Evidence map›Paper›PMID 41687048›Full record

ArticleNeurology2026

Diagnostic Yield of Comprehensive Reanalysis After Nondiagnostic Short-Read Genome Sequencing in Infants With Unexplained Epilepsy.

Jimmy N H Nguyen, Maria Lachgar-Ruiz, Edward J Higginbotham, Matthew Coleman, John Coleman, Wanqing Shao, Elizabeth Scotchman, Ashley J Pritchard, Katrina M Bell, Lyn S Chitty and 35 more

Abstract read
In one paragraph

Article in Neurology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. AlphaGenome Atlas:medRxiv : the preprint server for health sciences · 2026
    Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

45 authors.

Jimmy N H NguyenProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.ORCID 0000-0002-5800-7964
Maria Lachgar-RuizNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Edward J HigginbothamDivision of Genome Diagnostics, Department of Paediatric Laboratory Medicine, The Hospital for Sick Children, Toronto, Ontario, Canada.
Matthew ColemanMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0001-8627-3322
John ColemanMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0001-6246-3201
Wanqing ShaoChildren's Rare Disease Collaborative, Boston Children's Hospital, MA.
Elizabeth ScotchmanNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Ashley J PritchardNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Katrina M BellMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0001-6109-3667
Lyn S ChittyNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
John ChristodoulouMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0002-8431-0641
Paul De FazioVictorian Clinical Genetics Services, Murdoch Children's Research Institute, Melbourne, Australia.
Ashish R DeshwarProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.
Christin EltzeDepartment of Neurology, Great Ormond Street Hospital, London, United Kingdom.
Anna J S GriffithsMurdoch Children's Research Institute, Melbourne, Australia.
Jane HassellDepartment of Neurology, Great Ormond Street Hospital, London, United Kingdom.ORCID 0009-0000-3871-8665
Puneet JainDepartment of Paediatrics, University of Toronto, Ontario, Canada.ORCID 0000-0002-6009-0859
Marios KaliakatsosDepartment of Neurology, Great Ormond Street Hospital, London, United Kingdom.
Nicole S Y LiangDepartment of Molecular Genetics, University of Toronto, Ontario, Canada.
Patrick LombardNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Christian R MarshallDivision of Genome Diagnostics, Department of Paediatric Laboratory Medicine, The Hospital for Sick Children, Toronto, Ontario, Canada.ORCID 0000-0002-4003-7671
Catherine MarxDivision of Neurology, The Hospital for Sick Children, Toronto, Ontario, Canada.
Lyndsey McRaeDivision of Neurology, The Hospital for Sick Children, Toronto, Ontario, Canada.ORCID 0009-0004-9140-0815
Sarah MulhernMurdoch Children's Research Institute, Melbourne, Australia.
Ben PaternosterNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Ana Perez CaballeroNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
Neta PipkoProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.
Jashanpreet SidhuProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.ORCID 0009-0009-9094-3566
Lacey SmithEpilepsy Genetics Program, Department of Neurology, Boston Children's Hospital, MA.
Zornitza StarkDepartment of Paediatrics, University of Melbourne, Australia.ORCID 0000-0001-8640-1371
Brett TrostProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.
Emma WakelingNorth East Thames Regional Genetic Service, Great Ormond Street Hospital for Children NHS Foundation Trust, London, United Kingdom.ORCID 0000-0001-5712-0044
Susan M WhiteDepartment of Paediatrics, University of Melbourne, Australia.ORCID 0000-0001-7611-634X
Michael YoongDepartment of Paediatric Neurology, Royal London Hospital, London, United Kingdom.ORCID 0000-0001-9694-9031
Gene-STEPS Study Group, IPCHiP Executive Committee,
Natalie J ChandlerNorth Thames Genomic Laboratory Hub, Great Ormond Street NHS Foundation Trust, London, United Kingdom.
J Helen CrossDepartment of Neurology, Great Ormond Street Hospital, London, United Kingdom.ORCID 0000-0001-7345-4829
Ingrid E SchefferMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0002-2311-2174
Vann ChauDepartment of Paediatrics, University of Toronto, Ontario, Canada.ORCID 0000-0001-8260-8738
Annapurna PoduriChildren's Rare Disease Collaborative, Boston Children's Hospital, MA.ORCID 0000-0002-7350-5136
Katherine B HowellMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0002-5469-8411
Sarah E M StephensonMurdoch Children's Research Institute, Melbourne, Australia.ORCID 0000-0001-7860-9527
Amy McTagueDepartment of Neurology, Great Ormond Street Hospital, London, United Kingdom.
Gregory CostainProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.ORCID 0000-0003-0099-9945
Alissa M D'GamaChildren's Rare Disease Collaborative, Boston Children's Hospital, MA.ORCID 0000-0002-2482-5328

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

BACKGROUND AND

objectivesThe highest incidence of epilepsy in childhood occurs in the first year of life. Infantile epilepsies are associated with substantial morbidity and mortality. Although most are presumed to have genetic etiologies, many infants with nonacquired epilepsy remain genetically unsolved after clinical genome sequencing. The yield of reanalysis after nondiagnostic genome sequencing in this population is unknown. We aimed to determine the diagnostic yield of comprehensive reanalysis after nondiagnostic genome sequencing in infants with unexplained epilepsy.

methodsThis cohort study included infants with unexplained epilepsy or complex febrile seizures who were recruited from 4 pediatric referral centers from September 2021 to March 2024 and had nondiagnostic clinical rapid genome sequencing. We performed comprehensive reanalysis of genome sequencing data from infants and available biological parents using multiple bioinformatics pipelines through July 2025 and clinically confirmed reanalysis findings. The primary outcome was diagnostic yield of genome sequencing reanalysis, defined as the percentage of infants who received genetic diagnoses from reanalysis. The secondary outcome was clinical utility of reanalysis findings.

resultsFrom an initial cohort of 312 infants with unexplained epilepsy who underwent clinical rapid genome sequencing, we performed comprehensive genome reanalysis in 176 infants with initially nondiagnostic results at a median age of 642 days, including 63 female patients (36%) and 30 (17%) with neonatal-onset seizures. The diagnostic yield of reanalysis was 5.1% (9/176, 95% CI 2.4%-9.5%), increasing the overall yield from 43.6% (136/312, 95% CI 38.0%-49.3%) to 46.5% (145/312, 95% CI 40.8%-52.2%). Of the new diagnoses, 6 involved variants not reported by clinical laboratories (2 single nucleotide variants, 2 structural variants, 1 tandem repeat expansion, 1 mosaic variant) and 3 involved previously reported variants of uncertain significance with new evidence. All diagnoses had clinical utility. DISCUSSION: Comprehensive reanalysis after nondiagnostic rapid genome sequencing has utility for infants with unexplained epilepsy. Our findings support implementation of reanalysis within 1-2 years after nondiagnostic genomic sequencing into routine clinical care of children with unexplained epilepsy and the expansion of clinically accredited genomic sequencing to include complex and noncoding variant detection.

Indexed as

EpilepsyWhole Genome SequencingCohort StudiesFemaleHumansInfantMale

Identifiers

PMID41687048
PMCPMC12938226

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.