Evidence map›Paper›PMID 26576547›Full record

ArticleNeurogenetics2016

De novo missense variants in PPP2R5D are associated with intellectual disability, macrocephaly, hypotonia, and autism.

Linshan Shang, Lindsay B Henderson, Megan T Cho, Donald S Petrey, Chin-To Fong, Katrina M Haude, Natasha Shur, Julie Lundberg, Natalie Hauser, Jason Carmichael and 9 more

Open access · greenAbstract read
In one paragraph

Article in Neurogenetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
51citing papers in PubMed, 1 pooled it
2.7field-weighted citation impact, top 9% of its field
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

51 citing papers in PubMed, 1 synthesis or guideline pooled it, 90 citations in OpenAlex.

  1. Pooled it
  2. A Novel Missense Variant in the GeneBioMed research international · 2021
    Trial
  3. Article
  4. Article
  5. Jordan syndrome due toTranslational pediatrics · 2025
    Article
  6. Article
  7. Houge-Janssens syndrome.European journal of human genetics : EJHG · 2025
    Review
  8. Article
  9. Review
  10. Article
  11. Article
  12. Review
  13. Pediatric reports · 2024
    Article
  14. Article
  15. Article
  16. Thirteen New Patients ofChildren (Basel, Switzerland) · 2024
    Article
  17. Observational
  18. Article
  19. B56δ long-disordered arms form a dynamic PP2A regulation interface coupled with global allostery and Jordan's syndrome mutations.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  20. 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

19 authors at 6 institutions in 1 country.

Linshan ShangDepartment of Pediatrics, Columbia University Medical Center, New York, NY, USA.
Lindsay B HendersonGeneDx, Gaithersburg, MD, USA.
Megan T ChoGeneDx, Gaithersburg, MD, USA.
Donald S PetreyDepartment of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY, USA.
Chin-To FongUniversity of Rochester Medical Center, Rochester, NY, USA.
Katrina M HaudeUniversity of Rochester Medical Center, Rochester, NY, USA.
Natasha ShurAlbany Medical Center, Albany, NY, USA.
Julie LundbergAlbany Medical Center, Albany, NY, USA.
Natalie HauserValley Children's Hospital, Madera, CA, USA.
Jason CarmichaelValley Children's Hospital, Madera, CA, USA.
Jeffrey InnisDivision of Pediatric Genetics, University of Michigan Health System, Ann Arbor, MI, USA.
Jane SchuetteDivision of Pediatric Genetics, University of Michigan Health System, Ann Arbor, MI, USA.
Yvonne W WuDepartments of Neurology and Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Shailesh AsaikarChild and Adolescent Neurology Consultants, Sacramento, CA, USA.
Margaret PearsonDistrict Medical Group, Scottsdale, AZ, USA.
Leandra FolkGeneDx, Gaithersburg, MD, USA.
Kyle RettererGeneDx, Gaithersburg, MD, USA.
Kristin G MonaghanGeneDx, Gaithersburg, MD, USA.
Wendy K ChungDepartment of Pediatrics, Columbia University Medical Center, New York, NY, USA. wkc15@cumc.columbia.edu.
Columbia University Irving Medical Center · USAlbany Medical Center Hospital · USChildren's Hospital Central California · USUniversity of Michigan · USUniversity of Rochester Medical Center · USUniversity of California, San Francisco · US

Funding

COMPUTER STUDIES OF PROTEIN STRUCTURE AND FUNCTIONR01GM030518 · NIGMS · COLUMBIA UNIV NEW YORK MORNINGSIDE · PI HONIG, BARRY H · 1985 to 2020
$4.5M
High-performance compute cluster for biomedical computingS10OD012351 · OD · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI CALIFANO, ANDREA · 2012 to 2012
$2.0M
COMPUTER STUDIES OF PROTEIN STRUCTURE AND FUNCTIONR37GM030518 · NIGMS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI HONIG, BARRY H · 1995 to 2004
$1.5M
Storage System for High Performance ComputingS10OD021764 · OD · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI CALIFANO, ANDREA · 2016 to 2016
$600k
NIGMS NIH HHS GM030518NIGMS NIH HHS R01 GM030518NIGMS NIH HHS R37 GM030518NIH HHS S10 OD012351NIH HHS S10 OD021764
6 · The paper itself

Abstract

Protein phosphatase 2A (PP2A) is a heterotrimeric protein serine/threonine phosphatase and is involved in a broad range of cellular processes. PPP2R5D is a regulatory B subunit of PP2A and plays an important role in regulating key neuronal and developmental regulation processes such as PI3K/AKT and glycogen synthase kinase 3 beta (GSK3β)-mediated cell growth, chromatin remodeling, and gene transcriptional regulation. Using whole-exome sequencing (WES), we identified four de novo variants in PPP2R5D in a total of seven unrelated individuals with intellectual disability (ID) and other shared clinical characteristics, including autism spectrum disorder, macrocephaly, hypotonia, seizures, and dysmorphic features. Among the four variants, two have been previously reported and two are novel. All four amino acids are highly conserved among the PP2A subunit family, and all change a negatively charged acidic glutamic acid (E) to a positively charged basic lysine (K) and are predicted to disrupt the PP2A subunit binding and impair the dephosphorylation capacity. Our data provides further support for PPP2R5D as a genetic cause of ID.

Indexed as

Mutation, MissenseAdolescentAutism Spectrum DisorderAutistic DisorderChildChild, PreschoolDNA Mutational AnalysisFemaleGenetic Association StudiesGenetic Predisposition to DiseaseHumansInfantIntellectual DisabilityMaleMegalencephalyMuscle HypotoniaPPP2R5D protein, humanProtein Phosphatase 2Autism spectrum disorderDe novo mutationsIntellectual disabilitiesPPP2R5DProtein phosphataseWhole-exome sequencing

Identifiers

PMID26576547
PMCPMC4765493
OpenAlexW2176043843

What OpenQuestion holds

Textmetadata
LicenceTDM
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.