VHP4Safety · marvinm2 · Apr 17, 2026 · Apr 17, 2026 · Apr 17, 2026 · Apr 17, 2026
diff --git a/cap/service_index.json b/cap/service_index.json
diff --git a/docs/service/aop-builder.json b/docs/service/aop-builder.json
@@ -2,7 +2,7 @@
   "id": "aop-builder",
   "service": "AOP-Builder",
   "description": "A tool that supports Adverse Outcome Pathway (AOP) development by extracting key scientific entities and their relationships from literature.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000156",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000023",
   "url": "https://crebuilder.vhp4safety.nl",
   "instance": {

diff --git a/docs/service/aopsuite.json b/docs/service/aopsuite.json
@@ -2,7 +2,7 @@
   "id": "aopsuite",
   "service": "AOP-Suite",
   "description": "A web-based tool for building, visualizing and analyzing Adverse Outcome Pathway (AOP) networks.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000023",
   "screenshot": "aopsuite.png",
   "url": "",

diff --git a/docs/service/aopwiki.json b/docs/service/aopwiki.json
@@ -2,7 +2,7 @@
   "id": "aopwiki",
   "service": "AOP-Wiki Snorql UI",
   "description": "A graphical interface for creating, preloading and exporting SPARQL queries tailored to your usecases.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000156",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000023",
   "screenshot": "aopwiki.png",
   "url": "https://aopwiki.rdf.bigcat-bioinformatics.org/",

diff --git a/docs/service/aopwikiapi.json b/docs/service/aopwikiapi.json
@@ -2,7 +2,7 @@
   "id": "aopwikiapi",
   "service": "AOP-Wiki API",
   "description": "A REST API for creating and accessing content in the AOP-Wiki database.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000156",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000023",
   "screenshot": "aopwikiapi.png",
   "url": "https://aopwiki-api.cloud.vhp4safety.nl/api/marvinm2/AOPWikiQueries",

diff --git a/docs/service/arrayanalysis.json b/docs/service/arrayanalysis.json
@@ -2,7 +2,7 @@
   "id": "arrayanalysis",
   "service": "ArrayAnalysis",
   "description": "A user-interface for preprocessing and statistically analyzing RNA-sequencing and microarray transcriptomics data.",
-  "stage":"NA",
+  "stage": "Other",
   "substage":"NA",
   "url": "https://arrayanalysis.org/",
   "screenshot": "arrayanalysis.png",

diff --git a/docs/service/asreview.json b/docs/service/asreview.json
@@ -2,7 +2,7 @@
   "id": "asreview",
   "service": "ASReview",
   "description": "Open-source active-learning software for transparent and efficient systematic literature reviews.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000053",
   "url": "https://asreview.nl/",
   "doi": "10.1038/s42256-020-00287-7",

diff --git a/docs/service/biomodels.json b/docs/service/biomodels.json
@@ -2,7 +2,7 @@
   "id": "biomodels",
   "service": "BioModels",
   "description": "A repository dedicated to the inventory and acquisition of high-quality mathematical models pertaining to biological and biomedical systems.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000055",
   "screenshot": "biomodels.png",
   "url": "https://www.ebi.ac.uk/biomodels/",

diff --git a/docs/service/biotransformer.json b/docs/service/biotransformer.json
@@ -2,7 +2,7 @@
   "id": "biotransformer",
   "service": "BioTransformer",
   "description": "A software tool for predicting metabolites from SMILES-formatted chemical inputs.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000155",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000148",
   "screenshot": "biotransformer.png",
   "url": "https://biotransformer.ca/",

diff --git a/docs/service/bmdexpress_3.json b/docs/service/bmdexpress_3.json
@@ -3,7 +3,7 @@
   "id": "bmdexpress_3",
   "service": "BMDExpress-3",
   "description": "A software tool for high-dimensional dose-response modeling and analysis.",
-  "stage": "",
+  "stage": "Other",
   "substage": "",
   "screenshot": "",
   "url": "https://github.com/auerbachs/BMDExpress-3",

diff --git a/docs/service/bridgedb.json b/docs/service/bridgedb.json
@@ -2,7 +2,7 @@
   "id": "bridgedb",
   "service": "BridgeDb",
   "description": "A framework for mapping identifiers across biological databases and related sources.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage":"Other",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000047",
   "screenshot": "bridgedb.png",
   "url": "https://www.bridgedb.org/",

diff --git a/docs/service/cdk.json b/docs/service/cdk.json
@@ -2,6 +2,7 @@
   "id": "cdk",
   "service": "The Chemistry Development Kit",
   "description": "A Java library for chem- and bioinformatics, with functionality to read/write chemical structures, calculate molecular descriptors, physicochemical properties, substructure and similarity searching, and much more.",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "url": "http://cdk.github.io/",
   "doi": "10.1186/s13321-017-0220-4",
   "provider": {

diff --git a/docs/service/cdkdepict.json b/docs/service/cdkdepict.json
@@ -2,7 +2,7 @@
   "id": "cdkdepict",
   "service": "CDK Depict",
   "description": "A webservice for generating chemical structure images from SMILES inputs.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000148",
   "screenshot": "cdkdepict.png",
   "url": "https://www.simolecule.com/cdkdepict/depict.html",

diff --git a/docs/service/celldesigner.json b/docs/service/celldesigner.json
@@ -2,7 +2,7 @@
   "id": "celldesigner",
   "service": "CellDesigner",
   "description": "An intuitive user interface for creating gene-regulatory and biochemical network diagrams.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000156",
   "substage": "",
   "screenshot": "celldesigner.png",
   "url": "https://www.celldesigner.org/",

diff --git a/docs/service/comptox.json b/docs/service/comptox.json
@@ -2,7 +2,7 @@
   "id": "comptox",
   "service": "CompTox",
   "description": "An online database for searching chemical, toxicity and exposure information.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000148",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "screenshot": "comptox.png",
   "url": "https://comptox.epa.gov/dashboard/",
   "doi": "10.1186/s13321-017-0247-6",

diff --git a/docs/service/copasi.json b/docs/service/copasi.json
@@ -2,6 +2,7 @@
   "id": "copasi",
   "service": "COPASI",
   "description": "An open-source software for simulating, analyzing and visualizing biochemical networks using a wide range of methods.",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "screenshot": "copasi.png",
   "url": "http://copasi.org/",
   "provider": {

diff --git a/docs/service/cplogd.json b/docs/service/cplogd.json
@@ -2,7 +2,7 @@
   "id": "cplogd",
   "service": "cpLogD",
   "description": "An online model for predicting water-octanol distribution coefficient (logD) of chemical compounds with confidence estimates.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000148",
   "url": "https://cplogd.cloud.vhp4safety.nl/",
   "doi": "10.1186/s13321-018-0271-1",

diff --git a/docs/service/danish_qsar_database.json b/docs/service/danish_qsar_database.json
@@ -3,7 +3,7 @@
   "id": "danish_qsar_database",
   "service": "Danish (Q)SAR Database",
   "description": "A freely available (Q)SAR tool for substance evaluations that includes estimates from more than 200 (Q)SARs covering a wide range of hazardous properties relevant for human health and the environment.",
-  "stage": "",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "",
   "screenshot": "",
   "url": "https://qsar.food.dtu.dk/",

diff --git a/docs/service/decimer.json b/docs/service/decimer.json
@@ -2,7 +2,7 @@
   "id": "decimer",
   "service": "DECIMER",
   "description": "An online service for automatically extracting chemical structure depictiions from PDFs and images.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000148",
   "screenshot": "decimer.png",
   "url": "https://decimer.ai/",

diff --git a/docs/service/dsld.json b/docs/service/dsld.json
@@ -5,7 +5,7 @@
   "service": "NIH Dietary Supplement Label Database",
   "description": "An online database from the NIH Office of Dietary Supplements that lets you explore information from more than 200,000 dietary supplement labels sold in the United States.",
 
-  "stage": "external exposure",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000154",
   "substage": "compound characteristics",
 
   "url": "https://dsld.od.nih.gov/",

diff --git a/docs/service/ema_documents.json b/docs/service/ema_documents.json
@@ -2,7 +2,7 @@
   "id": "ema_documents",
   "service": "European Medicines Agency Documents",
   "description": "An online repository for inventarisation of official reports from the European Medicines Agency concerning chemical evaluation and safety monitoring.",
-  "stage": "external exposure",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000154",
   "substage": "compound characteristics",
   "screenshot": "ema_documents.png",
   "url": "https://www.ema.europa.eu/en/search",

diff --git a/docs/service/endocrine_disruptome.json b/docs/service/endocrine_disruptome.json
@@ -3,7 +3,7 @@
   "id": "endocrine_disruptome",
   "service": "Endocrine Disruptome",
   "description": "An open source, user friendly and web based prediction tool that uses molecular docking to predict binding of compounds to 14 different nuclear receptors.",
-  "stage": "",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "substage": "",
   "screenshot": "",
   "url": "http://endocrinedisruptome.ki.si/",

diff --git a/docs/service/fairdomhub.json b/docs/service/fairdomhub.json
@@ -2,7 +2,7 @@
   "id": "fairdomhub",
   "service": "FAIRDOMHub",
   "description": "A web-accessible registry for managing, sharing and organising research data and research assets.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "",
   "screenshot": "fairdomhub.png",
   "url": "https://fairdomhub.org/",

diff --git a/docs/service/fairspace.json b/docs/service/fairspace.json
@@ -2,7 +2,7 @@
   "id": "fairspace",
   "service": "Fairspace",
   "description": "An open source RDF-based data management platform for importing and exporting research-relevant metadata",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000049",
   "screenshot": "fairspace.png",
   "url": "https://www.thehyve.nl/services/fairspace",

diff --git a/docs/service/farmacokompas.json b/docs/service/farmacokompas.json
@@ -4,7 +4,7 @@
   "service": "Farmacotherapeutisch Kompas",
   "description": "A Dutch online resource for gathering data on the pharmacology, adverse effects, and prices of all pharmaceutical products available in the Netherlands.",
 
-  "stage": "external exposure",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "compound characteristics",
 
   "screenshot": "farmacokompas.png",

diff --git a/docs/service/flame.json b/docs/service/flame.json
@@ -2,7 +2,7 @@
   "id": "flame",
   "service": "Flame",
   "description": "An open source web application for building predictive models from biologically annotated chemical structures using predefined workflows.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000153",
   "substage":"",
   "url": "https://phi.upf.edu/phi/index.php/software/flame/",
   "doi": "10.1186/s13321-021-00509-z",

diff --git a/docs/service/google.json b/docs/service/google.json
@@ -7,7 +7,7 @@
 
   "description": "Online search engine for Google.",
 
-  "stage": "generic",
+  "stage": "Other",
   "substage": "mechanisms of toxicity / compound characteristics",
 
   "url": "https://google.com/",

diff --git a/docs/service/gscholar.json b/docs/service/gscholar.json
@@ -7,7 +7,7 @@
 
   "description": "An online search engine for (scientific) literature.",
 
-  "stage": "generic",
+  "stage": "Other",
 
   "substage": "mechanisms of toxicity / compound characteristics",
 

diff --git a/docs/service/jrc_data_catalogue.json b/docs/service/jrc_data_catalogue.json
@@ -2,7 +2,7 @@
   "id": "jrc_data_catalogue",
   "service": "Joint Research Centre Data Catalogue",
   "description": "An in-house data inventory produced by the Joint Research Centre (JRC) for provision of independent scientific advice and support to policies of the European Union.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000049",
   "screenshot": "jrc_data_catalogue.png", 
   "url": "https://data.jrc.ec.europa.eu/",

diff --git a/docs/service/llemy.json b/docs/service/llemy.json
@@ -3,7 +3,7 @@
   "service": "Llemy",
   "description": "An online tool for answering questions about lipid metabolism and related toxicology/biology using MINERVA pathway knowledge, live web research and AI-generated summaries.",
   "source": "https://github.com/ontox-project/Llemy",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "substage": "prototype",
   "release_notes": "2025-09-02: Pilot instance; added disclaimer & license surfacing; streamlined login/API-key flow.",
   "instance": {

diff --git a/docs/service/mct8-dock.json b/docs/service/mct8-dock.json
@@ -2,7 +2,7 @@
   "id": "mct8-dock",
   "service": "MCT8 Docking for MIE Discovery",
   "description": "A Python-based notebook for identifying potential MCT8 inhibitors and related molecular events linked to developmental thyroid toxicity from maternal thyroid hormone deprivation.",
-  "stage": "",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "substage": "", 
   "url": "https://colab.research.google.com/drive/1vhy61p0z_AGnSEidwD83RwBzsW2AxAAT?usp=sharing",
   "doi": "",

diff --git a/docs/service/molaopanalyser.json b/docs/service/molaopanalyser.json
@@ -2,7 +2,7 @@
     "id": "molaopanalyser",
     "service": "MolAOP analyser",
     "description": "An online service for analyzing transcriptomic data in the context of molecular Adverse Outcome Pathways (AOPs), supporting data upload or demo datasets for gene selection, visualization and Key Event (KE) enrichment analysis.",
-    "stage": "",
+    "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
     "substage": "",
     "screenshot": "",
     "url": "https://molaop-analyser.vhp4safety.nl/",

diff --git a/docs/service/molaopbuilder.json b/docs/service/molaopbuilder.json
@@ -15,7 +15,7 @@
   "description": "A web application for mapping Key Events from Adverse Outcome Pathways to WikiPathways and Gene Ontology Biological Process terms, using intelligent suggestions based on gene overlap, text similarity, and BioBERT semantic embeddings.",
 
   "_ins_stage": "Stage / place in the workflow categories",
-  "stage": "",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
 
   "_ins_substage": "Substage for the category",
   "substage": "",

diff --git a/docs/service/oecd_qsar_toolbox.json b/docs/service/oecd_qsar_toolbox.json
@@ -2,7 +2,7 @@
   "id": "oecd_qsar_toolbox",
   "service": "The OECD QSAR Toolbox",
   "description": "A software for supporting chemical hazard assessment and enhancing mechanistic knowledge of substances in a cost-effective way.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000056",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000153",
   "substage":"",
   "screenshot": "oecd_qsar_toolbox.png",
   "url": "https://qsartoolbox.org/",

diff --git a/docs/service/ontox_physiological_maps.json b/docs/service/ontox_physiological_maps.json
@@ -2,6 +2,7 @@
   "id": "ontox_physiological_maps",
   "service": "ONTOX Physiological Maps",
   "description": "Maps for illustrating biological processes behind toxicological risks using a standardized graphical notation.",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "url": "https://sites.google.com/view/ontox-maps/home",
   "doi": "10.14573/altex.2412241",
   "instance": {

diff --git a/docs/service/oppbk_model.json b/docs/service/oppbk_model.json
@@ -2,7 +2,7 @@
   "id": "oppbk_model",
   "service": "OP PBK Model",
   "description": "An online physiologically based pharmacokinetic model for organophosphates",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000056",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000155",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000061",
   "screenshot": "oppbk_model.png",
   "url": "http://oppbk.cloud.vhp4safety.nl/",

diff --git a/docs/service/opsin.json b/docs/service/opsin.json
@@ -2,7 +2,7 @@
   "id": "opsin",
   "service": "OPSIN: Open Parser for Systematic IUPAC nomenclature",
   "description": "An online service for parsing chemical IUPAC names into a machine-readable chemical identifiers.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000148",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000149",
   "screenshot": "opsin.png", 
   "url": "https://www.ebi.ac.uk/opsin/",

diff --git a/docs/service/oqt_assistant.json b/docs/service/oqt_assistant.json
@@ -3,7 +3,7 @@
   "id": "oqt_assistant",
   "service": "O-QT — OECD QSAR Toolbox AI Assistant",
   "description": "An online assistant for using the OECD QSAR Toolbox to analyze chemicals, assess hazards and generate AI-based summary reports.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000153",
   "substage": "prototype",
   "screenshot": "oqt_assistant.png",
   "url": "https://github.com/VHP4Safety/O-QT-OECD-QSAR-Toolbox-AI-assistant",

diff --git a/docs/service/pathvisio.json b/docs/service/pathvisio.json
@@ -3,6 +3,7 @@
   "id": "pathvisio",
   "service": "PathVisio",
   "description": "Desktop software to visualize, edit, and draw new pathways, which can be exported in the GPML format, for example, to WikiPathways.",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000156",
   "screenshot": "pcbi.1004085.g004.png",
   "url": "https://pathvisio.org/",
   "doi": "10.1371/journal.pcbi.1004085",

diff --git a/docs/service/qaop_app.json b/docs/service/qaop_app.json
@@ -2,7 +2,7 @@
   "id": "qaop_app",
   "service": "qAOP-App",
   "description": "An interactive tool for visualizing and predicting key events (KEs) and adverse outcomes (AOs) over time using ODE-based qAOP models, illustrated with VHP4Safety case studies.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000156",
   "substage":"https://vhp4safety.github.io/glossary#VHP0000023",
   "url": "https://qaop.vhp4safety.nl/",
   "instance": {

diff --git a/docs/service/qsprpred.json b/docs/service/qsprpred.json
@@ -2,7 +2,7 @@
   "id": "qsprpred",
   "service": "QSPRpred",
   "description": "An online tool for chemical activity prediction for various endpoints using target-specific and pretrained QSAR models.",
-  "stage":"https://vhp4safety.github.io/glossary#VHP0000102",
+  "stage":"https://vhp4safety.github.io/glossary#VHP0000153",
   "substage":"",
   "screenshot": "qsprpred.png",
   "url": "https://qsprpred.cloud.vhp4safety.nl/",

diff --git a/docs/service/r_odaf.json b/docs/service/r_odaf.json
@@ -3,7 +3,7 @@
   "id": "r_odaf",
   "service": "R-ODAF Shiny",
   "description": "An R Shiny interface for the R-ODAF framework that provides standardised RNA-seq differential expression analysis for regulatory toxicology applications.",
-  "stage": "Toxicodynamics/AOP",
+  "stage": "Other",
   "substage": "Transcriptomics / Differential Expression",
   "screenshot": "r_odaf.png",
   "instance": {

diff --git a/docs/service/robot.json b/docs/service/robot.json
@@ -3,7 +3,7 @@
   "id": "robot",
   "service": "ROBOT",
   "description": "Research Object Builder for Open Toxicology.",
-  "stage": "",
+  "stage": "Other",
   "substage": "",
   "screenshot": "",
   "url": "",

diff --git a/docs/service/sombie.json b/docs/service/sombie.json
@@ -2,7 +2,7 @@
   "id": "sombie",
   "service": "SOM Prediction",
   "description": "A webservice for prediction of protein-structure and reactivity based (P450) site-of-metabolism.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000056",
+  "stage": "https://vhp4safety.github.io/glossary#VHP0000155",
   "url": "https://sombie.cloud.vhp4safety.nl/",
   "instance": {
     "type": "internal",

diff --git a/docs/service/sysrev.json b/docs/service/sysrev.json
@@ -2,7 +2,7 @@
   "id": "sysrev",
   "service": "SysRev",
   "description": "An online service for conduction of literature review, data extraction and systematic review.",
-  "stage": "https://vhp4safety.github.io/glossary#VHP0000149",
+  "stage": "Other",
   "substage": "https://vhp4safety.github.io/glossary#VHP0000053",
   "url": "https://sysrev.com/",
   "doi": "10.3389/frai.2021.685298",