Evidence map›Paper›PMID 31646703›Full record

ArticleHuman mutation2019

Missense variants in TAF1 and developmental phenotypes: challenges of determining pathogenicity.

Hanyin Cheng, Simona Capponi, Emma Wakeling, Elaine Marchi, Quan Li, Mengge Zhao, Chunhua Weng, Piatek G Stefan, Helena Ahlfors, Robert Kleyner and 47 more

Erratum issuedOpen access · bronzeAbstract read
In one paragraph

Article in Human mutation, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed
3.0field-weighted citation impact, top 8% 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

19 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Article
  3. Review
  4. Article
  5. The roles of TAF1 in neuroscience and beyond.Royal Society open science · 2024
    Review
  6. Article
  7. Acetyltransferase in cardiovascular disease and aging.The journal of cardiovascular aging · 2024
    Article
  8. Review
  9. Article
  10. Article
  11. Review
  12. Review
  13. Article
  14. Article
  15. Combined dystonias: clinical and genetic updates.Journal of neural transmission (Vienna, Austria : 1996) · 2021
    Review
  16. Review
  17. Dissection ofBrain communications · 2021
    Article
  18. Review
  19. Congenital Heart Defects Due toCirculation. Genomic and precision medicine · 2020
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

57 authors at 20 institutions in 13 countries.

Hanyin ChengDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA.
Simona CapponiGerman Cancer Consortium (DKTK), partner site Freiburg, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, Heidelberg, Germany.
Emma WakelingNorth West Thames Regional Genetics Service, London North West University Healthcare NHS Trust, Harrow, UK.
Elaine MarchiInstitute for Basic Research in Developmental Disabilities (IBR), Staten Island, NY, USA.
Quan LiPrincess Margaret Cancer Centre, University Health Network, University of Toronto, Toronto, Ontario, Canada.
Mengge ZhaoRaymond G. Perelman Center for Cellular and Molecular Therapeutics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.
Chunhua WengDepartment of Biomedical Informatics, Columbia University Medical Center, New York, NY, USA.
Piatek G StefanGreat Ormond Street Hospital, Great Ormond Street, London, UK.
Helena AhlforsGreat Ormond Street Hospital, Great Ormond Street, London, UK.
Robert KleynerStanley Institute for Cognitive Genomics, One Bungtown Road, Cold Spring Harbor Laboratory, NY, USA.
Alan RopeKaiser Permanente Center for Health Research, Portland, OR, USA.
Aimé LumakaDepartment of Biomedical and Preclinical Sciences, GIGA-R, Laboratory of Human Genetics, University of Liège, Liège, Belgium.
Prosper LukusaInstitut National de Recherche Biomédicale, Kinshasa, DR, Congo.
Koenraad DevriendtCentre for Human Genetics, University Hospital, University of Leuven, Leuven, Belgium.
Joris VermeeschCentre for Human Genetics, University Hospital, University of Leuven, Leuven, Belgium.
Jennifer E PoseyDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA.ORCID http://orcid.org/0000-0003-4814-6765
Elizabeth E PalmerGenetics of Learning Disability Service, Newcastle, NSW, Australia.
Lucinda MurrayGenetics of Learning Disability Service, Newcastle, NSW, Australia.
Eyby LeonRare Disease Institute, Children's National Health System, Washington, District of Columbia, USA.
Jullianne DiazRare Disease Institute, Children's National Health System, Washington, District of Columbia, USA.
Lisa WorganDepartment of Clinical Genetics, Liverpool Hospital, Sydney, Australia.
Amalia MallawaarachchiDepartment of Clinical Genetics, Liverpool Hospital, Sydney, Australia.
Julie VogtWest Midlands Regional Clinical Genetics Service and Birmingham Health Partners, Birmingham Women's and Children's Hospitals NHS Foundation Trust, Birmingham, UK.
Sonja A de MunnikDepartment of Human Genetics, Institute for Genetic and Metabolic Disease, Radboud University Medical Center, Nijmegen, The Netherlands.
Lauren DreyerGenetic Services of Western Australia, Undiagnosed Diseases Program, Perth, Western Australia, Australia.
Gareth BaynamGenetic Services of Western Australia, Undiagnosed Diseases Program, Perth, Western Australia, Australia.
Lisa EwansKinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Darlinghurst, New South Wales, Australia.
Zornitza StarkVictorian Clinical Genetics Services, Murdoch Children's Research Institute, Melbourne, Victoria, Australia.
Sebastian LunkeVictorian Clinical Genetics Services, Murdoch Children's Research Institute, Melbourne, Victoria, Australia.
Ana R GonçalvesCenter for Medical Genetics Dr. Jacinto de Magalhães, Hospital and University Center of Porto, Porto, Portugal.
Gabriela SoaresCenter for Medical Genetics Dr. Jacinto de Magalhães, Hospital and University Center of Porto, Porto, Portugal.
Jorge OliveiraCenter for Medical Genetics Dr. Jacinto de Magalhães, Hospital and University Center of Porto, Porto, Portugal.
Emily FassiDivision of Genetics and Genomic Medicine, Department of Pediatrics, Washington University School of Medicine, St. Louis, MI, USA.
Marcia WillingDivision of Genetics and Genomic Medicine, Department of Pediatrics, Washington University School of Medicine, St. Louis, MI, USA.
Jeff L WaughDepartment of Neurology, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Laurence FaivreINSERM U1231, LNC UMR1231 GAD, Burgundy University, Dijon, France.
Jean-Baptiste RiviereINSERM U1231, LNC UMR1231 GAD, Burgundy University, Dijon, France.
Sebastien MouttonINSERM U1231, LNC UMR1231 GAD, Burgundy University, Dijon, France.
Shehla MohammedClinical Genetics, Guy's Hospital, Great Maze Pond, London, UK.
Katelyn PayneIndiana University School of Medicine, Department of Neurology, Indianapolis, IN.
Laurence WalshIndiana University School of Medicine, Department of Neurology, Indianapolis, IN.
Amber BegtrupGeneDx, 207 Perry Parkway, Gaithersburg, MD, USA.
Maria J Guillen SacotoGeneDx, 207 Perry Parkway, Gaithersburg, MD, USA.
Ganka DouglasGeneDx, 207 Perry Parkway, Gaithersburg, MD, USA.
Nora AlexanderGeneDx, 207 Perry Parkway, Gaithersburg, MD, USA.
Michael F BuckleyNew South Wales Health Pathology Genomic Laboratory, Prince of Wales Hospital, Randwick, Australia.
Paul R MarkSpectrum Health Division of Medical and Molecular Genetics, Grand Rapids, MI, USA.
Lesley C AdèsDepartment of Paediatrics and Child Health, University of Sydney, Sydney, New South Wales, Australia.
Sarah A SandaraduraDepartment of Paediatrics and Child Health, University of Sydney, Sydney, New South Wales, Australia.
James R LupskiDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA.ORCID http://orcid.org/0000-0001-9907-9246
Tony RoscioliCentre for Clinical Genetics, Sydney Children's Hospital, Randwick, NSW, Australia.
Pankaj B AgrawalDivisions of Newborn Medicine and Genetics & Genomics, Manton Center for Orphan Disease Research, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Antonie D KlineHarvey Institute for Human Genetics, Greater Baltimore Medical Center, Baltimore, MD, USA.
Deciphering Developmental Disorders StudyWellcome Trust Sanger Institute, Cambridgeshire, UK.
Kai WangRaymond G. Perelman Center for Cellular and Molecular Therapeutics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.
H T Marc TimmersGerman Cancer Consortium (DKTK), partner site Freiburg, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, Heidelberg, Germany.
Gholson J LyonInstitute for Basic Research in Developmental Disabilities (IBR), Staten Island, NY, USA.ORCID http://orcid.org/0000-0002-5869-0716
GenVec · USBaylor College of Medicine · USChildren's Hospital of Philadelphia · USBoston Children's Hospital · USChildren's Oncology Group · CHGreat Ormond Street Hospital · GBInserm · FRJuliana Kinderziekenhuis · NLKU Leuven · BENew South Wales Department of Health · AUThe Graduate Center, CUNY · USThe University of Melbourne · AUThe University of Sydney · AUUniversity of Liverpool · GBWashington University in St. Louis · USBirmingham Women’s and Children’s NHS Foundation Trust · GBCold Spring Harbor Laboratory · USColumbia University Irving Medical Center · USGarvan Institute of Medical Research · AUGreater Baltimore Medical Center · US

Funding

Baylor-Johns Hopkins Center for Mendelian GeneticsU54HG006542 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 2012 to 2015
$15.6M
Baylor-Johns Hopkins Center for Mendelian GeneticsUM1HG006542 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 2016 to 2020
$14.5M
OMOP information model for eMERGE phenotypingU01HG008680 · NHGRI · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Wendy K Chung, GEORGE M HRIPCSAK · 2015 to 2026
$13.3M
STRUCTURAL VARIATION IN NEUROLOGICAL DISEASER35NS105078 · NINDS · BAYLOR COLLEGE OF MEDICINE · PI LUPSKI, JAMES R. · 2018 to 2025
$6.0M
Deep phenotyping in Electronic Health Records for Genomic MedicineR01LM012895 · NLM · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI WANG, KAI, WENG, CHUNHUA · 2018 to 2021
$3.3M
Individual genomic analyses to discover the molecular basis and mechanisms contributing to adult-onset diseaseK08HG008986 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI POSEY, JENNIFER ELLEN · 2017 to 2021
$831k
NHGRI NIH HHS K08 HG008986NHGRI NIH HHS U01 HG008680NHGRI NIH HHS U54 HG006542NHGRI NIH HHS UM1 HG006542NINDS NIH HHS R35 NS105078NLM NIH HHS R01 LM012895Wellcome Trust
6 · The paper itself

Abstract

We recently described a new neurodevelopmental syndrome (TAF1/MRXS33 intellectual disability syndrome) (MIM# 300966) caused by pathogenic variants involving the X-linked gene TAF1, which participates in RNA polymerase II transcription. The initial study reported eleven families, and the syndrome was defined as presenting early in life with hypotonia, facial dysmorphia, and developmental delay that evolved into intellectual disability (ID) and/or autism spectrum disorder (ASD). We have now identified an additional 27 families through a genotype-first approach. Familial segregation analysis, clinical phenotyping, and bioinformatics were capitalized on to assess potential variant pathogenicity, and molecular modelling was performed for those variants falling within structurally characterized domains of TAF1. A novel phenotypic clustering approach was also applied, in which the phenotypes of affected individuals were classified using 51 standardized Human Phenotype Ontology (HPO) terms. Phenotypes associated with TAF1 variants show considerable pleiotropy and clinical variability, but prominent among previously unreported effects were brain morphological abnormalities, seizures, hearing loss, and heart malformations. Our allelic series broadens the phenotypic spectrum of TAF1/MRXS33 intellectual disability syndrome and the range of TAF1 molecular defects in humans. It also illustrates the challenges for determining the pathogenicity of inherited missense variants, particularly for genes mapping to chromosome X. This article is protected by copyright. All rights reserved.

Indexed as

Cornelia de Langeexome sequencingMRXS33 intellectual disability syndromeTAF1transcriptomopathy

Identifiers

PMID31646703
PMCPMC7187541
OpenAlexW2981347686

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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.