Evidence map›Paper›PMID 35616647›Full record

ArticleGenetics in medicine : official journal of the American College of Medical Genetics2022

Clinical validity assessment of genes frequently tested on intellectual disability/autism sequencing panels.

Erin Rooney Riggs, Taylor I Bingaman, Carrie-Ann Barry, Andrea Behlmann, Krista Bluske, Bret Bostwick, Alison Bright, Chun-An Chen, Amanda R Clause, Avinash V Dharmadhikari and 31 more

Open access · greenAbstract read
In one paragraph

Article in Genetics in medicine : official journal of the American College of Medical Genetics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
4.1field-weighted citation impact, top 6% 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

14 citing papers in PubMed, 23 citations in OpenAlex.

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  9. Clinical variants paired with phenotype: A rich resource for brain gene curation.Genetics in medicine : official journal of the American College of Medical Genetics · 2024
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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

41 authors at 20 institutions in 10 countries.

Erin Rooney RiggsAutism & Developmental Medicine Institute, Geisinger, Danville, PA. Electronic address: eriggs@geisinger.edu.
Taylor I BingamanAutism & Developmental Medicine Institute, Geisinger, Danville, PA.
Carrie-Ann BarryDrexel University College of Medicine, Philadelphia, PA.
Andrea BehlmannInvitae, San Francisco, CA.
Krista BluskeIllumina, Inc, San Diego, CA.
Bret BostwickDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX.
Alison BrightNatera, San Carlos, CA.
Chun-An ChenDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX.
Amanda R ClauseIllumina, Inc, San Diego, CA.
Avinash V DharmadhikariDepartment of Pathology and Laboratory Medicine, Children's Hospital of Los Angeles, Los Angeles, CA; Keck School of Medicine, University of Southern California, Los Angeles, CA.
Mythily GanapathiDepartment of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY.
Claudia Gonzaga-JaureguiLaboratorio Internacional de Investigación sobre el Genoma Humano, Universidad Nacional Autónoma de México, Juriquilla, Querétaro, Mexico.
Andrew R GrantProgram in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA; New York Medical College, Valhalla, NY.
Madeline Y HughesUniversity of Illinois Chicago, Chicago, IL.
Se Rin KimNational Human Genome Research Institute, Bethesda, MD.
Amanda KrauseDivision of Human Genetics, National Health Laboratory Service and School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.
Jun LiaoDepartment of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY.
Aimé LumakaLaboratoire de Génétique Humaine, University of Liège, Liège, Belgium.
Michelle MahTrillium Health Partners, Mississauga, Ontario, Canada.
Caitlin M MaloneyUniversity of Washington, Seattle, WA.
Shruthi MohanUniversity of North Carolina, Chapel Hill, NC.
Ikeoluwa A Osei-OwusuProgram in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA.
Emma RebleSt. Michael's Hospital, Unity Health Toronto, Toronto, Ontario, Canada.
Olivia RennieProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.
Juliann M SavattAutism & Developmental Medicine Institute, Geisinger, Danville, PA.
Hermela ShimelisAutism & Developmental Medicine Institute, Geisinger, Danville, PA.
Rebecca K SiegertProgram in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA.
Tam P SneddonDepartment of Pathology and Laboratory Medicine, School of Medicine, The University of North Carolina, Chapel Hill, NC.
Courtney ThaxtonDepartment of Pathology and Laboratory Medicine, School of Medicine, The University of North Carolina, Chapel Hill, NC.
Kelly A TonerDrexel University College of Medicine, Philadelphia, PA.
Kien Trung TranKinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Sydney, New South Wales, Australia.
Ryan WebbProgram in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA.
Emma H WilcoxThe Warren Alpert Medical School of Brown University, Providence, RI.
Jiani YinDepartment of Neurology, University of California Los Angeles, Los Angeles, CA.
Xinming ZhuoThe Jackson Laboratory for Genomic Medicine, Farmington, CT.
Masa ZnidarsicUniversity Medical Center Ljubljana, Ljubljana, Slovenia.
Christa Lese MartinAutism & Developmental Medicine Institute, Geisinger, Danville, PA.
Catalina BetancurSorbonne Université, INSERM, CNRS, Neuroscience Paris Seine, Institut de Biologie Paris Seine, Paris, France.
Jacob A S VorstmanProgram in Genetics and Genome Biology, The Hospital for Sick Children, Toronto, Ontario, Canada.
David T MillerDivision of Genetics and Genomics, Boston Children's Hospital, Boston, MA.
Christian P SchaafDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX; Institute of Human Genetics, Heidelberg University Hospital, Heidelberg, Germany.
Autism & Developmental Medicine Institute · USBroad Institute · USBaylor College of Medicine · USUniversity of North Carolina at Chapel Hill · USColumbia University Irving Medical Center · USDrexel University · USHospital for Sick Children · CAIllumina (United States) · USBoston Children's Hospital · USBrown University · USCentre National de la Recherche Scientifique · FRGarvan Institute of Medical Research · AUInvitae (United States) · USJackson Laboratory · USLjubljana University Medical Centre · SINatera (United States) · USNational Health Laboratory Service · ZANational Human Genome Research Institute · USSt. Michael's Hospital · CATrillium Health Centre · CA

Funding

The Clinical Genome Resource – Advancing genomic medicine through biocuration and expert assessment of genes and variants at scaleU24HG009650 · NHGRI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI JONATHAN S BERG, Jessica Ezzell Hunter · 2021 to 2026
$30.0M
ClinGen AI Data Delivery SupplementU24HG006834 · NHGRI · BROAD INSTITUTE, INC. · PI Marina DiStefano, CHRISTA LESE MARTIN · 2021 to 2026
$26.7M
NHGRI NIH HHS U24 HG006834NHGRI NIH HHS U24 HG009650
6 · The paper itself

Abstract

purposeNeurodevelopmental disorders (NDDs), such as intellectual disability (ID) and autism spectrum disorder (ASD), exhibit genetic and phenotypic heterogeneity, making them difficult to differentiate without a molecular diagnosis. The Clinical Genome Resource Intellectual Disability/Autism Gene Curation Expert Panel (GCEP) uses systematic curation to distinguish ID/ASD genes that are appropriate for clinical testing (ie, with substantial evidence supporting their relationship to disease) from those that are not.

methodsUsing the Clinical Genome Resource gene-disease validity curation framework, the ID/Autism GCEP classified genes frequently included on clinical ID/ASD testing panels as Definitive, Strong, Moderate, Limited, Disputed, Refuted, or No Known Disease Relationship.

resultsAs of September 2021, 156 gene-disease pairs have been evaluated. Although most (75%) were determined to have definitive roles in NDDs, 22 (14%) genes evaluated had either Limited or Disputed evidence. Such genes are currently not recommended for use in clinical testing owing to the limited ability to assess the effect of identified variants.

conclusionOur understanding of gene-disease relationships evolves over time; new relationships are discovered and previously-held conclusions may be questioned. Without periodic re-examination, inaccurate gene-disease claims may be perpetuated. The ID/Autism GCEP will continue to evaluate these claims to improve diagnosis and clinical care for NDDs.

Indexed as

Autism Spectrum DisorderAutistic DisorderIntellectual DisabilityNeurodevelopmental DisordersHumansAutismClinGenGene–disease validityIntellectual disabilityNeurodevelopmental disorders

Identifiers

PMID35616647
PMCPMC10200330
OpenAlexW4281564788

What OpenQuestion holds

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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.