Evidence map›Paper›PMID 25528277›Full record

ArticleBMC genomics2014

Exome sequencing and genome-wide copy number variant mapping reveal novel associations with sensorineural hereditary hearing loss.

Rajini R Haraksingh, Fereshteh Jahanbani, Juan Rodriguez-Paris, Joel Gelernter, Kari C Nadeau, John S Oghalai, Iris Schrijver, Michael P Snyder

Open access · goldAbstract read
In one paragraph

Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.6field-weighted citation impact, top 21% 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

15 citing papers in PubMed, 39 citations in OpenAlex.

  1. Article
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  3. Frontiers in genetics · 2024
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  5. A novel mutation of X-linked recessive deafness geneLaryngoscope investigative otolaryngology · 2022
    Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Article
  11. Article
  12. Article
  13. Massively Parallel Sequencing for Genetic Diagnosis of Hearing Loss: The New Standard of Care.Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery · 2015
    Review
  14. Article
  15. 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

8 authors at 2 institutions in 1 country.

Rajini R Haraksingh
Fereshteh Jahanbani
Juan Rodriguez-Paris
Joel Gelernter
Kari C Nadeau
John S Oghalai
Iris Schrijver
Michael P SnyderDepartment of Genetics, Stanford University School of Medicine, 300 Pasteur Dr,, M-344A, Stanford, CA 94305, USA. mpsnyder@stanford.edu.
Stanford University · USYale University · US

Funding

Human Genome Array: Technology for Functional AnalysisP50HG002357 · NHGRI · YALE UNIVERSITY · PI SNYDER, MICHAEL P. · 2001 to 2010
$31.9M
Outcomes in Children with Developmental Delay and Deafness: a Randomized TrialR01DC010075 · NIDCD · STANFORD UNIVERSITY · PI OGHALAI, JOHN S · 2009 to 2013
$2.0M
NHGRI NIH HHS P50 HG002357NHGRI NIH HHS P50HG002357NIDCD NIH HHS R01 DC010075
6 · The paper itself

Abstract

backgroundThe genetic diversity of loci and mutations underlying hereditary hearing loss is an active area of investigation. To identify loci associated with predominantly non-syndromic sensorineural hearing loss, we performed exome sequencing of families and of single probands, as well as copy number variation (CNV) mapping in a case-control cohort.

resultsAnalysis of three distinct families revealed several candidate loci in two families and a single strong candidate gene, MYH7B, for hearing loss in one family. MYH7B encodes a Type II myosin, consistent with a role for cytoskeletal proteins in hearing. High-resolution genome-wide CNV analysis of 150 cases and 157 controls revealed deletions in genes known to be involved in hearing (e.g. GJB6, OTOA, and STRC, encoding connexin 30, otoancorin, and stereocilin, respectively), supporting CNV contributions to hearing loss phenotypes. Additionally, a novel region on chromosome 16 containing part of the PDXDC1 gene was found to be frequently deleted in hearing loss patients (OR=3.91, 95% CI: 1.62-9.40, p=1.45×10(-7)).

conclusionsWe conclude that many known as well as novel loci and distinct types of mutations not typically tested in clinical settings can contribute to the etiology of hearing loss. Our study also demonstrates the challenges of exome sequencing and genome-wide CNV mapping for direct clinical application, and illustrates the need for functional and clinical follow-up as well as curated open-access databases.

Indexed as

Chromosome MappingDNA Copy Number VariationsEar, InnerExomeFemaleGene Expression RegulationGenome, HumanGenomicsHearing Loss, SensorineuralHeterozygoteHumansMaleMutation, MissenseMyosin Type IIPedigreeSequence Analysis, DNAMyosin Type II

Identifiers

PMID25528277
PMCPMC4367882
OpenAlexW1736183920

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.