Identification of key genes and miRNAs markers of papillary thyroid cancer

Abstract Objective: In this study, crucial genes and microRNAs (miRNAs) associated with the progression, staging, and prognosis of papillary thyroid cancer (PTC) were identified. Methods: Four PTC datasets, including our own mRNA-sequencing (mRNA-seq) dataset and three public datasets downloaded f...

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Autores principales:	Qiu,Jie, Zhang,Wenwei, Zang,Chuanshan, Liu,Xiaomin, Liu,Fuxue, Ge,Ruifeng, Sun,Yan, Xia,Qingsheng
Lenguaje:	English
Publicado:	Sociedad de Biología de Chile 2018
Materias:	Papillary thyroid cancer Gene miRNA Tumor stage Prognosis
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602018000100237
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spelling	oai:scielo:S0716-976020180001002372018-12-05Identification of key genes and miRNAs markers of papillary thyroid cancerQiu,JieZhang,WenweiZang,ChuanshanLiu,XiaominLiu,FuxueGe,RuifengSun,YanXia,Qingsheng Papillary thyroid cancer Gene miRNA Tumor stage Prognosis Abstract Objective: In this study, crucial genes and microRNAs (miRNAs) associated with the progression, staging, and prognosis of papillary thyroid cancer (PTC) were identified. Methods: Four PTC datasets, including our own mRNA-sequencing (mRNA-seq) dataset and three public datasets downloaded from Gene Expression Omnibus and The Cancer Genome Atlas, were used to analyze differentially expressed genes (DEGs) and miRNAs (DEMs) between PTC tumor tissues and paired normal tissues (control). Gene ontology (GO) terms and pathways associated with these DEGs were identified, and protein-protein interactions (PPIs) were analyzed. Additionally, an miRNA-mRNA regulatory network was constructed and the functions of DEMs were explored. Finally, miRNAs/mRNAs associated with tumor staging and prognosis were identified. The expression levels of several key genes and miRNAs were validated by qRT-PCR. Results: Numerous DEGs and DEMs were identified between tumor and control groups in four datasets. The DEGs were significantly enriched in cell adhesion and cancer-related GO terms and pathways. In the constructed PPI network, ITGA2, FN1, ICAM1, TIMP1 and CDH2 were hub proteins. In the miRNA-mRNA negative regulatory networks, miR-204-5p regulated the largest number of target genes, such as TNFRSF12A. miR-146b, miR-204, miR-7-2, and FN1 were associated with tumor stage in PTC, and TNFRSF12A and CLDN1 were related to prognosis. Conclusions: Our results suggested the important roles of ITGA2, FN1, ICAM1, TIMP1 and CDH2 in the progression of PTC. miR-204-5p, miR-7-2, and miR-146b are potential biomarkers for PTC staging and FN1, CLDN1, and TNFRSF12A may serve as markers of prognosis in PTC.info:eu-repo/semantics/openAccessSociedad de Biología de ChileBiological Research v.51 20182018-01-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602018000100237en10.1186/s40659-018-0188-1
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	Papillary thyroid cancer Gene miRNA Tumor stage Prognosis
spellingShingle	Papillary thyroid cancer Gene miRNA Tumor stage Prognosis Qiu,Jie Zhang,Wenwei Zang,Chuanshan Liu,Xiaomin Liu,Fuxue Ge,Ruifeng Sun,Yan Xia,Qingsheng Identification of key genes and miRNAs markers of papillary thyroid cancer
description	Abstract Objective: In this study, crucial genes and microRNAs (miRNAs) associated with the progression, staging, and prognosis of papillary thyroid cancer (PTC) were identified. Methods: Four PTC datasets, including our own mRNA-sequencing (mRNA-seq) dataset and three public datasets downloaded from Gene Expression Omnibus and The Cancer Genome Atlas, were used to analyze differentially expressed genes (DEGs) and miRNAs (DEMs) between PTC tumor tissues and paired normal tissues (control). Gene ontology (GO) terms and pathways associated with these DEGs were identified, and protein-protein interactions (PPIs) were analyzed. Additionally, an miRNA-mRNA regulatory network was constructed and the functions of DEMs were explored. Finally, miRNAs/mRNAs associated with tumor staging and prognosis were identified. The expression levels of several key genes and miRNAs were validated by qRT-PCR. Results: Numerous DEGs and DEMs were identified between tumor and control groups in four datasets. The DEGs were significantly enriched in cell adhesion and cancer-related GO terms and pathways. In the constructed PPI network, ITGA2, FN1, ICAM1, TIMP1 and CDH2 were hub proteins. In the miRNA-mRNA negative regulatory networks, miR-204-5p regulated the largest number of target genes, such as TNFRSF12A. miR-146b, miR-204, miR-7-2, and FN1 were associated with tumor stage in PTC, and TNFRSF12A and CLDN1 were related to prognosis. Conclusions: Our results suggested the important roles of ITGA2, FN1, ICAM1, TIMP1 and CDH2 in the progression of PTC. miR-204-5p, miR-7-2, and miR-146b are potential biomarkers for PTC staging and FN1, CLDN1, and TNFRSF12A may serve as markers of prognosis in PTC.
author	Qiu,Jie Zhang,Wenwei Zang,Chuanshan Liu,Xiaomin Liu,Fuxue Ge,Ruifeng Sun,Yan Xia,Qingsheng
author_facet	Qiu,Jie Zhang,Wenwei Zang,Chuanshan Liu,Xiaomin Liu,Fuxue Ge,Ruifeng Sun,Yan Xia,Qingsheng
author_sort	Qiu,Jie
title	Identification of key genes and miRNAs markers of papillary thyroid cancer
title_short	Identification of key genes and miRNAs markers of papillary thyroid cancer
title_full	Identification of key genes and miRNAs markers of papillary thyroid cancer
title_fullStr	Identification of key genes and miRNAs markers of papillary thyroid cancer
title_full_unstemmed	Identification of key genes and miRNAs markers of papillary thyroid cancer
title_sort	identification of key genes and mirnas markers of papillary thyroid cancer
publisher	Sociedad de Biología de Chile
publishDate	2018
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602018000100237
work_keys_str_mv	AT qiujie identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT zhangwenwei identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT zangchuanshan identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT liuxiaomin identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT liufuxue identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT geruifeng identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT sunyan identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer AT xiaqingsheng identificationofkeygenesandmirnasmarkersofpapillarythyroidcancer
_version_	1718441577449259008

Identification of key genes and miRNAs markers of papillary thyroid cancer

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