Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer

Ya-Fei Qin,1,2 Guang-Ming Li,1,2 Grace Wang,3 De-Jun Kong,1,2 Hong-Da Wang,1,2 Yi-Ming Zhao,1,2 Jing-Peng Hao,4 Hong Qin,1,2 Da-Qing Sun,5 Hao Wang1,2 1Department of General Surgery, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China; 2Tianjin General Surgery Institute,...

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Autores principales:	Qin YF, Li GM, Wang G, Kong DJ, Wang HD, Zhao YM, Hao JP, Qin H, Sun DQ, Wang H
Formato:	article
Lenguaje:	EN
Publicado:	Dove Medical Press 2021
Materias:	circrnas colorectal cancer cernas timp1 bioinformatic analysis Therapeutics. Pharmacology RM1-950
Acceso en línea:	https://doaj.org/article/6a2b4754941c47399d1befe53c0958b8
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spelling	oai:doaj.org-article:6a2b4754941c47399d1befe53c0958b82021-12-02T16:18:04ZIdentification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer1178-203Xhttps://doaj.org/article/6a2b4754941c47399d1befe53c0958b82021-08-01T00:00:00Zhttps://www.dovepress.com/identification-of-hub-gene-timp1-and-relative-cernas-regulatory-networ-peer-reviewed-fulltext-article-TCRMhttps://doaj.org/toc/1178-203XYa-Fei Qin,1,2 Guang-Ming Li,1,2 Grace Wang,3 De-Jun Kong,1,2 Hong-Da Wang,1,2 Yi-Ming Zhao,1,2 Jing-Peng Hao,4 Hong Qin,1,2 Da-Qing Sun,5 Hao Wang1,2 1Department of General Surgery, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China; 2Tianjin General Surgery Institute, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China; 3Faculty of Medicine, University of Toronto, Toronto, Ontario, Canada; 4Department of Anorectal Surgery, The Second Hospital of Tianjin Medical University, Tianjin, People’s Republic of China; 5Department of Pediatric Surgery, Tianjin Medical University, Tianjin, People’s Republic of ChinaCorrespondence: Da-Qing Sun; Hao Wang Email sdqchris2019@tmu.edu.cn; hwangca272@hotmail.com; hwang1@tmu.edu.cnObjective: This study aimed to discover the ceRNAs network in the pathophysiological development of human colorectal cancer (CRC) and to screen biomarkers for target therapy and prognosis by using integrated bioinformatics analysis.Methods: Data on gene expressions of mRNAs, miRNAs, and circRNAs and clinical information were downloaded from The Cancer Genome Atlas and Gene Expression Omnibus databases, respectively. Differentially expressed mRNAs (DEmRNAs) were identified by using the DESeq2 package of R software. Functional enrichment analysis was conducted using the ClusterProfiler package of R software. The protein–protein interaction (PPI) network was shown by the STRING website. Survival analysis of hub genes was performed using the survival package in R software. Interactions among hub genes, differentially expressed miRNAs (DEmiRNAs), and differentially expressed circRNAs (DEcircRNAs) were used to construct the ceRNAs network.Results: A total of 412 DEmRNAs including 82 upregulated and 330 downregulated genes were screened out between 473 CRC and 41 normal samples. Two hundred and sixty DEcircRNAs including 253 upregulated and 7 downregulated genes were altered between 23 CRC and 23 normal samples. One hundred and ninety DEmiRNAs including 82 upregulated and 108 downregulated genes were obtained between 450 CRC and 8 normal samples. A ceRNAs and PPI network were successfully constructed, and TIMP1 associated with prognosis was employed.Conclusion: The present study identified a novel circRNAs-miRNAs-mRNA ceRNAs network, which implied that TIMP1 and related miRNAs, circRNAs were potential biomarkers underlying the development of CRC, providing new insights for survival predictions and therapeutic targets.Keywords: circRNAs, colorectal cancer, ceRNAs, TIMP1, bioinformatic analysisQin YFLi GMWang GKong DJWang HDZhao YMHao JPQin HSun DQWang HDove Medical Pressarticlecircrnascolorectal cancercernastimp1bioinformatic analysisTherapeutics. PharmacologyRM1-950ENTherapeutics and Clinical Risk Management, Vol Volume 17, Pp 889-901 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	circrnas colorectal cancer cernas timp1 bioinformatic analysis Therapeutics. Pharmacology RM1-950
spellingShingle	circrnas colorectal cancer cernas timp1 bioinformatic analysis Therapeutics. Pharmacology RM1-950 Qin YF Li GM Wang G Kong DJ Wang HD Zhao YM Hao JP Qin H Sun DQ Wang H Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
description	Ya-Fei Qin,1,2 Guang-Ming Li,1,2 Grace Wang,3 De-Jun Kong,1,2 Hong-Da Wang,1,2 Yi-Ming Zhao,1,2 Jing-Peng Hao,4 Hong Qin,1,2 Da-Qing Sun,5 Hao Wang1,2 1Department of General Surgery, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China; 2Tianjin General Surgery Institute, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China; 3Faculty of Medicine, University of Toronto, Toronto, Ontario, Canada; 4Department of Anorectal Surgery, The Second Hospital of Tianjin Medical University, Tianjin, People’s Republic of China; 5Department of Pediatric Surgery, Tianjin Medical University, Tianjin, People’s Republic of ChinaCorrespondence: Da-Qing Sun; Hao Wang Email sdqchris2019@tmu.edu.cn; hwangca272@hotmail.com; hwang1@tmu.edu.cnObjective: This study aimed to discover the ceRNAs network in the pathophysiological development of human colorectal cancer (CRC) and to screen biomarkers for target therapy and prognosis by using integrated bioinformatics analysis.Methods: Data on gene expressions of mRNAs, miRNAs, and circRNAs and clinical information were downloaded from The Cancer Genome Atlas and Gene Expression Omnibus databases, respectively. Differentially expressed mRNAs (DEmRNAs) were identified by using the DESeq2 package of R software. Functional enrichment analysis was conducted using the ClusterProfiler package of R software. The protein–protein interaction (PPI) network was shown by the STRING website. Survival analysis of hub genes was performed using the survival package in R software. Interactions among hub genes, differentially expressed miRNAs (DEmiRNAs), and differentially expressed circRNAs (DEcircRNAs) were used to construct the ceRNAs network.Results: A total of 412 DEmRNAs including 82 upregulated and 330 downregulated genes were screened out between 473 CRC and 41 normal samples. Two hundred and sixty DEcircRNAs including 253 upregulated and 7 downregulated genes were altered between 23 CRC and 23 normal samples. One hundred and ninety DEmiRNAs including 82 upregulated and 108 downregulated genes were obtained between 450 CRC and 8 normal samples. A ceRNAs and PPI network were successfully constructed, and TIMP1 associated with prognosis was employed.Conclusion: The present study identified a novel circRNAs-miRNAs-mRNA ceRNAs network, which implied that TIMP1 and related miRNAs, circRNAs were potential biomarkers underlying the development of CRC, providing new insights for survival predictions and therapeutic targets.Keywords: circRNAs, colorectal cancer, ceRNAs, TIMP1, bioinformatic analysis
format	article
author	Qin YF Li GM Wang G Kong DJ Wang HD Zhao YM Hao JP Qin H Sun DQ Wang H
author_facet	Qin YF Li GM Wang G Kong DJ Wang HD Zhao YM Hao JP Qin H Sun DQ Wang H
author_sort	Qin YF
title	Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
title_short	Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
title_full	Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
title_fullStr	Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
title_full_unstemmed	Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer
title_sort	identification of hub gene timp1 and relative cernas regulatory network in colorectal cancer
publisher	Dove Medical Press
publishDate	2021
url	https://doaj.org/article/6a2b4754941c47399d1befe53c0958b8
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_version_	1718384173105807360

Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer

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