We found a match
Your institution may have rights to this item. Sign in to continue.
- Title
Next Generation-Targeted Amplicon Sequencing (NG-TAS): an optimised protocol and computational pipeline for cost-effective profiling of circulating tumour DNA.
- Authors
Gao, Meiling; Callari, Maurizio; Sammut, Stephen-John; Grzelak, Marta; Chin, Suet-Feung; Beddowes, Emma; Caldas, Carlos; Biggs, Heather; Jones, Linda; Boumertit, Abdelhamid; Baird, Richard; Linn, Sabine C.; Cortes, Javier; Oliveira, Mafalda
- Abstract
Circulating tumour DNA (ctDNA) detection and monitoring have enormous potential clinical utility in oncology. We describe here a fast, flexible and cost-effective method to profile multiple genes simultaneously in low input cell-free DNA (cfDNA): Next Generation-Targeted Amplicon Sequencing (NG-TAS). We designed a panel of 377 amplicons spanning 20 cancer genes and tested the NG-TAS pipeline using cell-free DNA from two HapMap lymphoblastoid cell lines. NG-TAS consistently detected mutations in cfDNA when mutation allele fraction was > 1%. We applied NG-TAS to a clinical cohort of metastatic breast cancer patients, demonstrating its potential in monitoring the disease. The computational pipeline is available at https://github.com/cclab-brca/NGTAS_pipeline.
- Subjects
NUCLEOTIDE sequencing; CIRCULATING tumor DNA; CANCER genetics; DNA fingerprinting; COST effectiveness; GENETIC mutation; BREAST cancer patients
- Publication
Genome Medicine, 2019, Vol 11, Issue 1, pN.PAG
- ISSN
1756-994X
- Publication type
Article
- DOI
10.1186/s13073-018-0611-9