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Bhak, Jong
KOrean GenomIcs Center(KOGIC)
Research Interests
  • Geromics, genomics, bioinformatics, protein Engineering, OMICS

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The feasibility study of non-invasive fetal trisomy 18 and 21 detection with semiconductor sequencing platform

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Title
The feasibility study of non-invasive fetal trisomy 18 and 21 detection with semiconductor sequencing platform
Author
Jeon, Young JooZhou, Yulin ZhouLi, YihanGuo, QiweiChen, JinchunQuan, ShengmaoZhang, AhongZheng, HailingZhu, XingqiangLin, JinXu, HuanWu, AyangPark, Sin-GiKim, Byung ChulJoo, Hee JaeChen, HongliangBhak, Jong Hwa
Issue Date
2014-10
Publisher
PUBLIC LIBRARY SCIENCE
Citation
PLOS ONE, v.9, no.10, pp.1 - 5
Abstract
Objective: Recent non-invasive prenatal testing (NIPT) technologies are based on next-generation sequencing (NGS). NGS allows rapid and effective clinical diagnoses to be determined with two common sequencing systems: Illumina and Ion Torrent platforms. The majority of NIPT technology is associated with Illumina platform. We investigated whether fetal trisomy 18 and 21 were sensitively and specifically detectable by semiconductor sequencer: Ion Proton. Methods: From March 2012 to October 2013, we enrolled 155 pregnant women with fetuses who were diagnosed as high risk of fetal defects at Xiamen Maternal & Child Health Care Hospital (Xiamen, Fujian, China). Adapter-ligated DNA libraries were analyzed by the Ion Proton™ System (Life Technologies, Grand Island, NY, USA) with an average 0.3 × sequencing coverage per nucleotide. Average total raw reads per sample was 6.5 million and mean rate of uniquely mapped reads was 59.0%. The results of this study were derived from BWA mapping. Z-score was used for fetal trisomy 18 and 21 detection. Results: Interactive dot diagrams showed the minimal z-score values to discriminate negative versus positive cases of fetal trisomy 18 and 21. For fetal trisomy 18, the minimal z-score value of 2.459 showed 100% positive predictive and negative predictive values. The minimal z-score of 2.566 was used to classify negative versus positive cases of fetal trisomy 21. Conclusion: These results provide the evidence that fetal trisomy 18 and 21 detection can be performed with semiconductor sequencer. Our data also suggest that a prospective study should be performed with a larger cohort of clinically diverse obstetrics patients.
URI
https://scholarworks.unist.ac.kr/handle/201301/8583
URL
http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=84908178938
DOI
10.1371/journal.pone.0110240
ISSN
1932-6203
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BME_Journal Papers
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