Evidence map›Paper›PMID 22344438›Full record

ArticleScience (New York, N.Y.)2012

A systematic survey of loss-of-function variants in human protein-coding genes.

Daniel G MacArthur, Suganthi Balasubramanian, Adam Frankish, Ni Huang, James Morris, Klaudia Walter, Luke Jostins, Lukas Habegger, Joseph K Pickrell, Stephen B Montgomery and 42 more

Erratum issuedAbstract read
In one paragraph

Article in Science (New York, N.Y.), 2012. 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 748 papers.

0numbers the graph read from it
0cells of the map it votes in
748citing papers in PubMed
–field-weighted citation impact
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

748 citing papers in PubMed.

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  9. A NovelInternational journal of molecular sciences · 2026
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  16. A sibling study of variation in parental mutation rates.bioRxiv : the preprint server for biology · 2026
    Article
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  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

52 authors.

Daniel G MacArthurWellcome Trust Sanger Institute, Hinxton, UK. macarthur@atgu.mgh.harvard.edu
Suganthi Balasubramanian
Adam Frankish
Ni Huang
James Morris
Klaudia Walter
Luke Jostins
Lukas Habegger
Joseph K Pickrell
Stephen B Montgomery
Cornelis A Albers
Zhengdong D Zhang
Donald F Conrad
Gerton Lunter
Hancheng Zheng
Qasim Ayub
Mark A DePristo
Eric Banks
Min Hu
Robert E Handsaker
Jeffrey A Rosenfeld
Menachem Fromer
Mike Jin
Xinmeng Jasmine Mu
Ekta Khurana
Kai Ye
Mike Kay
Gary Ian Saunders
Marie-Marthe Suner
Toby Hunt
If H A Barnes
Clara Amid
Denise R Carvalho-Silva
Alexandra H Bignell
Catherine Snow
Bryndis Yngvadottir
Suzannah Bumpstead
David N Cooper
Yali Xue
Irene Gallego Romero
1000 Genomes Project Consortium
Jun Wang
Yingrui Li
Richard A Gibbs
Steven A McCarroll
Emmanouil T Dermitzakis
Jonathan K Pritchard
Jeffrey C Barrett
Jennifer Harrow
Matthew E Hurles
Mark B Gerstein
Chris Tyler-Smith

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
Cellular mechanisms of HPA axis neuroadaptations in alcohol dependenceR21AA022707 · NIAAA · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI SPIGELMAN, IGOR · 2014 to 2015
$383k
Biotechnology and Biological Sciences Research Council BB/I02593X/1British Heart Foundation RG/09/012/28096NHGRI NIH HHS U54 HG003273NIAAA NIH HHS R21 AA022707Wellcome Trust 085532Wellcome Trust 090532Wellcome Trust 090532/Z/09/ZWellcome Trust 098051
6 · The paper itself

Abstract

Genome-sequencing studies indicate that all humans carry many genetic variants predicted to cause loss of function (LoF) of protein-coding genes, suggesting unexpected redundancy in the human genome. Here we apply stringent filters to 2951 putative LoF variants obtained from 185 human genomes to determine their true prevalence and properties. We estimate that human genomes typically contain ~100 genuine LoF variants with ~20 genes completely inactivated. We identify rare and likely deleterious LoF alleles, including 26 known and 21 predicted severe disease-causing variants, as well as common LoF variants in nonessential genes. We describe functional and evolutionary differences between LoF-tolerant and recessive disease genes and a method for using these differences to prioritize candidate genes found in clinical sequencing studies.

Indexed as

Genetic VariationGenome, HumanDiseaseGene ExpressionGene FrequencyHumansPhenotypePolymorphism, Single NucleotideProteinsSelection, GeneticProteins

Identifiers

PMID22344438
PMCPMC3299548

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.