Evidence map›Paper›PMID 33798739›Full record

ArticleThe Journal of molecular diagnostics : JMD2021

Multisite Evaluation and Validation of a Sensitive Diagnostic and Screening System for Spinal Muscular Atrophy that Reports SMN1 and SMN2 Copy Number, along with Disease Modifier and Gene Duplication Variants.

John N Milligan, Jessica L Larson, Stela Filipovic-Sadic, Walairat Laosinchai-Wolf, Ya-Wen Huang, Tsang-Ming Ko, Kristin M Abbott, Henny H Lemmink, Minna Toivonen, Johanna Schleutker and 4 more

Abstract readMulticenter Study
In one paragraph

Article in The Journal of molecular diagnostics : JMD, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
–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

6 citing papers in PubMed.

  1. Article
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  4. Review
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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

14 authors.

John N MilliganResearch and Development, Asuragen Inc., Austin, Texas. Electronic address: jmilligan@asuragen.com.
Jessica L LarsonResearch and Development, Asuragen Inc., Austin, Texas.
Stela Filipovic-SadicResearch and Development, Asuragen Inc., Austin, Texas.
Walairat Laosinchai-WolfResearch and Development, Asuragen Inc., Austin, Texas.
Ya-Wen HuangGenePhile Bioscience Laboratory, Ko's Obstetrics and Gynecology Clinic, Taipei City, Taiwan.
Tsang-Ming KoGenePhile Bioscience Laboratory, Ko's Obstetrics and Gynecology Clinic, Taipei City, Taiwan.
Kristin M AbbottDepartment of Genetics, University Medical Center Groningen, Groningen, the Netherlands.
Henny H LemminkDepartment of Genetics, University Medical Center Groningen, Groningen, the Netherlands.
Minna ToivonenDepartment of Medical Genetics, Genomics, Laboratory Division, Turku University Hospital, Turku, Finland.
Johanna SchleutkerDepartment of Medical Genetics, Genomics, Laboratory Division, Turku University Hospital, Turku, Finland; Institute of Biomedicine, University of Turku, Turun yliopisto, Finland.
Caren GentileHospital of the University of Pennsylvania, Philadelphia, Pennsylvania.
Vivianna M Van DeerlinHospital of the University of Pennsylvania, Philadelphia, Pennsylvania.
Huiping ZhuResearch and Development, Asuragen Inc., Austin, Texas.
Gary J LathamResearch and Development, Asuragen Inc., Austin, Texas.

Funding

Novel Strategies for Development of a Multiplexed Test with Expanded Content for Spinal Muscular AtrophyR43NS115425 · NINDS · ASURAGEN, INC. · PI ZHU, HUIPING · 2019 to 2019
$182k
NINDS NIH HHS R43 NS115425
6 · The paper itself

Abstract

Spinal muscular atrophy is a severe autosomal recessive disease caused by disruptions in the SMN1 gene. The nearly identical SMN2 gene copy number is associated with disease severity. SMN1 duplication markers, such as c.∗3+80T>G and c.∗211_∗212del, can assess residual carrier risk. An SMN2 disease modifier (c.859G>C) can help inform prognostic outcomes. The emergence of multiple precision gene therapies for spinal muscular atrophy requires accurate and rapid detection of SMN1 and SMN2 copy numbers to enable early treatment and optimal patient outcomes. We developed and evaluated a single-tube PCR/capillary electrophoresis assay system that quantifies SMN1/2 copy numbers and genotypes three additional clinically relevant variants. Analytical validation was performed with human cell lines and whole blood representing varying SMN1/2 copies on four capillary electrophoresis instrument models. In addition, four independent laboratories used the assay to test 468 residual clinical genomic DNA samples. The results were ≥98.3% concordant with consensus SMN1/2 exon 7 copy numbers, determined using multiplex ligation-dependent probe amplification and droplet digital PCR, and were 100% concordant with Sanger sequencing for the three variants. Furthermore, copy number values were 98.6% (SMN1) and 97.1% (SMN2) concordant to each laboratory's own reference results.

Indexed as

DNA Copy Number VariationsGene DuplicationHumansMuscular Atrophy, SpinalReproducibility of ResultsSensitivity and SpecificitySurvival of Motor Neuron 1 ProteinSurvival of Motor Neuron 2 ProteinSMN1 protein, humanSMN2 protein, humanSurvival of Motor Neuron 1 ProteinSurvival of Motor Neuron 2 Protein

Identifiers

PMID33798739
PMCPMC8207472

What OpenQuestion holds

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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.