Evidence map›Paper›PMID 25049390›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2014

Next-generation sequencing identifies rare variants associated with Noonan syndrome.

Peng-Chieh Chen, Jiani Yin, Hui-Wen Yu, Tao Yuan, Minerva Fernandez, Christina K Yung, Quang M Trinh, Vanya D Peltekova, Jeffrey G Reid, Erica Tworog-Dube and 8 more

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
90citing papers in PubMed, 1 pooled it
9.4field-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

90 citing papers in PubMed, 1 synthesis or guideline pooled it, 184 citations in OpenAlex.

  1. Pooled it
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  12. Genetic factors underlying Mandibular prognathism: insights from recent human and animal studies.Mammalian genome : official journal of the International Mammalian Genome Society · 2025
    Review
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  16. Genetic backgrounds and genotype-phenotype relationships in anthropometric parameters of 116 Japanese individuals with Noonan syndrome.Clinical pediatric endocrinology : case reports and clinical investigations : official journal of the Japanese Society for Pediatric Endocrinology · 2024
    Article
  17. Review
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30 more citing papers are in PubMed but not listed here.

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

18 authors at 9 institutions in 3 countries.

Peng-Chieh ChenDepartment of Genetics, Harvard Medical School, Boston, MA 02115;Department of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, MA 02115;Institute of Clinical Medicine, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan 70457, Taiwan;
Jiani YinPrincess Margaret Cancer Center, University Health Network, and Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada M5G 1L7;
Hui-Wen YuInstitute of Clinical Medicine, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan 70457, Taiwan;
Tao YuanDepartment of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, MA 02115;
Minerva FernandezPrincess Margaret Cancer Center, University Health Network, and Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada M5G 1L7;
Christina K YungOntario Institute for Cancer Research, Toronto, ON, Canada M5G 0A3;
Quang M TrinhOntario Institute for Cancer Research, Toronto, ON, Canada M5G 0A3;
Vanya D PeltekovaOntario Institute for Cancer Research, Toronto, ON, Canada M5G 0A3;
Jeffrey G ReidHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030; and.
Erica Tworog-DubeDepartment of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, MA 02115;
Margaret B MorganHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030; and.
Donna M MuznyHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030; and.
Lincoln SteinOntario Institute for Cancer Research, Toronto, ON, Canada M5G 0A3;
John D McPhersonOntario Institute for Cancer Research, Toronto, ON, Canada M5G 0A3;
Amy E RobertsDepartment of Cardiology and Division of Genetics, Department of Medicine, Boston Children's Hospital Boston, Boston, MA 02115.
Richard A GibbsHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030; and.
Benjamin G NeelPrincess Margaret Cancer Center, University Health Network, and Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada M5G 1L7; bneel@uhnresearch.ca rkucherlapati@partners.org.
Raju KucherlapatiDepartment of Genetics, Harvard Medical School, Boston, MA 02115;Department of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, MA 02115; bneel@uhnresearch.ca rkucherlapati@partners.org.
Ontario Institute for Cancer Research · CABaylor College of Medicine · USNational Cheng Kung University Hospital · TWPrincess Margaret Cancer Centre · CABoston Children's Hospital · USBrigham and Women's Hospital · USHarvard University · USHarvard University Press · USUniversity of Toronto · CA

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
CIHRNCI NIH HHS R37CA49132NHGRI NIH HHS U54 HG003273NHGRI NIH HHS U54HG003273NHLBI NIH HHS HL 083272
6 · The paper itself

Abstract

Noonan syndrome (NS) is a relatively common genetic disorder, characterized by typical facies, short stature, developmental delay, and cardiac abnormalities. Known causative genes account for 70-80% of clinically diagnosed NS patients, but the genetic basis for the remaining 20-30% of cases is unknown. We performed next-generation sequencing on germ-line DNA from 27 NS patients lacking a mutation in the known NS genes. We identified gain-of-function alleles in Ras-like without CAAX 1 (RIT1) and mitogen-activated protein kinase kinase 1 (MAP2K1) and previously unseen loss-of-function variants in RAS p21 protein activator 2 (RASA2) that are likely to cause NS in these patients. Expression of the mutant RASA2, MAP2K1, or RIT1 alleles in heterologous cells increased RAS-ERK pathway activation, supporting a causative role in NS pathogenesis. Two patients had more than one disease-associated variant. Moreover, the diagnosis of an individual initially thought to have NS was revised to neurofibromatosis type 1 based on an NF1 nonsense mutation detected in this patient. Another patient harbored a missense mutation in NF1 that resulted in decreased protein stability and impaired ability to suppress RAS-ERK activation; however, this patient continues to exhibit a NS-like phenotype. In addition, a nonsense mutation in RPS6KA3 was found in one patient initially diagnosed with NS whose diagnosis was later revised to Coffin-Lowry syndrome. Finally, we identified other potential candidates for new NS genes, as well as potential carrier alleles for unrelated syndromes. Taken together, our data suggest that next-generation sequencing can provide a useful adjunct to RASopathy diagnosis and emphasize that the standard clinical categories for RASopathies might not be adequate to describe all patients.

Indexed as

AllelesGenetic Association StudiesHigh-Throughput Nucleotide SequencingHumansMAP Kinase Kinase 1MAP Kinase Signaling SystemMutationNeurofibromin 1Noonan Syndromeras ProteinsMAP2K1 protein, humanMAP Kinase Kinase 1Neurofibromin 1ras ProteinsRIT1 protein, humandevelopmental diseaseshuman geneticsPTPN11RASwhole exome sequencing

Identifiers

PMID25049390
PMCPMC4128129
OpenAlexW2034246581

What OpenQuestion holds

Textmetadata
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.