Abstract
Next-generation sequencing technologies have been and continue to be deployed in clinical laboratories, enabling rapid transformations in genomic medicine. These technologies have reduced the cost of large-scale sequencing by several orders of magnitude, and continuous advances are being made. It is now feasible to analyze an individual's near-complete exome or genome to assist in the diagnosis of a wide array of clinical scenarios. Next-generation sequencing technologies are also facilitating further advances in therapeutic decision making and disease prediction for at-risk patients. However, with rapid advances come additional challenges involving the clinical validation and use of these constantly evolving technologies and platforms in clinical laboratories. To assist clinical laboratories with the validation of next-generation sequencing methods and platforms, the ongoing monitoring of next-generation sequencing testing to ensure quality results, and the interpretation and reporting of variants found using these technologies, the American College of Medical Genetics and Genomics has developed the following professional standards and guidelines.
MeSH Terms
Exome
Genetic Testing/standards
Genome, Human
Genomics/methods
High-Throughput Nucleotide Sequencing/standards
Humans
Laboratories/standards
Reproducibility of Results
Sequence Analysis, DNA/instrumentation,methods,standards
Translational Research, Biomedical
United States
Authors & Affiliations
11 authors, click to expand affiliations / ORCID
Rehm Heidi L
Laboratory for Molecular Medicine, Partners Healthcare Center for Personalized Genetic Medicine, Boston, Massachusetts, USA.
[email protected]
Bale Sherri J
Bayrak-Toydemir Pinar
Berg Jonathan S
Brown Kerry K
Deignan Joshua L
Friez Michael J
Funke Birgit H
Hegde Madhuri R
Lyon Elaine
Working Group of the American College of Medical Genetics and Genomics Laboratory Quality Assurance Commitee
References (18)
18 references, click to expand
-
ACMG recommendations for reporting of incidental findings in clinical exome and genome sequencing.
Genet Med. 2013 Jul;15(7):565-74
PMID: 23788249
-
A standardized framework for the validation and verification of clinical molecular genetic tests.
Eur J Hum Genet. 2010 Dec;18(12):1276-88
PMID: 20664632
-
A survey of sequence alignment algorithms for next-generation sequencing.
Brief Bioinform. 2010 Sep;11(5):473-83
PMID: 20460430
-
The diploid genome sequence of an individual human.
PLoS Biol. 2007 Sep 4;5(10):e254
PMID: 17803354
-
Good laboratory practices for molecular genetic testing for heritable diseases and conditions.
MMWR Recomm Rep. 2009 Jun 12;58(RR-6):1-37; quiz CE-1-4
PMID: 19521335
-
Field guide to next-generation DNA sequencers.
Mol Ecol Resour. 2011 Sep;11(5):759-69
PMID: 21592312
-
Target-enrichment strategies for next-generation sequencing.
Nat Methods. 2010 Feb;7(2):111-8
PMID: 20111037
-
Duty to re-contact.
Genet Med. 1999 May-Jun;1(4):171-2
PMID: 11258354
-
Assuring the quality of next-generation sequencing in clinical laboratory practice.
Nat Biotechnol. 2012 Nov;30(11):1033-6
PMID: 23138292
-
ACMG recommendations for standards for interpretation and reporting of sequence variations: Revisions 2007.
Genet Med. 2008 Apr;10(4):294-300
PMID: 18414213
-
Performance comparison of exome DNA sequencing technologies.
Nat Biotechnol. 2011 Sep 25;29(10):908-14
PMID: 21947028
-
Base-calling for next-generation sequencing platforms.
Brief Bioinform. 2011 Sep;12(5):489-97
PMID: 21245079
-
Recommended principles and practices for validating clinical molecular pathology tests.
Arch Pathol Lab Med. 2009 May;133(5):743-55
PMID: 19415949
-
Screening the human exome: a comparison of whole genome and whole transcriptome sequencing.
Genome Biol. 2010;11(5):R57
PMID: 20598109
-
Technical standards and guidelines: molecular genetic testing for ultra-rare disorders.
Genet Med. 2005 Oct;7(8):571-83
PMID: 16247296
-
What can exome sequencing do for you?
J Med Genet. 2011 Sep;48(9):580-9
PMID: 21730106
-
A framework for variation discovery and genotyping using next-generation DNA sequencing data.
Nat Genet. 2011 May;43(5):491-8
PMID: 21478889
-
Carrier testing for severe childhood recessive diseases by next-generation sequencing.
Sci Transl Med. 2011 Jan 12;3(65):65ra4
PMID: 21228398