Evidence map›Paper›PMID 28327142›Full record

ArticleBMC medical genetics2017

Exome sequencing identified rare variants in genes HSPG2 and ATP2B4 in a family segregating developmental dysplasia of the hip.

Sulman Basit, Alia M Albalawi, Essa Alharby, Khalid I Khoshhal

Open access · goldAbstract readCase Reports
In one paragraph

Article in BMC medical genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
21citing papers in PubMed, 1 pooled it
6.0field-weighted citation impact, top 3% 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

21 citing papers in PubMed, 1 synthesis or guideline pooled it, 39 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Mutation in theFrontiers in genetics · 2024
    Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Article
  11. Further Evidence of a Recessive Variant inGlobal medical genetics · 2020
    Article
  12. Review
  13. Article
  14. Article
  15. Developmental Dysplasia of Hip: Perspectives in Genetic Screening.Medical sciences (Basel, Switzerland) · 2019
    Review
  16. Article
  17. Observational
  18. Article
  19. Article
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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

4 authors at 1 institution in 1 country.

Sulman BasitCentre for Genetics and Inherited Diseases, Taibah University, Almadinah Almunawwarah, 30001, Saudi Arabia. sbasit.phd@gmail.com.ORCID http://orcid.org/0000-0003-4294-6825
Alia M AlbalawiCentre for Genetics and Inherited Diseases, Taibah University, Almadinah Almunawwarah, 30001, Saudi Arabia.
Essa AlharbyCentre for Genetics and Inherited Diseases, Taibah University, Almadinah Almunawwarah, 30001, Saudi Arabia.
Khalid I KhoshhalDepartment of Orthopedic Surgery, College of Medicine, Taibah University, Almadinah Almunawwarah, Saudi Arabia.
Taibah University · SA

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundDevelopmental dysplasia of the hip (DDH) is a common pathological condition of the musculoskeletal system in infants which results in a congenital and developmental malformation of the hip joint. DDH is a spectrum of pathologies affecting the infant hip ranging from asymptomatic subtle radiographic signs through mild instability to frank dislocations with acetabular dysplasia. A Saudi family with three affected individuals with DDH was identified and genetic analysis was performed to detect the possible genetic defect(s) underlying DDH in the affected members of the family.

methodsWe performed whole genome genotyping using Illumina HumanOmni 2.5 M array and whole exome sequencing (WES) using Nextera Rapid capture kit and Illumina NextSeq500 instrument in four individuals of a family with DDH.

resultsSNP data analysis did not identify any runs of homozygosity and copy number variations. Identity-by-descent (IBD) analysis on whole genome genotyping data identified a shared haplotypes on chromosome 1 in affected individuals. An analysis of the WES data identified rare heterozygous variants in HSPG2 and ATP2B4 genes in the affected individuals. Multiple prediction software predicted that the variants identified are damaging. Moreover, in silico analysis showed that HSPG2 regulates ATP2B4 expression using a variety of transcription factors.

conclusionOur results indicate that there might be a functional epistatic interaction between HSPG2 and ATP2B4, and DDH in the family studied is due to a combined effect of both variants. These variants are also present in the asymptomatic mother suggesting that the variants in HSPG2 and ATP2B4 are incompletely penetrant. This study provides the first evidence of digenic inheritance of DDH in a family and extends the spectrum of genetic heterogeneity in this human disorder.

Indexed as

Genetic VariationAdultAllelesBase SequenceDNAFemaleGenetic TestingGenotypeHaplotypesHeparan Sulfate ProteoglycansHeterozygoteHip Dislocation, CongenitalHumansMaleMutation, MissensePedigreeATP2B4 protein, humanDNAHeparan Sulfate ProteoglycansperlecanPlasma Membrane Calcium-Transporting ATPasesATP2B4Developmental dysplasia of the hipExome sequencingHSPG2Perlecan

Identifiers

PMID28327142
PMCPMC5361705
OpenAlexW2601716677

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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.