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Open AccessArticle

Validation of Ion TorrentTM Inherited Disease Panel with the PGMTM Sequencing Platform for Rapid and Comprehensive Mutation Detection

1
Behavioral Genetics Unit, Department of Genetics, King Faisal Specialist Hospital & Research Center, P.O. Box 3354, Riyadh 11211, Saudi Arabia
2
Department of Genetics, King Faisal Specialist Hospital & Research Centre. P.O. Box 3354, Riyadh 11211, Saudi Arabia
3
Department of Medical Genetics, King Faisal Specialist Hospital & Research Centre, P.O. Box 3354, Riyadh 11211, Saudi Arabia
4
Saudi Human Genome Program, King Abdulaziz City for Science & Technology, Riyadh, Saudi Arabia
*
Author to whom correspondence should be addressed.
Genes 2018, 9(5), 267; https://doi.org/10.3390/genes9050267
Received: 2 April 2018 / Revised: 14 May 2018 / Accepted: 18 May 2018 / Published: 22 May 2018
(This article belongs to the Special Issue Emerging Applications for Next Generation Sequencing)
Quick and accurate molecular testing is necessary for the better management of many inherited diseases. Recent technological advances in various next generation sequencing (NGS) platforms, such as target panel-based sequencing, has enabled comprehensive, quick, and precise interrogation of many genetic variations. As a result, these technologies have become a valuable tool for gene discovery and for clinical diagnostics. The AmpliSeq Inherited Disease Panel (IDP) consists of 328 genes underlying more than 700 inherited diseases. Here, we aimed to assess the performance of the IDP as a sensitive and rapid comprehensive gene panel testing. A total of 88 patients with inherited diseases and causal mutations that were previously identified by Sanger sequencing were randomly selected for assessing the performance of the IDP. The IDP successfully detected 93.1% of the mutations in our validation cohort, achieving high overall gene coverage (98%). The sensitivity for detecting single nucleotide variants (SNVs) and short Indels was 97.3% and 69.2%, respectively. IDP, when coupled with Ion Torrent Personal Genome Machine (PGM), delivers comprehensive and rapid sequencing for genes that are responsible for various inherited diseases. Our validation results suggest the suitability of this panel for use as a first-line screening test after applying the necessary clinical validation. View Full-Text
Keywords: inherited diseases; mutations; gene panel; targeted NGS; AmpliSeq Inherited Disease Panel; Saudi Human Genome Program database inherited diseases; mutations; gene panel; targeted NGS; AmpliSeq Inherited Disease Panel; Saudi Human Genome Program database
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Mustafa, A.E.; Faquih, T.; Baz, B.; Kattan, R.; Al-Issa, A.; Tahir, A.I.; Imtiaz, F.; Ramzan, K.; Al-Sayed, M.; Alowain, M.; Al-Hassnan, Z.; Al-Zaidan, H.; Abouelhoda, M.; Al-Mubarak, B.R.; Al Tassan, N.A. Validation of Ion TorrentTM Inherited Disease Panel with the PGMTM Sequencing Platform for Rapid and Comprehensive Mutation Detection. Genes 2018, 9, 267.

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