Inter-Laboratory Evaluation of a Next-Generation Sequencing Panel for Acute Myeloid Leukemia

Karl Haslam, Mark A Catherwood, Edwina Dobbin, Anne Sproul, Stephen E Langabeer, Ken I Mills

Research output: Contribution to journalArticlepeer-review

8 Citations (Scopus)
521 Downloads (Pure)

Abstract

INTRODUCTION: Acute myeloid leukemia (AML) is a heterogeneous clonal disorder often associated with dismal overall survival. The clinical diversity of AML is reflected in the range of recurrent somatic mutations in several genes, many of which have a prognostic and therapeutic value. Targeted next-generation sequencing (NGS) of these genes has the potential for translation into clinical practice. In order to assess this potential, an inter-laboratory evaluation of a commercially available AML gene panel across three diagnostic centres in the UK and Ireland was performed.

METHODS: DNA from six AML patient samples was distributed to each centre and processed using a standardised workflow, including a common sequencing platform, sequencing chips and bioinformatics pipeline. A duplicate sample in each centre was run to assess inter- and intra-laboratory performance.

RESULTS: An average sample read depth of 2725X (range 629-5600) was achieved using six samples per chip, with some variability observed in the depth of coverage generated for individual samples and between centres. A total of 16 somatic mutations were detected in the six AML samples, with a mean of 2.7 mutations per sample (range 1-4) representing nine genes on the panel. 15/16 mutations were identified by all three centres. Allelic frequencies of the mutations ranged from 5.6 to 53.3 % (median 44.4 %), with a high level of concordance of these frequencies between centres, for mutations detected.

CONCLUSION: In this inter-laboratory comparison, a high concordance, reproducibility and robustness was demonstrated using a commercially available NGS AML gene panel and platform.

Original languageEnglish
Pages (from-to)457-461
Number of pages5
JournalMolecular Diagnosis & Therapy
Volume20
Issue number5
Early online date24 Jun 2016
DOIs
Publication statusPublished - Oct 2016

Keywords

  • diagnosis
  • Leukemia, Myeloid, Acute
  • Next generation sequencing

ASJC Scopus subject areas

  • Cancer Research

Fingerprint Dive into the research topics of 'Inter-Laboratory Evaluation of a Next-Generation Sequencing Panel for Acute Myeloid Leukemia'. Together they form a unique fingerprint.

Cite this