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Interdisciplinary CompetenceMolecular Diagnostics
Know how in the analysis of genetic material.
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IllnessSpinal muscular atrophy, type 0, I, II, III, IV; differential diagnosis

Summary

Short information

Comprehensive differential diagnostic panel for Spinal muscular atrophy Typ 0-IV comprising 2 guideline-curated genes and altogether 42 curated genes

ID
SP6754
Number of genes
42 Accredited laboratory test
Examined sequence length
1,8 kb (Core-/Core-canditate-Genes)
100,9 kb (Extended panel: incl. additional genes)
Analysis Duration
on request
Test material
  • EDTA-anticoagulated blood (3-5 ml)
Diagnostic indications

Step 1: CNV analysis

DNA sequence analysis upon special request

NGS +

[Sanger]

 

Gene panel

Selected genes

NameExon Length (bp)OMIM-GReferenz-Seq.Heredity
SMN1885NM_000344.4AR
SMN2885NM_017411.4Mod
AR2763NM_000044.6XLR
ASAH11188NM_177924.5AR
ASCC11074NM_001198800.3AR
ATP7A4503NM_000052.7XLR
BICD22568NM_001003800.2AD
BSCL21197NM_032667.6AD
CHAT2247NM_020549.5AR
CHCHD10429NM_213720.3AD
CHRNE1482NM_000080.4AD, AR
COLQ1368NM_005677.4AR
DCTN13837NM_004082.5AD
DMD11058NM_004006.3XLR
DMPK1920NM_001081563.2AD
DNAJB2834NM_001039550.2AR
DOK71515NM_173660.5AR
DYNC1H113941NM_001376.5AD
EXOSC3828NM_016042.4AR
EXOSC8831NM_181503.3AR
FBXO382832NM_001271723.2AD
GAA2859NM_000152.5AR
GARS12220NM_002047.4AD
GFPT12046NM_001244710.2AR
HEXA1590NM_000520.6AR
HSPB1618NM_001540.5AD
HSPB8591NM_014365.3AD
IGHMBP22982NM_002180.3AR
PLEKHG53189NM_020631.6AR
RAPSN1239NM_005055.5AR
REEP1606NM_022912.3AR
SETX8034NM_015046.7AR
SLC52A21338NM_024531.5AR
SLC52A31410NM_033409.4AR
SLC5A71743NM_021815.5AR, AD
SYT21260NM_177402.5AD, AR
TRIP41759NM_016213.5AR
TRPV42616NM_021625.5AD
UBA13177NM_003334.4XL
VAPB732NM_004738.5AD
VRK11191NM_003384.3AR
WARS11451AD

Informations about the disease

Clinical Comment

Spinal muscular atrophy (SMA) is one of the most common autosomal recessive hereditary disorders in Europe with a statistical recurrence risk of 25%. SMA may be associated with early childhood death. The frequency of heterozygous carriers is reported to be 1/40 for the German population and ~1/50 worldwide (1,2). In the vast majority of affected children, loss of both SMN1 gene copies is the cause of disease. The parents then usually carry a deleted SMN1 gene copy on only one allele (obligatory heterozygosity). According to current knowledge, the different courses of SMA or the different ages of manifestation are significantly influenced by the number of copies of the chromosomally adjacent and nearly identical SMN2 gene present, with a broad spectrum of disease in addition to exceptions. Therefore, a phenotypic characterization also with regard to the now basic treatability and prognosis into "non-sitter", "sitter" and "walker" has been established, which also includes the aspect of a multisystem disease and the interdisciplinary therapeutic management (3, 4).

In the absence of functional SMN1 copies, the number of SMN2 copies mostly correlates with the severity of the disease pattern; patients with milder SMA phenotype have in respective studies more SMN2 copies than patients with severe SMA phenotype. Yet reliable prediction of the phenotype cannot be made, though being important for SMN2 copy number-dependent therapies (5).

SMA is, in principle, treatable. Antisense oligonucleotide, gene replacement and/or "SMA small molecule" therapies and their combination are available in appropriate neuromuscular centers with expertise in SMA treatment. Newborn screening with the possibility of very early presymptomatic causal therapy initiation has been introduced in Germany since October 1, 2021.

In Germany, in addition to prenatal diagnosis, newborn screening and early causal therapy with improved outcome, the option of preimplantation genetic diagnosis is also available as part of a human genetic counseling and multidisciplinary treatment concept for couples with an already affected child. Currently, rare point mutations in the SMN1 gene (~4% of cases) cannot be detected in newborn screening.

References

(1) doi: 10.3233/JND-190428

(2) doi: 10.1146/annurev-genom-102319-103602

(3) doi: 10.1016/j.nmd.2017.11.005

(4) doi: 10.1016/j.nmd.2017.11.004

(5) http://www.ncbi.nlm.nih.gov/books/NBK1352/

Translated with www.DeepL.com/Translator (free version)

 

Synonyms
  • Alias: Infantile spinal muscular atrophy
  • Alias: Proximal spinal muscular atrophy type 0, 1-4
  • Alias: Spinal muscular atrophy-0, -1-4 [SMA]
  • Alias: Werdnig-Hoffmann disease
  • Allelic: Amyotrophic lateral sclerosis 8 (VAPB)
  • Allelic: Amyotrophic lateral sclerosis, susceptibility to (DCTN1)
  • Allelic: Androgen insensitivity (AR)
  • Allelic: Androgen insensitivity, partial, with/-out breast cancer (AR)
  • Allelic: Avascular necrosis of femoral head, primary, 2 (TRPV4)
  • Allelic: Barrett esophagus/esophageal adenocarcinoma (ASCC1)
  • Allelic: Brachyolmia type 3 (TRPV4)
  • Allelic: Cardiomyopathy, dilated, 3B (DMD)
  • Allelic: Charcot-Marie-Tooth disease, RI C (PLEKHG5)
  • Allelic: Charcot-Marie-Tooth disease, axonal, type 20 (DYNC1H1)
  • Allelic: Charcot-Marie-Tooth disease, axonal, type 2S (IGHMBP2)
  • Allelic: Digital arthropathy-brachydactyly, familial (TRPV4)
  • Allelic: Encephalopathy, progressive, +/- lipodystrophy (BSCL2)
  • Allelic: Farber lipogranulomatosis (ASAH1)
  • Allelic: Fetal akinesia deformation sequence 2 (RAPSN)
  • Allelic: Fetal akinesia deformation sequence 3 (DOK7)
  • Allelic: Frontotemporal dementia and/or amyotrophic lateral sclerosis 2 (CHCHD10)
  • Allelic: Hereditary motor + sensory neuropathy, type IIc (TRPV4)
  • Allelic: Hex A pseudodeficiency (HEXA)
  • Allelic: Hypospadias 1, XL (AR)
  • Allelic: Lipodystrophy, congenital generalized, type 2 (BSCL2)
  • Allelic: Menkes disease (ATP7A)
  • Allelic: Mental retardation, AD 13 (DYNC1H1)
  • Allelic: Metatropic dysplasia (TRPV4)
  • Allelic: Occipital horn syndrome (ATP7A)
  • Allelic: Parastremmatic dwarfism (TRPV4)
  • Allelic: Prostate cancer, susceptibility to (AR)
  • Allelic: Scapuloperoneal spinal muscular atrophy (TRPV4)
  • Allelic: Sodium serum level QTL 1 (TRPV4)
  • Allelic: Spondyloepiphyseal dysplasia, Maroteaux type (TRPV4)
  • Allelic: Spondylometaphyseal dysplasia, Kozlowski type (TRPV4)
  • Amyotrophic lateral sclerosis 4, juvenile (SETX)
  • Becker muscular dystrophy (DMD)
  • Brown-Vialetto-Van Laere syndrome 2 (SLC52A2)
  • Charcot-Marie-Tooth disease, axonal, type 2F (HSPB1)
  • Charcot-Marie-Tooth disease, axonal, type 2L (HSPB8)
  • Charcot-Marie-Tooth disease, type 2D (GARS1)
  • Duchenne muscular dystrophy (DMD)
  • GM2-gangliosidosis, several forms (HEXA)
  • Glycogen storage disease II (GAA)
  • Muscular dystrophy, congenital, Davignon-Chauveau type (TRIP4)
  • Myasthenia, congenital, 12, with tubular aggregates (GFPT1)
  • Myasthenic syndrome, congenital, 10 (DOK7)
  • Myasthenic syndrome, congenital, 11, associated with acetylcholine receptor deficiency (RAPSN)
  • Myasthenic syndrome, congenital, 20, presynaptic (SLC5A7)
  • Myasthenic syndrome, congenital, 4A, slow-channel + 4B, fast-channel (CHRNE)
  • Myasthenic syndrome, congenital, 4C, associated with acetylcholine receptor deficiency (CHRNE)
  • Myasthenic syndrome, congenital, 5 (COLQ)
  • Myasthenic syndrome, congenital, 6, presynaptic (CHAT)
  • Myasthenic syndrome, congenital, 7A, presynaptic, distal motor neuropathy, AD (SYT2)
  • Myasthenic syndrome, congenital, 7B, presynaptic, AR (SYT2)
  • Myopathy, isolated mitochondrial, AD (CHCHD10)
  • Myotonic dystrophy 1 (DMPK_CTG)
  • Neuronopathy, distal hereditary motor [MONDO:0000075] (EXOSC8)
  • Neuronopathy, distal hereditary motor, type II (HSPB1)
  • Neuronopathy, distal hereditary motor, type IIA (HSPB8)
  • Neuronopathy, distal hereditary motor, type IID (FBXO38)
  • Neuronopathy, distal hereditary motor, type IX (WARS1)
  • Neuronopathy, distal hereditary motor, type VA (GARS1)
  • Neuronopathy, distal hereditary motor, type VB (REEP1)
  • Neuronopathy, distal hereditary motor, type VI (IGHMBP2)
  • Neuronopathy, distal hereditary motor, type VIIA (SLC5A7)
  • Neuronopathy, distal hereditary motor, type VIIB (DCTN1)
  • Neuronopathy, distal hereditary motor, type VIII (TRPV)
  • Neuropathy, distal hereditary motor, type VC (BSCL2)
  • Perry syndrome (DCTN1)
  • Pontocerebellar hypoplasia type 1A (VRK1)
  • Pontocerebellar hypoplasia, type 1B (EXOSC3)
  • Pontocerebellar hypoplasia, type 1C (EXOSC8)
  • Silver spastic paraplegia syndrome (BSCL2)
  • Spastic paraplegia 31, AD (REEP1)
  • Spinal + bulbar muscular atrophy of Kennedy (AR_CAG)
  • Spinal muscular atrophy with congenital bone fractures 1 (TRIP4)
  • Spinal muscular atrophy with congenital bone fractures 2 (ASCC1)
  • Spinal muscular atrophy with progressive myoclonic epilepsy (ASAH1)
  • Spinal muscular atrophy, Jokela type (CHCHD10)
  • Spinal muscular atrophy, XL 2, infantile (UBA1)
  • Spinal muscular atrophy, distal, AR, 4 (PLEKHG5)
  • Spinal muscular atrophy, distal, AR, 5 (DNAJB2)
  • Spinal muscular atrophy, distal, XL 3 (ATP7A)
  • Spinal muscular atrophy, infantile, James type (GARS1)
  • Spinal muscular atrophy, late-onset, Finkel type (VAPB)
  • Spinal muscular atrophy, lower extremity-predominant 1, AD (DYNC1H1)
  • Spinal muscular atrophy, lower extremity-predominant, 2A + 2B, AD (BICD2)
  • Spinal muscular atrophy, type 0 [prenatal] (SMN1)
  • Spinal muscular atrophy, type III, modifier of (SMN2)
  • Spinocerebellar ataxia, autosomal recessive, with axonal neuropathy 2 (SETX)
  • Tay-Sachs disease (HEXA)
Heredity, heredity patterns etc.
  • AD
  • AR
  • Mod
  • XL
  • XLR
OMIM-Ps
  • Multiple OMIM-Ps
ICD10 Code

Bioinformatics and clinical interpretation

Test-Stärken

  • DAkkS-akkreditiertes Labor
  • EU-Richtlinie für IVD in Umsetzung
  • Qualitäts-kontrolliert arbeitendes Personal
  • Leistungsstarke Sequenzierungstechnologien, fortschrittliche Target-Anreicherungsmethoden und Präzisions-Bioinformatik-Pipelines sorgen für überragende analytische Leistung
  • Sorgfältige Kuratierung klinisch relevanter und wissenschaftlich begründeter Gen-Panels
  • eine Vielzahl nicht Protein-kodierender Varianten, die in unseren klinischen NGS-Tests mit erfasst werden
  • unser strenges Variantenklassifizierungsschema nach ACMG-Kriterien
  • unser systematischer klinischer Interpretations-Workflow mit proprietärer Software ermöglicht die genaue und nachvollziehbare Verarbeitung von NGS-Daten
  • unsere umfassenden klinischen Aussagen

Testeinschränkungen

  • Gene mit eingeschränkter Abdeckung werden gekennzeichnet
  • Gene mit kompletten oder partiellen Duplikationen werden gekennzeichnet
  • es wird angenommen, dass ein Gen suboptimal abgedeckt ist, wenn >90% der Nukleotide des Gens bei einem Mapping-Qualitätsfaktor von >20 (MQ>20) nicht abgedeckt sind
  • die Sensitivität der Diagnostik zur Erkennung von Varianten mit genannten Testeinschränkungen ist möglicherweise begrenzt bei:
  • Gen-Konversionen
  • komplexe Inversionen
  • Balancierte Translokationen
  • Mitochondriale Varianten
  • Repeat-Expansionen, sofern nicht anders dokumentiert
  • nicht kodierende Varianten, die Krankheiten verursachen, die von diesem Panel nicht mit abgedeckt werden
  • niedriger Mosaik-Status
  • Repeat-Blöcke von Mononukleotiden
  • Indels >50bp (Insertionen-Deletionen)
  • Deletionen oder Duplikationen einzelner Exons
  • Varianten innerhalb von Pseudogenen
  • die analytische Sensitivität kann geringer ausfallen werden, wenn die DNA nicht von amedes genetics extrahiert wurde

Laboratory requirement

  • Die in grün gezeigten Gene sind kuratiert und werden als Gen-Panel untersucht. Eine Erweiterung des Panels (blau gezeigte Gene, jeweils ebenfalls kuratiert) kann auf Anfrage erfolgen. Sofern unter "Erweitertes Panel" ein Minuszeichen angezeigt wird, sind nur Core-/Basis-Gene verfügbar.

  • Für die Anforderung einer genetischen Untersuchung senden Sie uns bitte die Krankheits-ID auf einem Überweisungsschein. Bitte die Material-Angabe beachten.

  • Für privat versicherte Patienten empfehlen wir einen Antrag auf Kostenübernahme bei der Krankenversicherung.

  • Die Untersuchung wird auch für Selbstzahler angeboten.