Evidence map›Paper›PMID 22495311›Full record

ArticleNature2012

Patterns and rates of exonic de novo mutations in autism spectrum disorders.

Benjamin M Neale, Yan Kou, Li Liu, Avi Ma'ayan, Kaitlin E Samocha, Aniko Sabo, Chiao-Feng Lin, Christine Stevens, Li-San Wang, Vladimir Makarov and 49 more

Open access · greenAbstract read
In one paragraph

Article in Nature, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,058 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
1,058citing papers in PubMed, 3 pooled it
102.7field-weighted citation impact, top 1% 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

1,058 citing papers in PubMed, 3 syntheses or guidelines pooled it, 1,788 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Pooled it
  4. Article
  5. Review
  6. Review
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  18. Translational pediatrics · 2026
    Article
  19. Review
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998 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

59 authors at 14 institutions in 2 countries.

Benjamin M NealeAnalytic and Translational Genetics Unit, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts 02114, USA.
Yan Kou
Li Liu
Avi Ma'ayan
Kaitlin E Samocha
Aniko Sabo
Chiao-Feng Lin
Christine Stevens
Li-San Wang
Vladimir Makarov
Paz Polak
Seungtai Yoon
Jared Maguire
Emily L Crawford
Nicholas G Campbell
Evan T Geller
Otto Valladares
Chad Schafer
Han Liu
Tuo Zhao
Guiqing Cai
Jayon Lihm
Ruth Dannenfelser
Omar Jabado
Zuleyma Peralta
Uma Nagaswamy
Donna Muzny
Jeffrey G Reid
Irene Newsham
Yuanqing Wu
Lora Lewis
Yi Han
Benjamin F Voight
Elaine Lim
Elizabeth Rossin
Andrew Kirby
Jason Flannick
Menachem Fromer
Khalid Shakir
Tim Fennell
Kiran Garimella
Eric Banks
Ryan Poplin
Stacey Gabriel
Mark DePristo
Jack R Wimbish
Braden E Boone
Shawn E Levy
Catalina Betancur
Shamil Sunyaev
Eric Boerwinkle
Joseph D Buxbaum
Edwin H Cook
Bernie Devlin
Richard A Gibbs
Kathryn Roeder
Gerard D Schellenberg
James S Sutcliffe
Mark J Daly
Broad Institute · USIcahn School of Medicine at Mount Sinai · USBaylor College of Medicine · USUniversity of Pennsylvania · USHarvard University · USMassachusetts General Hospital · USCarnegie Mellon University · USHudsonAlpha Institute for Biotechnology · USVanderbilt University · USJohns Hopkins University · USThe University of Texas Health Science Center at Houston · USUniversité Paris Cité · FRUniversity of Illinois Chicago · USUniversity of Pittsburgh · US

Funding

Large Scale Sequencing and Analysis of GenomesU54HG003067 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI GABRIEL, STACEY, LANDER, ERIC S · 2004 to 2015
$568.6M
The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
Medical Scientist Training ProgramT32GM007753 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALENSKY, LOREN DAVID · 1985 to 2021
$50.0M
VANDERBILT UNIVERSITY CTSA FOR PEDIATRIC RESEARCHUL1RR024975 · NCRR · VANDERBILT UNIVERSITY · PI BERNARD, GORDON RAPHAEL · 2007 to 2011
$45.7M
System Biology Center in New YorkP50GM071558 · NIGMS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI ZAPH, SUSANA NEVES · 2007 to 2017
$22.8M
THREE-TIERED PREVENTION MODEL TO BETTER SERVE ALL STUDENP30HD015052 · NICHD · VANDERBILT UNIVERSITY · PI DYKENS, ELISABETH MAY · 1985 to 2014
$18.6M
TRANS STUDIES OF COGNITIVE,AFFECTIVE/NEUROCHEMICAL PROCESSES UNDERLYING INSISTENCP50HD055751 · NICHD · UNIVERSITY OF ILLINOIS AT CHICAGO · PI GIBBONS, ROBERT D · 2007 to 2011
$9.5M
5/5 - Elucidating the Genetic Architecture of Autism by Deep Genomic SequencingR01MH089482 · NIMH · VANDERBILT UNIVERSITY · PI SUTCLIFFE, JAMES S · 2009 to 2010
$5.2M
GENETIC ASSOCIATION IN SCHIZOPHRENIA AND OTHER DISORDERSR01MH057881 · NIMH · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI DEVLIN, BERNIE · 1998 to 2012
$4.8M
2/5-Elucidating the Genetic Architecture of Autism by Deep Genomic SequencingR01MH089208 · NIMH · BROAD INSTITUTE, INC. · PI DALY, MARK JOSEPH · 2009 to 2010
$4.2M
MOLECULAR GENETICS OF 15Q11-Q13 DEFECTS IN AUTISMR01MH061009 · NIMH · VANDERBILT UNIVERSITY · PI SUTCLIFFE, JAMES S · 2000 to 2008
$3.3M
The Vanderbilt Institute for Clinical and Translational Research (VICTR) KL2KL2RR024977 · NCRR · VANDERBILT UNIVERSITY · PI BERNARD, GORDON RAPHAEL · 2007 to 2011
$3.0M
NCRR NIH HHS KL2 RR024977NCRR NIH HHS TL1 RR024978NCRR NIH HHS UL1 RR024975NHGRI NIH HHS U54 HG003067NHGRI NIH HHS U54 HG003273NICHD NIH HHS P30 HD015052NICHD NIH HHS P50 HD055751NIGMS NIH HHS P50 GM071558NIGMS NIH HHS T32 GM007753NIMH NIH HHS R01 MH057881NIMH NIH HHS R01 MH061009NIMH NIH HHS R01MH084676NIMH NIH HHS R01 MH089004NIMH NIH HHS R01 MH089025NIMH NIH HHS R01 MH089175NIMH NIH HHS R01MH089175NIMH NIH HHS R01 MH089208NIMH NIH HHS R01MH089208NIMH NIH HHS R01 MH089482
6 · The paper itself

Abstract

Autism spectrum disorders (ASD) are believed to have genetic and environmental origins, yet in only a modest fraction of individuals can specific causes be identified. To identify further genetic risk factors, here we assess the role of de novo mutations in ASD by sequencing the exomes of ASD cases and their parents (n = 175 trios). Fewer than half of the cases (46.3%) carry a missense or nonsense de novo variant, and the overall rate of mutation is only modestly higher than the expected rate. In contrast, the proteins encoded by genes that harboured de novo missense or nonsense mutations showed a higher degree of connectivity among themselves and to previous ASD genes as indexed by protein-protein interaction screens. The small increase in the rate of de novo events, when taken together with the protein interaction results, are consistent with an important but limited role for de novo point mutations in ASD, similar to that documented for de novo copy number variants. Genetic models incorporating these data indicate that most of the observed de novo events are unconnected to ASD; those that do confer risk are distributed across many genes and are incompletely penetrant (that is, not necessarily sufficient for disease). Our results support polygenic models in which spontaneous coding mutations in any of a large number of genes increases risk by 5- to 20-fold. Despite the challenge posed by such models, results from de novo events and a large parallel case-control study provide strong evidence in favour of CHD8 and KATNAL2 as genuine autism risk factors.

Indexed as

Autistic DisorderCase-Control StudiesDNA-Binding ProteinsExomeExonsFamily HealthGenetic Predisposition to DiseaseHumansModels, GeneticMultifactorial InheritanceMutationPhenotypePoisson DistributionProtein Interaction MapsTranscription FactorsCHD8 protein, humanDNA-Binding ProteinsTranscription Factors

Identifiers

PMID22495311
PMCPMC3613847
OpenAlexW2024663595

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Registered trials

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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.