Evidence map›Paper›PMID 29790872›Full record

ArticleGenetics in medicine : official journal of the American College of Medical Genetics2018

Genomic sequencing identifies secondary findings in a cohort of parent study participants.

Michelle L Thompson, Candice R Finnila, Kevin M Bowling, Kyle B Brothers, Matthew B Neu, Michelle D Amaral, Susan M Hiatt, Kelly M East, David E Gray, James M J Lawlor and 9 more

Abstract read
In one paragraph

Article in Genetics in medicine : official journal of the American College of Medical Genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed, 2 pooled it
–field-weighted citation impact
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

19 citing papers in PubMed, 2 syntheses or guidelines pooled it.

  1. Pooled it
  2. A systematic literature review of disclosure practices and reported outcomes for medically actionable genomic secondary findings.Genetics in medicine : official journal of the American College of Medical Genetics · 2021
    Pooled it
  3. Article
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  12. Identifying rare, medically relevant variation via population-based genomic screening in Alabama: opportunities and pitfalls.Genetics in medicine : official journal of the American College of Medical Genetics · 2021
    Article
  13. Article
  14. A secure system for genomics clinical decision support.Journal of biomedical informatics · 2020
    Article
  15. Clinical utility of genomic sequencing.Current opinion in pediatrics · 2019
    Review
  16. Article
  17. 1 in 38 individuals at risk of a dominant medically actionable disease.European journal of human genetics : EJHG · 2019
    Article
  18. Genome-first findings require precision phenotyping.Genetics in medicine : official journal of the American College of Medical Genetics · 2018
    Article
  19. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors.

Michelle L ThompsonHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Candice R FinnilaHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Kevin M BowlingHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Kyle B BrothersDepartment of Pediatrics, University of Louisville, Louisville, Kentucky, USA.
Matthew B NeuHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Michelle D AmaralHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Susan M HiattHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Kelly M EastHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
David E GrayHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
James M J LawlorHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Whitley V KelleyHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Edward J LoseUniversity of Alabama at Birmingham, Birmingham, Alabama, USA.
Carla A RichDepartment of Pediatrics, University of Louisville, Louisville, Kentucky, USA.
Shirley SimmonsUniversity of Alabama at Birmingham, Birmingham, Alabama, USA.
Shawn E LevyHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Richard M MyersHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Gregory S BarshHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
E Martina BebinUniversity of Alabama at Birmingham, Birmingham, Alabama, USA.
Gregory M CooperHudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA. gcooper@hudsonalpha.org.

Funding

South-seq: DNA sequencing for newborn nurseries in the SouthU01HG007301 · NHGRI · HUDSON-ALPHA INSTITUTE FOR BIOTECHNOLOGY · PI BARSH, GREGORY STEFAN, COOPER, GREGORY MICHAEL · 2017 to 2021
$11.9M
Genomic Diagnosis in Children with Developmental DelayUM1HG007301 · NHGRI · HUDSON-ALPHA INSTITUTE FOR BIOTECHNOLOGY · PI COOPER, GREGORY MICHAEL, MYERS, RICHARD M · 2013 to 2016
$7.5M
NHGRI NIH HHS U01 HG007301NHGRI NIH HHS UM1 HG007301
6 · The paper itself

Abstract

purposeClinically relevant secondary variants were identified in parents enrolled with a child with developmental delay and intellectual disability.

methodsExome/genome sequencing and analysis of 789 "unaffected" parents was performed.

resultsPathogenic/likely pathogenic variants were identified in 21 genes within 25 individuals (3.2%), with 11 (1.4%) participants harboring variation in a gene defined as clinically actionable by the American College of Medical Genetics and Genomics. These 25 individuals self-reported either relevant clinical diagnoses (5); relevant family history or symptoms (13); or no relevant family history, symptoms, or clinical diagnoses (7). A limited carrier screen was performed yielding 15 variants in 48 (6.1%) parents. Parents were also analyzed as mate pairs (n = 365) to identify cases in which both parents were carriers for the same recessive disease, yielding three such cases (0.8%), two of which had children with the relevant recessive disease. Four participants had two findings (one carrier and one noncarrier variant). In total, 71 of the 789 enrolled parents (9.0%) received secondary findings.

conclusionWe provide an overview of the rates and types of clinically relevant secondary findings, which may be useful in the design and implementation of research and clinical sequencing efforts to identify such findings.

Indexed as

Exome SequencingGenetic TestingAdultChromosome MappingExomeFemaleGenetic Carrier ScreeningGenetic Diseases, InbornGenetic VariationGenome, HumanHumansMaleMiddle AgedMutationParentsWhole Genome SequencingACMGClinical Sequencing Exploratory Research Consortiumdisease riskgenomic sequencingsecondary findings

Identifiers

PMID29790872
PMCPMC6185813

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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.