monitoring
- IL-33, ST2, and ILC Pathways
- Gut microbiota and health
- Renal and Vascular Pathologies
- Systemic Lupus Erythematosus Research
- Cardiac Fibrosis and Remodeling
- Clinical Nutrition and Gastroenterology
- Diabetes and associated disorders
- Inflammatory Bowel Disease
- Genetic and Kidney Cyst Diseases
- Intravenous Infusion Technology and Safety
- Sex and Gender in Healthcare
- Renal Transplantation Outcomes and Treatments
- Pluripotent Stem Cells Research
University of Groningen
2020-2024
Oncode Institute
2020-2024
University Medical Center Groningen
2020-2024
University Medical Center Utrecht
2024
Ludwig-Maximilians-Universität München
2024
German Centre for Cardiovascular Research
2024
Technical University of Munich
2024
Dialyse Centrum Groningen
2023
Identification of therapeutic targets from genome-wide association studies (GWAS) requires insights into downstream functional consequences. We harmonized 8,613 RNA-sequencing samples 14 brain datasets to create the MetaBrain resource and performed cis- trans-expression quantitative trait locus (eQTL) meta-analyses in multiple region- ancestry-specific (n ≤ 2,759). Many 16,169 cortex cis-eQTLs were tissue-dependent when compared with blood cis-eQTLs. inferred cell types for 3,549 by...
Abstract The host’s gene expression and regulatory response to pathogen exposure can be influenced by a combination of the genetic background, type time pathogens. Here we provide detailed dissection this using single-cell RNA-sequencing 1.3M peripheral blood mononuclear cells from 120 individuals, longitudinally exposed three different These analyses indicate that cell-type-specificity is more prominent factor than pathogen-specificity regarding contexts affect how genetics influences...
Abstract Acute and chronic coronary syndromes (ACS CCS) are leading causes of mortality. Inflammation is considered a key pathogenic driver these diseases, but the underlying immune states their clinical implications remain poorly understood. Multiomic factor analysis (MOFA) allows unsupervised data exploration across multiple types, identifying major axes variation associating with molecular processes. We hypothesized that applying MOFA to multiomic obtained from blood might uncover hidden...
The immune system's role in ST-segment-elevated myocardial infarction (STEMI) remains poorly characterized but is an important driver of recurrent cardiovascular events. While anti-inflammatory drugs show promise reducing recurrence risk, their broad system impairment may induce severe side effects. To overcome these challenges, a nuanced understanding the response to STEMI needed.
Expression quantitative trait loci (eQTL) studies are used to interpret the function of disease-associated genetic risk factors. To date, most eQTL analyses have been conducted in bulk tissues, such as whole blood and tissue biopsies, which likely mask cell type-context regulatory effects. Although this context can be investigated by generating transcriptional profiles from purified subpopulations, current methods do labor-intensive expensive. We introduce a new method, Decon2, framework for...
Genetic testing in patients with suspected hereditary kidney disease may not reveal the genetic cause for disorder as potentially pathogenic variants can reside genes that are yet known to be involved disease. We have developed KidneyNetwork, utilizes tissue-specific expression inform candidate gene prioritization specifically diseases. KidneyNetwork is a novel method constructed by integrating RNA-sequencing co-expression network of 878 samples multi-tissue 31,499 samples. It uses patterns...
Human induced pluripotent stem cell (hiPSC)-derived intestinal organoids are valuable tools for researching developmental biology and personalized therapies, but their closed topology relative immature state limits applications. Here we use organ-on-chip technology to develop a hiPSC-derived barrier with apical basolateral access in more physiological vitro microenvironment. To replicate growth factor gradients along the crypt-villus axis, locally exposed cells expansion differentiation...
Abstract The role of the immune system during and in response to acute myocardial infarction (MI) is poorly characterized but an important driver recurrent cardiovascular events. Anti-inflammatory drugs have shown promising effects on lowering this recurrency risk, broadly impair may induce severe side effects. To overcome these challenges a more detailed understanding needed. For this, we compared peripheral blood mononuclear cell (PBMC) single-cell RNA-sequencing expression plasma protein...
Abstract Acute and chronic coronary syndromes (ACS CCS) are leading causes of mortality. Inflammation is considered to be a key pathogenic driver, but immune states in humans their clinical implications remain poorly understood. We hypothesized that Multi-Omic blood analysis combined with Factor Analysis (MOFA) might uncover hidden sources variance providing pathophysiological insights linked needs. Here, we compile single cell longitudinal dataset the circulating ACS & CCS (13x10 3...
Abstract Background Occlusions of intravenous (IV) tubing can prevent vital and time-critical medication or solutions from being delivered into the bloodstream patients receiving IV therapy. At low flow rates (≤ 1 ml/h) alarm delay (time to an alert user) be up 2 h using conventional pressure threshold algorithms. In order reduce delays we developed evaluated performance two new real-time occlusion detection algorithms one co-occlusion detector that determines correlation in trends changes...
Multi-drug intravenous (IV) therapy is one of the most common medical procedures used in intensive care units (ICUs), operating rooms, oncology wards and many other hospital departments worldwide. As drugs or their solvents are frequently chemically incompatible, solutions must be administered through separate lumens. When number available lumens too low to facilitate safe administration these solutions, additional (peripheral) IV catheters often required, causing physical discomfort...
Abstract Immunosenescence, the gradual deterioration of immune system with age, leads to an increased susceptibility a range diseases associated dysfunction. Notably, sex is important variable underlying how aging unfolds, as, for instance, autoimmunity develops differently between males and females. Even though some clinical molecular differences have been identified male female immunosenescence, it not known what extent affects dynamic composition cells over time. Here, we analyze large...
Abstract Background Expression quantitative trait loci (eQTL) studies have shown how genetic variants affect downstream gene expression. To identify the upstream regulatory processes, single-cell data can be used. Single-cell also offers unique opportunity to reconstruct personalized co-expression networks—by exploiting large number of cells per individual, we SNPs that alter patterns (co-expression QTLs, co-eQTLs) using a limited individuals. Results tackle multiple testing burden...
Abstract Background Genetic testing in patients with suspected hereditary kidney disease may not reveal the genetic cause for disorder as potentially pathogenic variants can reside genes that are yet known to be involved disease. To help identify these genes, we have developed KidneyNetwork, utilizes tissue-specific expression predict kidney-specific gene functions. Methods KidneyNetwork is a co-expression network built upon combination of 878 RNA-sequencing samples and multi-tissue dataset...
Introduction: Transplantation of the small bowel is a last resort for patients with severe gastrointestinal failure. The procedure, however, costly and high risk. Half all endure acute graft rejection within 5 years we do not know why. gut constitutes largest reservoir immune cells in our bodies. How when these repopulate after transplantation yet to be specified. We hypothesize that recipient cell population grows this process disrupted rejection. Furthermore, think preceded by impaired...
Abstract Ulcerative colitis (UC) is a chronic, relapsing inflammatory disease of the gastrointestinal tract. When conventional therapy fails, patients need biologics such as vedolizumab (VDZ) to manage disease. While VDZ has shown compelling efficacy in UC, rate primary non-response amounts up 50%. To uncover cellular and molecular cues that coordinate (non-)response, we performed single-cell transcriptomics high-dimensional immunoprofiling gut mucosal peripheral blood cells obtained from 25...