Gene expression profiling of papillary thyroid carcinomas in Korean patients by oligonucleotide microarrays.

Journal of the Korean Surgical Society
Ki-Wook ChungSun Wook Kim

Abstract

The incidence of papillary thyroid carcinomas (PTCs) is rapidly increasing in Korea. Analyzing the gene expression profiling (GEP) of PTCs will facilitate the advent of new methods in diagnosis, prognostication, and treatment. We performed this study to find the GEP of Korean PTCs. We performed oligonucleotide microarray analysis with 19 PTCs and 7 normal thyroid glands. Differentially expressed genes were selected using a t-test (|fold| >3) and adjusted Benjamini-Hochberg false discovery rate P-value < 0.01. Quantitative reverse transcription-polymerase chain reaction (QRT-PCR) was used to validate microarray data. A classification model was developed by support vector machine (SVM) algorithm to diagnose PTCs based on molecular signatures. We identified 79 differentially expressed genes (70 up-regulated and 9 down-regulated) according to the criteria. QRT-PCR for five genes (CDH3, NGEF, PROS1, TGFA, MET) was confirmatory of the microarray data. Hierarchical cluster analysis and a classification model by the SVM algorithm accurately differentiated PTCs from normal thyroid gland based on GEP. A disease classification model showed excellent accuracy in diagnosing PTCs, thus showing the possibility of molecular diagnosis in the fu...Continue Reading

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Citations

Mar 24, 2016·Journal of Radiation Research·Hyun Soon BangSeung Jin Choi
Jun 3, 2015·Cancer Cytopathology·Riccardo GianniniFulvio Basolo
Oct 30, 2016·Journal of Experimental & Clinical Cancer Research : CR·Qing-Xuan WangXiao-Hua Zhang
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Jan 18, 2018·Oncotarget·Xiliang WangLisha Mou
Feb 5, 2019·Experimental Biology and Medicine·Pei-Ling HsuShaw-Jenq Tsai
May 8, 2020·Computational and Mathematical Methods in Medicine·Yuansheng RaoJianhong Wang
Jul 7, 2017·Thyroid : Official Journal of the American Thyroid Association·Riccardo GianniniFulvio Basolo
Sep 21, 2017·Cellular and Molecular Life Sciences : CMLS·Kateřina VašíčkováPetr Vaňhara

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Methods Mentioned

BETA
biopsy
electrophoresis
Chip
PCR
nucleotide exchange
xenograft
nucleotide
GTPases

Software Mentioned

PANTHER
ArrayAssist
Illumina BeadStudio

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