Chris T. Evelo

Adverse Outcome Pathway Wiki RDF

Marvin Martens, Egon Willighagen, Chris T. Evelo

This dataset is the RDF generated from the AOP-Wiki data release (aopwiki.org/downloads). It was generated using a Python conversion pipeline that is available on GitHub (github.com/marvinm2/AOPWikiRDF), and the process and additional description of the RDF have been published (doi.org/10.1089/aivt.2021.0010).

nl (code pays fourni par la source)

Network-based stratification of allele-specific expression reveals patient subgroups in Huntington’s disease

Daan van Beek, Aishwarya Iyer, Friederike Ehrhart, Chris T. Evelo et autres

MOTIVATION: Huntington's disease (HD) exhibits substantial variability in age of onset and disease progression that is not fully explained by CAG repeat length alone. Part of this residual variation is heritable, implicating additional genetic mechanisms. cis-regulatory variation, genetic variants that alter transcription …

nl (code pays fourni par la source)

Integrating transcriptomics and molecular AOPs to identify T3-dependent regulation of neuronal development in the human neural progenitor test

Marvin Martens, Nathalie Dierichs, Jeroen L. A. Pennings, Aldert H. Piersma et autres

Thyroid hormone (TH) is an important regulator of human brain development, and maternal TH imbalance is linked to adverse outcomes such as reduced IQ and decreased motor function in children. As part of the VHP4Safety initiative, using the human neural progenitor test …

nl (code pays fourni par la source)

User-friendly transcriptomic data analysis with ArrayAnalysis

J.C. Koetsier, Ozan Cinar, Egon Willighagen, Ammar Ammar et autres

ABSTRACT Transcriptomic profiling has become a cornerstone of modern biomedical research. To make transcriptomic analyses accessible to a broader scientific community, specifically including researchers with limited bioinformatics expertise, we introduced ArrayAnalysis in 2013 as a user-friendly web-based application for microarray data analysis. …

nl (code pays fourni par la source)

Adverse Outcome Pathway Wiki RDF

Marvin Martens, Egon Willighagen, Chris T. Evelo

This dataset is the RDF generated from the AOP-Wiki data release (aopwiki.org/downloads). It was generated using a Jupyter notebook that is available on GitHub (github.com/marvinm2/AOPWikiRDF), and the process and additional description of the RDF have been published (doi.org/10.1089/aivt.2021.0010).

nl (code pays fourni par la source)

Dataset studying differentiation of cardiac stem cells

Martina Kutmon, Samad Lotia, Chris T. Evelo, Alexander R. Pico

In this paper we present the open-source WikiPathways app for Cytoscape ( http://apps.cytoscape.org/apps/wikipathways ) that can be used to import biological pathways for data visualization and network analysis. WikiPathways is an open, collaborative biological pathway database that provides fully annotated pathway diagrams …

nl, us (code pays fourni par la source)

Molecular pathways of kidney development and their applications to clinical research

Friederike Ehrhart, Helge Martens, Norman D. Rosenblum, Andreas Schedl et autres

Congenital anomalies of the kidney and urinary tract (CAKUT) are the major cause of childhood chronic kidney disease and an antecedent cause of adult-onset cardiovascular and kidney failure. Both genetic and environmental factors have been implicated in human kidney malformations, with pathogenic …

nl, de, ca, fr, gb, no, us (code pays fourni par la source)

S15-01 Building a virtual human for chemical risk assessment from software and data; integrating reproducible research and predictive modelling

Marc Teunis, Egon Willighagen, Ozan Cinar, Marvin Martens et autres

nl (code pays fourni par la source)

P03-19 ToxTempAssistant: Using AI to Harmonise Cell-Based Toxicity Test Method Descriptions

Jente Houweling, Melissa Arras, D. Jennen, Egon Willighagen et autres

nl (code pays fourni par la source)

Connecting ELIXIR communities and platforms

Katharina F. Heil, Chris T. Evelo, Danielle Welter, Nils Hoffmann et autres

ELIXIR is large and complex. Many activities take place and are developed in one or several places by one or the same person. In other words, many of the people working for and contributing to ELIXIR are involved across different activities and …

us (code pays fourni par la source)

Investigating the role of Vitamin D and its targeted gene-pathway interactions involved in cardiometabolic health

Humera Fiaz, Abdul Rehman Khan, Friederike Ehrhart, Misbah Hussain et autres

Objectives Low levels of Vitamin D and its related gene variants are implicated in cardio-metabolic disorders (CMDs). This study aimed to elucidate the effect of Vitamin D deficiency and the relationship of genetic polymorphisms of Vitamin D synthesizing enzymes and Vitamin D …

pk, nl (code pays fourni par la source)

Multi-omics analysis in inclusion body myositis identifies mir-16 responsible for HLA overexpression

Daphne Wijnbergen, Mridul Johari, Ozan Özışık, Peter A.C. ’t Hoen et autres

BACKGROUND: Inclusion Body Myositis is an acquired muscle disease. Its pathogenesis is unclear due to the co-existence of inflammation, muscle degeneration and mitochondrial dysfunction. We aimed to provide a more advanced understanding of the disease by combining multi-omics analysis with prior knowledge. …

nl, fi, au, fr, es (code pays fourni par la source)