Evidence map›Paper›PMID 23352160›Full record

ArticleNeuron2013

Rare complete knockouts in humans: population distribution and significant role in autism spectrum disorders.

Elaine T Lim, Soumya Raychaudhuri, Stephan J Sanders, Christine Stevens, Aniko Sabo, Daniel G MacArthur, Benjamin M Neale, Andrew Kirby, Douglas M Ruderfer, Menachem Fromer and 31 more

Open access · bronzeAbstract read
In one paragraph

Article in Neuron, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 154 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
154citing papers in PubMed, 1 pooled it
31.5field-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

154 citing papers in PubMed, 1 synthesis or guideline pooled it, 279 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Article
  4. Review
  5. Article
  6. Article
  7. Review
  8. Article
  9. Article
  10. Article
  11. International journal of molecular sciences · 2024
    Article
  12. Article
  13. Molecular diagnosis of 405 individuals with autism spectrum disorder.European journal of human genetics : EJHG · 2024
    Article
  14. Article
  15. Review
  16. Article
  17. Review
  18. Article
  19. Article
  20. Retrovirus-DerivedInternational journal of molecular sciences · 2023
    Article

94 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

41 authors at 13 institutions in 1 country.

Elaine T LimAnalytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA 02114, USA.
Soumya Raychaudhuri
Stephan J Sanders
Christine Stevens
Aniko Sabo
Daniel G MacArthur
Benjamin M Neale
Andrew Kirby
Douglas M Ruderfer
Menachem Fromer
Monkol Lek
Li Liu
Jason Flannick
Stephan Ripke
Uma Nagaswamy
Donna Muzny
Jeffrey G Reid
Alicia Hawes
Irene Newsham
Yuanqing Wu
Lora Lewis
Huyen Dinh
Shannon Gross
Li-San Wang
Chiao-Feng Lin
Otto Valladares
Stacey B Gabriel
Mark dePristo
David M Altshuler
Shaun M Purcell
NHLBI Exome Sequencing Project
Matthew W State
Eric Boerwinkle
Joseph D Buxbaum
Edwin H Cook
Richard A Gibbs
Gerard D Schellenberg
James S Sutcliffe
Bernie Devlin
Kathryn Roeder
Mark J Daly
Baylor College of Medicine · USBroad Institute · USMassachusetts General Hospital · USHarvard University · USUniversity of Pennsylvania · USCarnegie Mellon University · USIcahn School of Medicine at Mount Sinai · USYale University · USPenn Center for AIDS Research · USThe University of Texas Health Science Center at Houston · USUniversity of Illinois Chicago · USUniversity of Pittsburgh · USVanderbilt University · 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
NIMH Center Repository Supporting Stem Cell ResearchU24MH068457 · NIMH · RUTGERS THE ST UNIV OF NJ NEW BRUNSWICK · PI BRZUSTOWICZ, LINDA M, KNOWLES, JAMES A · 2003 to 2024
$213.8M
Comprehensive Sequencing and Analysis of Variation in NHLBI CohortsUC2HL102925 · NHLBI · BROAD INSTITUTE, INC. · PI ALTSHULER, DAVID, GABRIEL, STACEY · 2010 to 2010
$14.7M
Northwest Genomics CenterUC2HL102926 · NHLBI · UNIVERSITY OF WASHINGTON · PI GREEN, PHILIP P, NICKERSON, DEBORAH A · 2010 to 2010
$14.0M
Northwest Genomics CenterRC2HL102926 · NHLBI · UNIVERSITY OF WASHINGTON · PI GREEN, PHILIP P, NICKERSON, DEBORAH A · 2009 to 2009
$11.0M
Comprehensive Sequencing and Analysis of Variation in NHLBI CohortsRC2HL102925 · NHLBI · BROAD INSTITUTE, INC. · PI ALTSHULER, DAVID, GABRIEL, STACEY · 2009 to 2009
$10.2M
TRANS STUDIES OF COGNITIVE,AFFECTIVE/NEUROCHEMICAL PROCESSES UNDERLYING INSISTENCP50HD055751 · NICHD · UNIVERSITY OF ILLINOIS AT CHICAGO · PI GIBBONS, ROBERT D · 2007 to 2011
$9.5M
Center for Genomic and Phenomic Studies in AutismU24MH081810 · NIMH · UNIVERSITY OF SOUTHERN CALIFORNIA · PI LAJONCHERE, CLARA M · 2007 to 2011
$8.3M
Genetics Association in Schizophrenia and Other DisordersR37MH057881 · NIMH · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI DEVLIN, BERNIE · 2013 to 2022
$5.4M
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
NHGRI NIH HHS U54 HG003067NHGRI NIH HHS U54 HG003273NHLBI NIH HHS HL-102923NHLBI NIH HHS HL-102924NHLBI NIH HHS HL-102925NHLBI NIH HHS HL-102926NHLBI NIH HHS HL-103010NHLBI NIH HHS RC2 HL102923NHLBI NIH HHS RC2 HL102924NHLBI NIH HHS RC2 HL102925NHLBI NIH HHS RC2 HL102926NHLBI NIH HHS RC2 HL103010NHLBI NIH HHS UC2 HL102923NHLBI NIH HHS UC2 HL102924NHLBI NIH HHS UC2 HL102925NHLBI NIH HHS UC2 HL102926NHLBI NIH HHS UC2 HL103010NICHD NIH HHS P50 HD055751NICHD NIH HHS P50HD055751NIMH NIH HHS 1U24MH081810NIMH NIH HHS R01 MH057881NIMH NIH HHS R01MH057881NIMH NIH HHS R01 MH061009NIMH NIH HHS R01MH061009NIMH NIH HHS R01 MH089004NIMH NIH HHS R01MH089004NIMH NIH HHS R01 MH089025NIMH NIH HHS R01MH089025NIMH NIH HHS R01 MH089175NIMH NIH HHS R01MH089175NIMH NIH HHS R01 MH089208NIMH NIH HHS R01MH089208NIMH NIH HHS R01 MH089482NIMH NIH HHS R01MH089482NIMH NIH HHS R37 MH057881NIMH NIH HHS U24 MH068457NIMH NIH HHS U24MH068457NIMH NIH HHS U24 MH081810
6 · The paper itself

Abstract

To characterize the role of rare complete human knockouts in autism spectrum disorders (ASDs), we identify genes with homozygous or compound heterozygous loss-of-function (LoF) variants (defined as nonsense and essential splice sites) from exome sequencing of 933 cases and 869 controls. We identify a 2-fold increase in complete knockouts of autosomal genes with low rates of LoF variation (≤ 5% frequency) in cases and estimate a 3% contribution to ASD risk by these events, confirming this observation in an independent set of 563 probands and 4,605 controls. Outside the pseudoautosomal regions on the X chromosome, we similarly observe a significant 1.5-fold increase in rare hemizygous knockouts in males, contributing to another 2% of ASDs in males. Taken together, these results provide compelling evidence that rare autosomal and X chromosome complete gene knockouts are important inherited risk factors for ASD.

Indexed as

Gene DeletionCase-Control StudiesChild Development Disorders, PervasiveChild, PreschoolChromosomes, Human, XDemographyFemaleGenetic VariationHomozygoteHumansLinkage DisequilibriumLoss of HeterozygosityMaleRisk Factors

Identifiers

PMID23352160
PMCPMC3613849
OpenAlexW2083272036

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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.