RE: https://fediscience.org/@biohackrxiv/116520929651582646 another @elixir_europe INTOXICOM report. This one with Danyel Jennen, @Marvin, and @egonw #toxicology #fair

new paper: "Multi-omics characterization of developing forebrain organoids unravels the dynamic molecular events of Rett syndrome pathogenesis" https://doi.org/10.1186/s11689-026-09699-9 "The spatiotemporal transcriptomic analysis revealed alterations in […] [Original post on social.edu.nl]

new paper: "A dataset of rare copy number variants associated with neurodevelopmental and neuropsychiatric disorders" https://doi.org/10.1038/s41597-026-07345-6 "We present a curated machine readable dataset, CNVPathwayAtlas, that integrates 38 pathogenic CNVs […] [Original post on social.edu.nl]

vacancy: "Postdoctoral Researcher - Translational Genomics (Nutrigenomics)" https://vacancies.maastrichtuniversity.nl/job/Maastricht-Postdoctoral-Researcher-Translational-Genomics-%28Nutrigenomics%29/1358566357/ "What you will do In this role, you investigate how gene–diet interactions […]

We are happy to inform you about an exciting five-day course TGX is organising June 22-26 in Maastricht (Randwyck), in collaboration between FHML and FSE. The course is titled “Multi-omics and data sciences in complex diseases” and is aimed at PhD candidates, as well as postdoc and senior […]

On the afternoon of Thursday 28 May, the official launch of the Virtual Human Platform (VHP) will take place, where innovation meets practical application in human-relevant safety assessment. This event promises a dynamic program with something for everyone, including: Three parallel […]

new paper: "Reduced NR2F6 expression reshapes the VPA-induced transcriptome in human hepatocytes and increases lipid accumulation" https://doi.org/10.1016/j.tox.2026.154457 "Functional validation in HepG2 and HepaRG models demonstrated that NR2F6 knockdown […] [Original post on social.edu.nl]

new paper: "Effects of acute fluctuations of extracellular Zinc on network activity of human iPSC-derived neurons; impact of NMDA Receptor and L-Type Calcium Channel Activation" https://doi.org/10.1016/j.neuropharm.2026.110952 "Addition of nMolar […] [Original post on social.edu.nl]

new paper: "ToxTempAssistant: using large language models to standardise cell-based toxicological test method descriptions" https://doi.org/10.1080/2833373X.2026.2638036 "This study quantifies the tool’s baseline performance under controlled conditions […] [Original post on social.edu.nl]

new paper: "From disease prevention to fertility treatment: rethinking the use of mitochondrial donation for oocyte-related infertility in the light of safety and efficacy" https://doi.org/10.1093/humrep/deag027 "The paper discusses the regulation of MST/PNT for both applications in relation to […]

Registered the @elixir_europe Toxicology Community Hybrid Meeting 2026 meeting (25/26 June) in Taxila and TeSS: https://elixir-europe.org/events/toxicology-meeting-2026 Local organizers: @Marvin, Danyel Jennen, and me Registration is open! #toxicology #learning #fairdata #safety #elixireurope

new paper: "Black carbon is detectable in association with small extracellular vesicles in fetal circulation" https://doi.org/10.1016/j.envint.2026.110186 "Here we show that black carbon (BC) is detectable in association with small extracellular vesicles […] [Original post on social.edu.nl]

new paper: "Outcomes and future activities of the ‘Pan-European network in Lipidomics and EpiLipidomics – EpiLipidNET’" https://doi.org/10.1007/s11306-026-02396-7 #lipidomics #metabolism

new paper: "pyBiodatafuse: extending interoperability of data using modular queries across biomedical resources" https://doi.org/10.1093/bioinformatics/btag064 "Additionally, the tool offers plugins for widely used platforms such as Cytoscape, Neo4j, and […] [Original post on social.edu.nl]

new editorial w @Marvin: "The Environmental Health Language Collaborative (EHLC) Adverse Outcome Pathway (AOP) Standards Workshop Report" https://doi.org/10.12688/f1000research.175826.1 "The recent EHLC AOP Standards two-day workshop served as a platform to connect the Adverse Outcome Pathway […]

📣 Save the date! Toxicology Community Face2Face! Maastricht, The Netherlands, Thu-Fri - 25/26 June 2026. Details will follow asap. #elixireurope #toxicology

🔬 Exciting news! Houman Kahroba et al.'s paper “Small extracellular vesicles: connecting early life exposure outcomes to air pollution during pregnancy to early childhood health” has been selected as an Editor’s Choice 2025 by Environmental Health! 🎉 https://doi.org/10.1186/s12940-025-01238-8 […]

Our team organized in December the 7th @vhp4safety hackathon in Maastricht. The photo is the hackathon in action. A report is available here: https://www.sciencrew.com/c/9347/a/335618490?title=Report_of_the_7th_VHP4Safety_Hackathon More about the VHP4Safety […] [Original post on social.edu.nl]

new paper: "Food Additive Titanium Dioxide (E171) Alters Gut Microbial Metabolic Activity and Butyrate Production in the TIM-2 In Vitro Colon Model" https://doi.org/10.1093/jambio/lxag042 "E171 undergoes distinct physicochemical transformations depending on […] [Original post on social.edu.nl]

February 2026 WikiPathways update: 95 edits by 9 contributorsin the last month. More news at https://github.com/wikipathways/wikipathways-help/discussions/221 Accessible via #webservices, #rstats, #PathVisio and #Cytoscape. Supported by #AWSOpen […]

new paper: "Short-term high-dose nicotinamide treatment across glaucoma subtypes reveals increased mtDNA content and minimal metabolomic change in blood" https://doi.org/10.1016/j.exer.2025.110807 "All groups showed a similar metabolome response to treatment […] [Original post on social.edu.nl]

new preprint: "Fostering and sustaining collaborative innovation: Insights from ELIXIR Europe's life science Communities" https://doi.org/10.12688/f1000research.168288.1 "The ELIXIR Communities framework is made up of a suite of tools and processes that ensure […] [Original post on social.edu.nl]

new paper: "Quantitative Adverse Outcome Pathway Modeling of Cisplatin-Induced Nephrotoxicity: Developing In Vitro and In Vivo Models for Predictive Extrapolation" https://doi.org/10.1093/toxsci/kfaf177 "Here, we focus on the development of ordinary differential equation (ODE)-based qAOPs for […]

new paper: 'Beyond Single Variants: A Pathway-Based Approach to Explore the Genetic Basis of Memory" https://doi.org/10.1007/s12035-025-05582-1 "We present three independent genome-wide association studies within the Human Connectome Project on a (i) Penn-Word […] [Original post on social.edu.nl]

new paper: "Single-cell transcriptomics of acetaminophen-induced responses in human 2D and 3D liver microtissues" https://doi.org/10.1007/s00204-025-04296-6 "Here, we applied single cell RNA sequencing to characterize cellular responses to acetaminophen […] [Original post on social.edu.nl]

RE: https://fediscience.org/@biohackrxiv/115739166395967179 with our Javier Millán Acosta

Last month, ELIXIR-Netherlands joined the ELIXIR-Europe BioHackathon, collaborating with hundreds of researchers, developers and infrastructure experts from across Europe. Read the full overview, project highlights and participant reflections on our website: www.health-ri.nl/en/news/elix...

🚀 BioSB course "Knowledge Graphs in the Life Sciences” 🚀 Don't miss this exciting opportunity for Life Sciences researchers and data enthusiasts. In just 9 weeks, BioSB will host this course: https://www.dtls.nl/courses/knowledge-graphs-in-the-life-sciences-2026/ 📅 January 5–9, 2025 🗺️ […]

new paper: "Small extracellular vesicles: connecting early life exposure outcomes to air pollution during pregnancy to early childhood health" https://doi.org/10.1186/s12940-025-01238-8 "In this review, we explore mechanisms involving sEVs in transplacental […] [Original post on social.edu.nl]

new paper: "Molecular pathways of kidney development and their applications to clinical research" https://doi.org/10.1016/j.kint.2025.09.032 "Here, we develop and describe fully machine-readable, well annotated pathways to visualize and analyze key events […] [Original post on social.edu.nl]

new paper: "Liver Involvement in POLG Disease—a Multicentre Cohort Study of 202 Patients" https://doi.org/10.1002/jimd.70112 "Our findings emphasize the need for early vigilance in monitoring liver involvement in all patients with confirmed POLG disease, particularly those with early-onset […]

new paper: "Repurposing immunomodulatory drugs targeting microglia for amyotrophic lateral sclerosis" https://doi.org/10.1016/j.brainres.2025.150032 "This literature review provides an overview of existing drugs under investigation for ALS, including those that have failed, and highlights […]

new paper: "Placental gene expression of the AMPK signaling pathway in association with gestational exposure to ambient air pollution" https://doi.org/10.1016/j.envres.2025.123280 "Higher prenatal levels of BC, NO2, and PM2.5 were associated with downregulated […] [Original post on social.edu.nl]

@bioconductor 3.22 is out, including BridgeDbR 2.22: https://bioconductor.org/packages/release/bioc/html/BridgeDbR.html This release improves handling of ChEBI compact identifiers from @bioregistry, improves the vignette, and adds a second vignette, and explains more about rJava installation […]

Javier and Denise are attending the @elixir_europe BioHackathon Europe in Berlin. One of them here working with @deNBI colleagues: https://mstdn.science/@deNBI/115491384531573114 #bh25de

new paper: "Dimethyl Sulfoxide Conditions Induced Pluripotent Stem Cells for more Efficient Nephron Progenitor and Kidney Organoid Differentiation" https://doi.org/10.1007/s12015-025-10971-z "We found that treating hiPSCs with 1–2% DMSO affects gene expression […] [Original post on social.edu.nl]

new paper: "A bioinformatics pipeline for identifying homoplasmic and heteroplasmic mitochondrial DNA SNVs in single-cell RNA-Seq datasets" https://doi.org/10.1016/j.ygeno.2025.111122 "Development of a bioinformatics pipeline for reliable identification of […] [Original post on social.edu.nl]

new paper: "Alterations in the transcriptome of human primary bronchial epithelial cells exposed to emissions from a heated tobacco product" https://doi.org/10.1016/j.bbagen.2025.130869 "IQOS is a Heated Tobacco Product marketed as reduced-risk alternative to […] [Original post on social.edu.nl]

new paper: "Quantitative systems toxicology: modelling to mechanistically understand and predict drug safety" https://doi.org/10.1038/s41573-025-01308-z "Here, we highlight recent developments in the burgeoning field of quantitative systems toxicology (QST) […] [Original post on social.edu.nl]

Yesterday, we met at HEALTH-RI with ELIXIR-NL co-leads & representatives to strengthen our life science data community. 📅 Mark your calendars: ELIXIR-NL Symposium on Dec 9, 2025 @ VU Amsterdam. Registration opens next week! #ELIXIRNL #LifeSciences #ResearchInfrastructure

multiple group members are already in Athens for the #elixireurope INTOXICOM workshop and will join the EUROTOX (https://www.eurotox2025.com/) meeting next week #eurotox2025 #elixirtoxicology

On Thursday January 15th 2026 at 16:00 CET, Toni Vallbona Garcia will defend his thesis with the title: “Exploring Mitochondrial Dysfunction in Glaucoma Using Blood Biomarkers” (more details later) #mitochondria #glaucoma

We are the Department of Translational Genomics of Maastricht University, a multidisciplinary team of (cell) biologists, chemists, geneticists, toxicologists and bioinformaticians is working in close collaboration to establish the biological impact of exposures to potentially toxic compounds and […]

#introduction #maastricht We are the new Maastricht University Department of Translational Genomics (just turned 1 years old!), and we also have a #bluesky account You can follow us at https://bsky.app/profile/tgx-um.social.edu.nl.ap.brid.gy to get updates, such as new journal articles

new paper: "Unveiling Cell-Type-Specific Immune Reactions in Human Blood Following Varied Fruit and Vegetable Blends Interventions" https://doi.org/10.1002/mnfr.70238 "DEGs and pathway analyses showed that some blends affected DNA repair in B cells, NF-kappa B […] [Original post on social.edu.nl]

new paper: "Employing human intestinal organoids as advanced in vitro models for mechanistic studies on dietary ingredients" https://doi.org/10.1080/10408398.2025.2550515 'This review provides a framework for utilizing intestinal organoids to study dietary […] [Original post on social.edu.nl]

new paper: "The role of DNA repair deficiency in lipid accumulation: A proof-of-concept study" https://doi.org/10.1016/j.dnarep.2025.103880 "Upon exposure to a mixture of oleic and palmitic acid, DNA damage and mitochondrial copy number were only altered in […] [Original post on social.edu.nl]

new paper: "Immunomodulation of the Breast Cancer Microenvironment by Tumor-Derived Exosomes: Implications for Immunotherapy" https://doi.org/10.1080/07357907.2025.2529878 "Notably, PD-L1 appears to be more enriched on exosomes than on tumor cell surfaces, underscoring the pivotal role of BEXs […]

new paper: "The MiBlend Randomized Trial: Investigating Genetic Polymorphisms in Personalized Responses to Fruit and Vegetable Interventions for Chronic Disease Prevention" https://doi.org/10.3390/antiox14070828 "XRCC1 wildtype carriers were more protected […] [Original post on social.edu.nl]

new paper: "The FAIR AOP roadmap for 2025: Advancing findability, accessibility, interoperability, and re-usability of adverse outcome pathways" https://doi.org/10.1016/j.comtox.2025.100368 "Herein current efforts in addressing the FAIRification of AOP […] [Original post on social.edu.nl]