# Epilepsy disease classification: a community effort to enhance the Mondo Disease Ontology

**Authors:** Nicole Vasilevsky, Sarah Gehrke, Kathleen Mullen, Subit Barua, Ian Braun, Tobias Brünger, Curtis Coughlin, Alina Ivaniuk, Daniel Korn, Dennis Lal, Stephanie Marsh, Elaine O’Loughlin, Daniel Olson, Yousif Shwetar, Christalena Sofocleous, Vanessa Vogel-Farley, Heidi Grabenstatter, Melissa Haendel, Christopher Mungall, Sabrina Toro

PMC · DOI: 10.1093/database/baag004 · 2026-02-16

## TL;DR

This paper describes a collaborative effort to improve the classification of epilepsy in a medical ontology to better support research and data sharing.

## Contribution

A revised and more accurate epilepsy classification in the Mondo Disease Ontology through expert collaboration and alignment with clinical standards.

## Key findings

- Epilepsy subtypes in Mondo were reclassified to align with the ILAE system.
- The updated ontology supports better data integration and interoperability for epilepsy research.
- Specialists and patient advocates contributed to refining the epilepsy hierarchy in Mondo.

## Abstract

Motivation: Epilepsy is a diverse group of neurological disorders affecting over 50 million people worldwide. While common epilepsy types are well studied, rare epilepsies—often severe and genetically complex—pose significant challenges in diagnosis, research, and treatment. Accurate and interoperable etiology and disease classifications are critical for improving data sharing, supporting clinical decision-making, and advancing rare disease research. Results: To enhance the accuracy of epilepsy-related disease concept representation within the Mondo Disease Ontology (Mondo), we conducted a series of expert-driven workshops in collaboration with the team from the Rare Disease Cures Accelerator-Data and Analytics Platform (RDCA-DAP). Specialists in epileptology, genetics, neurodevelopment, biomedical ontology, and patient community advocates systematically reviewed and revised the epilepsy hierarchy in Mondo, aligning it with the International League Against Epilepsy (ILAE) classification system. These updates include reclassification of epilepsy subtypes, including syndromes, age-related epilepsies, and developmental epileptic encephalopathies, resulting in a more granular, standardized, and clinically relevant structure. Mondo now offers an enhanced framework for integrating epilepsy data across resources, enabling improved interoperability and facilitating rare disease research and data curation, with continued efforts underway to further refine and expand this integration.

## Linked entities

- **Diseases:** epilepsy (MONDO:0005027)

## Full-text entities

- **Genes:** SCN1A (sodium voltage-gated channel alpha subunit 1) [NCBI Gene 6323] {aka DEE6, DEE6A, DEE6B, DRVT, EIEE6, FEB3}, STXBP1 (syntaxin binding protein 1) [NCBI Gene 6812] {aka DEE4, MUNC18-1, N-Sec1, NSEC1, P67, RBSEC1}, SCN3A (sodium voltage-gated channel alpha subunit 3) [NCBI Gene 6328] {aka DEE62, EIEE62, FFEVF4, NAC3, Nav1.3}, PURA (purine rich element binding protein A) [NCBI Gene 5813] {aka MRD31, NEDRIHF, PUR-ALPHA, PUR1, PURALPHA}, DNM1 (dynamin 1) [NCBI Gene 1759] {aka DEE31, DEE31A, DEE31B, DNM, EIEE31}
- **Diseases:** electroclinical syndrome (MESH:D013577), hyperpigmentation of the skin (MESH:D017495), hereditary developmental and epileptic encephalopathy (MESH:D009386), antibody-mediated epilepsy (MESH:D020274), Critical Path (MESH:D016638), Disease (MESH:D004194), neurological conditions (MESH:D019636), ILAE (MESH:C537134), steroid-responsive encephalopathy (MESH:C535841), channelopathies (MESH:D053447), myoclonic epilepsy in non-progressive encephalopathies (MESH:D020191), Ohtahara syndrome (MESH:C567924), febrile seizures (MESH:D003294), epilepsy, generalized idiopathic (MESH:C562694), spinal muscular atrophy (MESH:D009134), anti-NMDA receptor encephalitis (MESH:D060426), cancer (MESH:D009369), diabetes mellitus (MESH:D003920), Moynahan syndrome (MESH:C537052), Stroke (MESH:D020521), Rasmussen subacute encephalitis (MESH:C535291), neonatal epilepsy syndrome (MESH:D020936), IS (MESH:D013036), autoimmune epilepsy (MESH:D001327), complex neurodevelopmental disorder (MESH:D048090), Focal and generalized epilepsies (MESH:D004828), speech and language deficits (MESH:D001072), cerebral calcification syndrome (MESH:C535357), non-syndromic epilepsy (MESH:C580335), celiac disease (MESH:D002446), DEEs (MESH:C562695), Status epilepticus (MESH:D013226), CDKL5 deficiency disorder (MESH:C564064), CACNA1A-related complex neurodevelopmental disorder (MESH:D000386), Seizure (MESH:D012640), Genetic (MESH:D030342), related disease (MESH:D000077733), Neurological Disorders (MESH:D009461), LGS (MESH:D065768), myoclonic jerks (MESH:D009207), Rare (MESH:D035583), encephalopathy (MESH:D001927), intellectual disabilities (MESH:D008607), Rett syndrome (MESH:D015518), Mondo epilepsy disease (MESH:D004827), familial infantile myoclonic epilepsy (OMIM:605021), seizure-related disease (MESH:D020270), JME (MESH:D020190), Kleefstra syndrome (MESH:C563043), Epilepsy Syndromes (MESH:D000073376), myoclonic epilepsy, Hartung (MESH:C563550), Rasmussen syndrome (MESH:D004660), FIRES (MESH:D007239), delays (MESH:D006968), thyroid disease (MESH:D013959), complex epilepsy (MESH:D017029), Infectious epilepsy (MESH:D003141), Severe intellectual disability (MESH:D045169), generalized epilepsy (MESH:D004829), epilepsia partialis continua (MESH:D017036)
- **Species:** Homo sapiens (human, species) [taxon 9606]

## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12908683/full.md

---
Source: https://tomesphere.com/paper/PMC12908683