Peter A.C. ‘t Hoen
A5021033668- Muscle Physiology and Disorders
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- RNA Research and Splicing
- Bioinformatics and Genomic Networks
- Mitochondrial Function and Pathology
- Genetic Neurodegenerative Diseases
- RNA and protein synthesis mechanisms
- Genomics and Rare Diseases
- Gene expression and cancer classification
- Genetic Syndromes and Imprinting
- Research Data Management Practices
- Molecular Biology Techniques and Applications
- Cancer Genomics and Diagnostics
- Biomedical Text Mining and Ontologies
- Genetic Associations and Epidemiology
- Scientific Computing and Data Management
- Adipose Tissue and Metabolism
- Cancer, Hypoxia, and Metabolism
- Metabolomics and Mass Spectrometry Studies
- Cancer-related molecular mechanisms research
- Genomics and Chromatin Dynamics
- Metabolism, Diabetes, and Cancer
- Genomics and Phylogenetic Studies
- Immunotherapy and Immune Responses
University Medical Center
2005-2025
Radboud University Nijmegen
2013-2025
Radboud University Medical Center
2013-2025
Radboud Institute for Molecular Life Sciences
2018-2024
Leiden University Medical Center
2015-2024
Harry Perkins Institute of Medical Research
2024
Weatherford College
2024
Maastricht University
2023-2024
Duchenne Parent Project
2023
Erasmus MC
2006-2023
There is an urgent need to improve the infrastructure supporting reuse of scholarly data. A diverse set stakeholders-representing academia, industry, funding agencies, and publishers-have come together design jointly endorse a concise measureable principles that we refer as FAIR Data Principles. The intent these may act guideline for those wishing enhance reusability their data holdings. Distinct from peer initiatives focus on human scholar, Principles put specific emphasis enhancing ability...
Abstract The FANTOM5 project investigates transcription initiation activities in more than 1,000 human and mouse primary cells, cell lines tissues using CAGE. Based on manual curation of sample information development an ontology for classification, we assemble the resulting data into a centralized resource ( http://fantom.gsc.riken.jp/5/ ). This contains web-based tools data-access points research community to search extract related samples, genes, promoter activities, factors enhancers...
The hippocampal expression profiles of wild-type mice and transgenic for δC-doublecortin-like kinase were compared with Solexa/Illumina deep sequencing technology five different microarray platforms. With Illumina's digital gene assay, we obtained ∼2.4 million sequence tags per sample, their abundance spanning four orders magnitude. Results highly reproducible, even across laboratories. a dedicated Bayesian model, found differential 3179 transcripts an estimated false-discovery rate 8.5%....
Cells release RNA-carrying vesicles and membrane-free RNA/protein complexes into the extracellular milieu. Horizontal vesicle-mediated transfer of such shuttle RNA between cells allows dissemination genetically encoded messages, which may modify function target cells. Other studies used array analysis to establish presence microRNAs mRNA in cell-derived from many sources. Here, we an unbiased approach by deep sequencing small released immune We found a large variety non-coding species...
Summary While many disease-associated variants have been identified through genome-wide association studies, their downstream molecular consequences remain unclear. To identify these effects, we performed cis- and trans-expression quantitative trait locus (eQTL) analysis in blood from 31,684 individuals the eQTLGen Consortium. We observed that cis -eQTLs can be detected for 88% of studied genes, but they a different genetic architecture compared to variants, limiting our ability use pinpoint...
Abstract The methylome is subject to genetic and environmental effects. Their impact may depend on sex age, resulting in sex- age-related physiological variation disease susceptibility. Here we estimate the total heritability of DNA methylation levels whole blood variance explained by common single nucleotide polymorphisms at 411,169 sites 2,603 individuals from twin families, establish a catalogue between-individual methylation. Heritability estimates vary across genome (mean=19%)...
Abstract Genome-wide association studies (GWAS) have identified thousands of variants associated with complex traits, but their biological interpretation often remains unclear. Most these overlap expression QTLs, indicating potential involvement in regulation gene expression. Here, we propose a transcriptome-wide summary statistics-based Mendelian Randomization approach (TWMR) that uses multiple SNPs as instruments and traits exposures, simultaneously. Applied to 43 human phenotypes, it...
Cells can be primed by external stimuli to obtain a long-term epigenetic memory. We hypothesize that exposure elevated blood lipids prime circulating immune cells through changes in DNA methylation, process may contribute the development of atherosclerosis. To interrogate causal relationship between triglyceride, low-density lipoprotein (LDL) cholesterol, and high-density (HDL) cholesterol levels genome-wide methylation while excluding confounding pleiotropy, we perform stepwise Mendelian...
Repurposing is one of the key opportunities to address unmet rare diseases therapeutic need. Based on cases drug repurposing in small population conditions, and previous work repurposing, we analyzed most important lessons learned, such as sharing clinical observations, reaching out regulatory scientific advice at an early stage, public-private collaboration. In addition, current upcoming trends field were analyzed, including role these could play diseases’ ecosystem. Specifically, cover...
Tissue accumulation of circulating prorenin results in angiotensin generation, but could also, through binding to the recently cloned (pro)renin receptor, lead angiotensin-independent effects, like p42/p44 mitogen-activated protein kinase (MAPK) activation and plasminogen-activator inhibitor (PAI)-1 release. Here we investigated whether exerts effects neonatal rat cardiomyocytes. Polyclonal antibodies detected receptor these cells. Prorenin affected neither MAPK nor PAI-1. PAI-1 release did...
The contraction pattern of the heart relies on activation and conduction electrical impulse. Perturbations cardiac have been associated with congenital acquired arrhythmias as well arrest. depends regulation heterogeneous gene expression by key transcription factors transcriptional enhancers. Here, we assessed genome-wide occupation system–regulating TBX3, NKX2-5, GATA4 enhancer-associated coactivator p300 in mouse heart, uncovering enhancers throughout genome. Many colocalized ion channel...
Phage display screenings are frequently employed to identify high-affinity peptides or antibodies. Although successful, phage is a laborious technology and notorious for identification of false positive hits. To accelerate improve the selection process, we have Illumina next generation sequencing deeply characterize Ph.D.-7 M13 peptide library before after several rounds biopanning on KS483 osteoblast cells. Sequencing naive one round amplification in bacteria identifies propagation...
Abstract Duchenne muscular dystrophy (DMD) is a with high incidence of learning and behavioural problems associated neurodevelopmental disorders. To gain more insights into the role dystrophin in this cognitive phenotype, we performed comprehensive analysis expression patterns isoforms across human brain development, using unique transcriptomic data from Allen Human Brain BrainSpan atlases. Dystrophin show large changes through life pronounced differences between foetal adult brain. The...
The choice for a polyadenylation site determines the length of 3′-untranslated region (3′-UTRs) an mRNA. Inclusion or exclusion regulatory sequences in 3′-UTR may ultimately affect gene expression levels. Poly(A) binding protein nuclear 1 (PABPN1) is involved pre-mRNAs. An alanine repeat expansion PABPN1 (exp-PABPN1) causes oculopharyngeal muscular dystrophy (OPMD). We hypothesized that previously observed disturbed patterns OPMD muscles have been result effect on alternative...