Evidence map›Paper›PMID 22415848›Full record

ArticleHuman mutation2012

Deep sequencing of the LRRK2 gene in 14,002 individuals reveals evidence of purifying selection and independent origin of the p.Arg1628Pro mutation in Europe.

Justin P Rubio, Simon Topp, Liling Warren, Pamela L St Jean, Daniel Wegmann, Darren Kessner, John Novembre, Judong Shen, Dana Fraser, Jennifer Aponte and 7 more

Open access · greenAbstract read
In one paragraph

Article in Human mutation, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
1.1field-weighted citation impact, top 26% 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

16 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Review
  3. Review
  4. Article
  5. Article
  6. Article
  7. Study of LRRK2 variation in tauopathy: Progressive supranuclear palsy and corticobasal degeneration.Movement disorders : official journal of the Movement Disorder Society · 2017
    Article
  8. Review
  9. Heterogeneity of leucine-rich repeat kinase 2 mutations: genetics, mechanisms and therapeutic implications.Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics · 2014
    Review
  10. Article
  11. Article
  12. Article
  13. Advances in the genetics of Parkinson disease.Nature reviews. Neurology · 2013
    Review
  14. LRRK2: cause, risk, and mechanism.Journal of Parkinson's disease · 2013
    Review
  15. Evolution of neurodegeneration.Current biology : CB · 2012
    Review
  16. 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

17 authors at 2 institutions in 3 countries.

Justin P RubioQuantitative Sciences, Research and Development, GlaxoSmithKline, Gunnels Wood Road, Stevenage, Hertfordshire, England, United Kingdom. justin.p.rubio@gsk.com
Simon Topp
Liling Warren
Pamela L St Jean
Daniel Wegmann
Darren Kessner
John Novembre
Judong Shen
Dana Fraser
Jennifer Aponte
Keith Nangle
Lon R Cardon
Margaret G Ehm
Stephanie L Chissoe
John C Whittaker
Matthew R Nelson
Vincent E Mooser
GlaxoSmithKline (India) · INUniversity of California, Los Angeles · US

Funding

Training Grant in Genomic Analysis and InterpretationT32HG002536 · NHGRI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Valerie A Arboleda, Harold Pimentel · 2002 to 2026
$8.6M
NHGRI NIH HHS T32 HG002536
6 · The paper itself

Abstract

Genetic variation in LRRK2 predisposes to Parkinson disease (PD), which underpins its development as a therapeutic target. Here, we aimed to identify novel genotype-phenotype associations that might support developing LRRK2 therapies for other conditions. We sequenced the 51 exons of LRRK2 in cases comprising 12 common diseases (n = 9,582), and in 4,420 population controls. We identified 739 single-nucleotide variants, 62% of which were observed in only one person, including 316 novel exonic variants. We found evidence of purifying selection for the LRRK2 gene and a trend suggesting that this is more pronounced in the central (ROC-COR-kinase) core protein domains of LRRK2 than the flanking domains. Population genetic analyses revealed that LRRK2 is not especially polymorphic or differentiated in comparison to 201 other drug target genes. Among Europeans, we identified 17 carriers (0.13%) of pathogenic LRRK2 mutations that were not significantly enriched within any disease or in those reporting a family history of PD. Analysis of pathogenic mutations within Europe reveals that the p.Arg1628Pro (c4883G>C) mutation arose independently in Europe and Asia. Taken together, these findings demonstrate how targeted deep sequencing can help to reveal fundamental characteristics of clinically important loci.

Indexed as

EuropeGenetic Predisposition to DiseaseGenetics, PopulationHigh-Throughput Nucleotide SequencingHumansLeucine-Rich Repeat Serine-Threonine Protein Kinase-2MutationParkinson DiseaseProtein Serine-Threonine KinasesWhite PeopleLeucine-Rich Repeat Serine-Threonine Protein Kinase-2LRRK2 protein, humanProtein Serine-Threonine Kinases

Identifiers

PMID22415848
PMCPMC3370131
OpenAlexW2050698641

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.