Evidence map›Paper›PMID 39680505›Full record

ArticleBrain : a journal of neurology2025

De novo variants disrupt an LDB1-regulated transcriptional network in congenital ventriculomegaly.

Garrett Allington, Neel H Mehta, Evan Dennis, Kedous Y Mekbib, Benjamin Reeves, Emre Kiziltug, Shuang Chen, Shujuan Zhao, Phan Q Duy, Maha Saleh and 10 more

Abstract read
In one paragraph

Article in Brain : a journal of neurology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. De NovoHuman mutation · 2026
    Article
  3. Review
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

20 authors.

Garrett AllingtonDepartment of Pathology, Yale University School of Medicine, New Haven, CT 06510, USA.ORCID 0000-0002-5458-6129
Neel H MehtaDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.
Evan DennisDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.
Kedous Y MekbibDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.
Benjamin ReevesDepartment of Neurosurgery, Yale University School of Medicine, New Haven, CT 06510, USA.
Emre KiziltugDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.
Shuang ChenSchool of Pharmacy, University College London, London WC1E 6BT, UK.
Shujuan ZhaoDepartment of Genetics, School of Medicine, Washington University, St. Louis, MO 63110, USA.
Phan Q DuyDepartment of Neurosurgery, University of Virginia School of Medicine, Charlottesville, VA 22903, USA.
Maha SalehClinical Genetics, Department of Pediatrics, London Health Sciences Centre, London, Ontario N6A 5W9, Canada.
Lee C AngDepartment of Pathology, London Health Sciences Centre and Western University, London, Ontario N6A 5C1, Canada.
Baojian FanDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.
Carol Nelson-WilliamsDepartment of Genetics, Yale University School of Medicine, New Haven, CT 06510, USA.
Andrés Moreno-de-LucaDepartment of Radiology, Neuroradiology Section, Kingston Health Sciences Centre, Queen's University Faculty of Health Sciences, Kingston, Ontario K7L 2V7, Canada.
Shozeb HaiderSchool of Pharmacy, University College London, London WC1E 6BT, UK.ORCID 0000-0003-2650-2925
Richard P LiftonLaboratory of Human Genetics and Genomics, The Rockefeller University, New York, NY 10065, USA.
Seth L AlperDivision of Nephrology and Center for Vascular Biology Research, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA.
Stephen McGeeGeneDx, Gaithersburg, MD 20877, USA.
Sheng Chih JinDepartment of Genetics, School of Medicine, Washington University, St. Louis, MO 63110, USA.ORCID 0000-0002-5777-7262
Kristopher T KahleDepartment of Neurosurgery, Massachusetts General Hospital & Harvard Medical School, Boston, MA 02114, USA.ORCID 0000-0002-5922-7547

Funding

Human Genetics and Molecular Mechanisms of Vein of Galen Aneurysmal MalformationR01NS117609 · NINDS · YALE UNIVERSITY · PI Titus Jonathon Boggon, Kristopher T. Kahle · 2020 to 2026
$3.3M
Modulation of Choroid Plexus Immuno-secretory Function to Restore Cerebrospinal Fluid Homeostasis in HydrocephalusR01NS109358 · NINDS · YALE UNIVERSITY · PI Kristopher T. Kahle · 2018 to 2026
$2.4M
Molecular and cellular characterization of congenital hydrocephalusR01NS131610 · NINDS · WASHINGTON UNIVERSITY · PI Sheng Chih Jin · 2024 to 2026
$1.3M
Hydrocephalus AssociationMarch of DimesNIH HHS 1R01NS109358-01NIH HHS 1R01NS111029-01A1NINDS NIH HHS R01 NS109358NINDS NIH HHS R01 NS117609NINDS NIH HHS R01 NS131610Simons Foundation
6 · The paper itself

Abstract

Congenital hydrocephalus, characterized by cerebral ventriculomegaly, is among the most common and least understood paediatric neurosurgical disorders. We have identified, in the largest assembled cerebral ventriculomegaly cohort (2697 parent-proband trios), an exome-wide significant enrichment of protein-altering de novo variants in LDB1 (P = 1.11 × 10-15). Eight unrelated patients with ventriculomegaly, developmental delay and dysmorphic features harboured loss-of-function de novo variants that truncate carboxy-terminal LIM interaction domain of LDB1, which regulates assembly of LIM homeodomain-containing transcriptional modulators. Integrative multiomic analyses suggest that LDB1 is a key transcriptional regulator in ventricular neuroprogenitors through its binding to LIM-homeodomain proteins, including SMARCC1 and ARID1B. Indeed, LIM-homeodomain-containing genes carry a disproportionate burden of protein-damaging de novo variants in our cohort, with SMARCC1 (P = 5.83 × 10-9) and ARID1B (P = 1.80 × 10-17) surpassing exome-wide significance thresholds. These data identify LBD1 as a novel neurodevelopmental disorder gene and suggest that an LDB1-regulated transcriptional programme is essential for human brain morphogenesis.

Indexed as

DNA-Binding ProteinsGene Regulatory NetworksHydrocephalusChildChild, PreschoolCohort StudiesFemaleHumansInfantMaleTranscription FactorsDNA-Binding ProteinsTranscription Factorsbrain developmentde novo variantshydrocephalusLDB1neural stem cellsstructural brain disorders

Identifiers

PMID39680505
PMCPMC13017301

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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.