Evidence map›Paper›PMID 20011118›Full record

ArticlePLoS genetics2009

Discovery of candidate disease genes in ENU-induced mouse mutants by large-scale sequencing, including a splice-site mutation in nucleoredoxin.

Melissa K Boles, Bonney M Wilkinson, Laurens G Wilming, Bin Liu, Frank J Probst, Jennifer Harrow, Darren Grafham, Kathryn E Hentges, Lanette P Woodward, Andrea Maxwell and 16 more

Open access · goldAbstract read
In one paragraph

Article in PLoS genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.

0numbers the graph read from it
0cells of the map it votes in
30citing papers in PubMed
3.5field-weighted citation impact, top 7% 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

30 citing papers in PubMed, 45 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Review
  8. Article
  9. Article
  10. Article
  11. Article
  12. Current strategies for mutation detection in phenotype-driven screens utilising next generation sequencing.Mammalian genome : official journal of the International Mammalian Genome Society · 2015
    Review
  13. Article
  14. Article
  15. Article
  16. Review
  17. The Mammalian Phenotype Ontology as a unifying standard for experimental and high-throughput phenotyping data.Mammalian genome : official journal of the International Mammalian Genome Society · 2012
    Article
  18. High throughput sequencing approaches to mutation discovery in the mouse.Mammalian genome : official journal of the International Mammalian Genome Society · 2012
    Review
  19. ENU mutagenesis in mice identifies candidate genes for hypogonadism.Mammalian genome : official journal of the International Mammalian Genome Society · 2012
    Article
  20. Article
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

26 authors at 5 institutions in 3 countries.

Melissa K BolesDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA.
Bonney M Wilkinson
Laurens G Wilming
Bin Liu
Frank J Probst
Jennifer Harrow
Darren Grafham
Kathryn E Hentges
Lanette P Woodward
Andrea Maxwell
Karen Mitchell
Michael D Risley
Randy Johnson
Karen Hirschi
James R Lupski
Yosuke Funato
Hiroaki Miki
Pablo Marin-Garcia
Lucy Matthews
Alison J Coffey
Anne Parker
Tim J Hubbard
Jane Rogers
Allan Bradley
David J Adams
Monica J Justice
Wellcome Sanger Institute · GBBaylor College of Medicine · USUniversity of Manchester · GBOsaka University · JPThe University of Texas MD Anderson Cancer Center · US

Funding

Integrated human genome annotation: generation of a reference gene setU54HG004555 · NHGRI · SANGER INSTITUTE · PI HUBBARD, TIMOTHY JOHN · 2007 to 2012
$11.2M
Genetic analysis of mouse chromosome 11R01CA115503 · NCI · BAYLOR COLLEGE OF MEDICINE · PI JUSTICE, MONICA J. · 2006 to 2010
$2.6M
NCI NIH HHS R01 CA115503NHGRI NIH HHS U54 HG004555Wellcome Trust 062023Wellcome Trust 077198
6 · The paper itself

Abstract

An accurate and precisely annotated genome assembly is a fundamental requirement for functional genomic analysis. Here, the complete DNA sequence and gene annotation of mouse Chromosome 11 was used to test the efficacy of large-scale sequencing for mutation identification. We re-sequenced the 14,000 annotated exons and boundaries from over 900 genes in 41 recessive mutant mouse lines that were isolated in an N-ethyl-N-nitrosourea (ENU) mutation screen targeted to mouse Chromosome 11. Fifty-nine sequence variants were identified in 55 genes from 31 mutant lines. 39% of the lesions lie in coding sequences and create primarily missense mutations. The other 61% lie in noncoding regions, many of them in highly conserved sequences. A lesion in the perinatal lethal line l11Jus13 alters a consensus splice site of nucleoredoxin (Nxn), inserting 10 amino acids into the resulting protein. We conclude that point mutations can be accurately and sensitively recovered by large-scale sequencing, and that conserved noncoding regions should be included for disease mutation identification. Only seven of the candidate genes we report have been previously targeted by mutation in mice or rats, showing that despite ongoing efforts to functionally annotate genes in the mammalian genome, an enormous gap remains between phenotype and function. Our data show that the classical positional mapping approach of disease mutation identification can be extended to large target regions using high-throughput sequencing.

Indexed as

Gene Expression ProfilingMutationAnimalsChromosome MappingEthylnitrosoureaExonsGenes, LethalMiceMice, Mutant StrainsNuclear ProteinsOxidoreductasesEthylnitrosoureaNuclear ProteinsnucleoredoxinOxidoreductases

Identifiers

PMID20011118
PMCPMC2782131
OpenAlexW2045715881

What OpenQuestion holds

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LicenceCC BY
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.