Chromosomal Microarray (CMA)

Chromosomal microarray analyses the whole genome at high resolution to detect copy number variants (CNVs), which are deletions or duplications of chromosomal material too small to be seen on a karyotype.

A SNP-based array also detects regions of absence of heterozygosity (AOH), which may indicate uniparental disomy or parental relatedness.

Chromosomal Microarray (CMA)
Sample Blood (EDTA), amniotic fluid, chorionic villi, products of conception or extracted DNA
Turnaround Prenatal 7 to 10 working days; postnatal 10 to 14 working days
Method High-density SNP microarray
Clinical Area Rare and Inherited Disorders; Reproductive and Prenatal Genetics
Clinical Indications Method and Coverage Sample & Preparation Documents & Timing Limitations Results & Counselling Charges & Downloads

Clinical Indications

Diagnostic test in pregnancy. On fetal cells obtained by chorionic villus sampling or amniocentesis, this is a diagnostic test rather than a screening test.

Prenatal

  • One or more structural anomalies on fetal ultrasound
  • Increased nuchal translucency of 3.5 mm or more
  • Follow-up of an unexplained abnormal NIPT result
  • Products of conception and stillbirth

Postnatal

  • Developmental delay or intellectual disability
  • Autism spectrum disorder
  • Multiple congenital anomalies
  • Dysmorphic features

Professional guidelines recommend chromosomal microarray as the first-tier test for these postnatal indications and for pregnancies with fetal structural anomalies. In pregnancies with fetal structural anomalies and a normal karyotype, it identifies a clinically significant change in about 6% of cases. In children with developmental delay or congenital anomalies, it gives a diagnosis in about 15 to 20% of cases, compared with about 3% for karyotyping.

Method & Coverage

Abnormalities Detected

  • Submicroscopic deletions and duplications across the genome
  • Known microdeletion and microduplication syndromes
  • Unbalanced chromosomal rearrangements
  • Aneuploidies and triploidy
  • Absence of heterozygosity, including uniparental disomy of imprinted chromosomes
  • Mosaicism above approximately 20%

Method

DNA is extracted, labelled and hybridised to a high-density SNP microarray. Copy number and genotype data are analysed across the genome. Copy number variants are classified using the ACMG and ClinGen technical standards as pathogenic, likely pathogenic, of uncertain significance, likely benign or benign.

Sample & Preparation

  • Peripheral blood: 2 to 3 mL in an EDTA tube.
  • Amniotic fluid: 10 to 15 mL in sterile containers.
  • Chorionic villi: 10 to 20 mg in sterile transport medium.
  • Products of conception: fresh tissue in sterile saline or transport medium.
  • Extracted DNA: at least 500 ng of good-quality DNA.
  • A maternal EDTA blood sample is required with prenatal samples to exclude maternal cell contamination.
  • Transport: room temperature, reaching the laboratory within 48 hours.
See also general sample requirements and reasons samples may be rejected

Documents & Timing

Documents

  • Label every sample with at least two patient identifiers, matching the requisition form.
  • Include the completed requisition form, clinical information and signed consent.
  • For prenatal samples, include gestational age, ultrasound findings and a maternal EDTA blood sample.

Turnaround Time

  • Prenatal samples: 7 to 10 working days.
  • Postnatal samples: 10 to 14 working days.

Limitations

  • Balanced rearrangements, such as translocations and inversions, are not detected.
  • Single-nucleotide variants, small insertions and deletions, and repeat expansions are not detected.
  • Low-level mosaicism below approximately 20% may not be detected.
  • Variants of uncertain significance may be identified. Parental testing may be needed to help interpret them.

Results & Counselling

How results are reported

Each report is prepared by a qualified scientist, reviewed independently and signed out by an authorised specialist. Reports state the test performed, the regions analysed, the result and its interpretation, recommendations for follow-up and the limitations of the test.

Report: A signed report is sent to the referring doctor.

Genetic Counselling

A genetic counsellor can explain what this test can and cannot show before it is done, and what the result means once it is available.

Charges & Downloads

Prices depend on the test and clinical situation. Ask our team for current price information.

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