Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma

Ping Ouyang; Wenyan Wu; Rang Li; Xuefeng Zhou; Tao Li

doi:doi:10.11648/j.ajim.20210901.16

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Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma

Ping Ouyang, Wenyan Wu, Rang Li, Xuefeng Zhou, Tao Li

Published in American Journal of Internal Medicine (Volume 9, Issue 1)

Received: 5 January 2021 Accepted: 22 January 2021 Published: 28 January 2021

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Abstract

Introduction: Nasopharyngeal carcinoma (NPC) is an endemic cancer in southern China, particularly in Guangdong population, but the prognosis of NPC is poor. Recently microRNA (miR) has been shown to have function in aiding the treatment of cancer. Thus, in this study, miRNAs and genes associated with NPC were analyzed. Methods: mRNA-sequencing and miR-sequencing data were obtained from the Gene Expression Omnibus. The differentially expressed genes (DEGs) and miRNAs (DEMs) were filter out. Then, the gene function annotations about the DEGs were predicted using Gene Ontology (GO) and KEGG pathway. Subsequently, the protein-protein interaction (PPI) network was established based on the STRING database, and function modules were identified using Cytoscape. Finally, DEGs targeted by DEMs were predicted by using the miRDB, miRTarBase, TargetScan and DIANA databases, and the DEM-DEG negative interaction network was built. Results: In all, 704 DEGs (about 49.9% upregulated) were enriched in 234 GO terms and 53 KEGG pathways. Seven hub genes (APP, GNG2, VAV1, RAC2, YES1, EGFR and GNB5) in 6 function modules were found for the PPI network. In addition, 86 DEMs were identified containing 56 upregulated and 30 downregulated miRNAs. There were 538 DEM-DEG pairs, of which miR-93-5p/TGFBR2, miR-455-3p/STK17B and miR-766-5p/ITGAV had functions in other cancers, moreover, these pairs may potentially contributed to NPC pathogenesis. Conclusion: The constructed miRNA-mRNA negetive regulatory network will give help in elucidating the molecular mechanisms of NPC. The important DEGs, DEMs and DEM-DEG pairs associated with NPC may contribute to the diagnosis and treatment of NPC in the future.

Published in	American Journal of Internal Medicine (Volume 9, Issue 1)
DOI	10.11648/j.ajim.20210901.16
Page(s)	36-48
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2021. Published by Science Publishing Group

Keywords

Nasopharyngeal Carcinoma (NPC), Differentially Expressed Genes (DEGs), Differentially Expressed microRNAs (DEMs), miRNA-mRNA Regulatory Network

References

[1]	M. L. K. Chua, J. T. S. Wee, E. P. Hui, A. T. C. Chan, Nasopharyngeal carcinoma, Lancet 387 (10022) (2016) 1012-1024.
[2]	Y. P. Chen, A. T. C. Chan, Q. T. Le, P. Blanchard, Y. Sun, J. Ma, Nasopharyngeal carcinoma, Lancet 394 (10192) (2019) 64-80.
[3]	H. M. Lee, K. S. Okuda, F. E. Gonzalez, V. Patel, Current Perspectives on Nasopharyngeal Carcinoma, Adv Exp Med Biol 1164 (2019) 11-34.
[4]	W. Dai, H. Zheng, A. K. Cheung, M. L. Lung, Genetic and epigenetic landscape of nasopharyngeal carcinoma, Chin Clin Oncol 5 (2) (2016) 16.
[5]	P. Paul, H. Deka, A. K. Malakar, B. Halder, S. Chakraborty, Nasopharyngeal carcinoma: understanding its molecular biology at a fine scale, Eur J Cancer Prev 27 (1) (2018) 33-41.
[6]	H. Nakagawa, M. Fujita, Whole genome sequencing analysis for cancer genomics and precision medicine, Cancer science 109 (3) (2018) 513-522.
[7]	R. Rupaimoole, F. J. Slack, MicroRNA therapeutics: towards a new era for the management of cancer and other diseases, Nature reviews. Drug discovery 16 (3) (2017) 203-222.
[8]	Y. S. Lee, A. Dutta, MicroRNAs in cancer, Annual review of pathology 4 (2009) 199-227.
[9]	H. Yang, Y. N. Wei, J. Zhou, T. T. Hao, X. L. Liu, MiR-455-3p acts as a prognostic marker and inhibits the proliferation and invasion of esophageal squamous cell carcinoma by targeting FAM83F, Eur Rev Med Pharmacol Sci 21 (14) (2017) 3200-3206.
[10]	G. Chen, T. Shi, L. Shi, Characterizing and annotating the genome using RNA-seq data, Sci China Life Sci 60 (2) (2017) 116-125.
[11]	Y. Ge, Z. He, Y. Xiang, D. Wang, Y. Yang, J. Qiu, Y. Zhou, The identification of key genes in nasopharyngeal carcinoma by bioinformatics analysis of high-throughput data, Mol Biol Rep 46 (3) (2019) 2829-2840.
[12]	H. M. Zhu, Q. Fei, L. X. Qian, B. L. Liu, X. He, L. Yin, Identification of key pathways and genes in nasopharyngeal carcinoma using bioinformatics analysis, Oncol Lett 17 (5) (2019) 4683-4694.
[13]	M. Liu, K. Zhu, X. Qian, W. Li, Identification of miRNA/mRNA-Negative Regulation Pairs in Nasopharyngeal Carcinoma, Medical science monitor: international medical journal of experimental and clinical research 22 (2016) 2215-34.
[14]	G. Dennis, Jr., B. T. Sherman, D. A. Hosack, J. Yang, W. Gao, H. C. Lane, R. A. Lempicki, DAVID: Database for Annotation, Visualization, and Integrated Discovery, Genome biology 4 (5) (2003) P3.
[15]	D. Szklarczyk, J. H. Morris, H. Cook, M. Kuhn, S. Wyder, M. Simonovic, A. Santos, N. T. Doncheva, A. Roth, P. Bork, L. J. Jensen, C. von Mering, The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible, Nucleic acids research 45 (D1) (2017) D362-D368.
[16]	P. Zhang, S. K. Wu, Y. Wang, Z. X. Fan, C. R. Li, M. Feng, P. Xu, W. D. Wang, J. Y. Lang, p53, MDM2, eIF4E and EGFR expression in nasopharyngeal carcinoma and their correlation with clinicopathological characteristics and prognosis: A retrospective study, Oncol Lett 9 (1) (2015) 113-118.
[17]	X. J. Cao, J. F. Hao, X. H. Yang, P. Xie, L. P. Liu, C. P. Yao, J. Xu, Prognostic value of expression of EGFR and nm23 for locoregionally advanced nasopharyngeal carcinoma, Med Oncol 29 (1) (2012) 263-71.
[18]	J. Xu, Y. Ying, G. Xiong, L. Lai, Q. Wang, Y. Yang, Amyloid beta precursor protein silencing attenuates epithelialmesenchymal transition of nasopharyngeal carcinoma cells via inhibition of the MAPK pathway, Mol Med Rep 20 (1) (2019) 409-416.
[19]	C. E. Tang, Y. J. Guan, B. Yi, X. H. Li, K. Liang, H. Y. Zou, H. Yi, M. Y. Li, P. F. Zhang, C. Li, F. Peng, Z. C. Chen, K. T. Yao, Z. Q. Xiao, Identification of the amyloid beta-protein precursor and cystatin C as novel epidermal growth factor receptor regulated secretory proteins in nasopharyngeal carcinoma by proteomics, J Proteome Res 9 (12) (2010) 6101-11.
[20]	A. P. Hsu, A. Donkó, M. E. Arrington, M. Swamydas, D. Fink, A. Das, O. Escobedo, V. Bonagura, P. Szabolcs, H. N. Steinberg, J. Bergerson, A. Skoskiewicz, M. Makhija, J. Davis, L. Foruraghi, C. Palmer, R. L. Fuleihan, J. A. Church, A. Bhandoola, M. S. Lionakis, S. Campbell, T. L. Leto, D. B. Kuhns, S. M. Holland, Dominant activating RAC2 mutation with lymphopenia, immunodeficiency, and cytoskeletal defects, Blood 133 (18) (2019) 1977-1988.
[21]	Y. Liu, G. Cheng, Z. Song, T. Xu, H. Ruan, Q. Cao, K. Wang, L. Bao, J. Liu, L. Zhou, D. Liu, H. Yang, K. Chen, X. Zhang, RAC2 acts as a prognostic biomarker and promotes the progression of clear cell renal cell carcinoma, International journal of oncology 55 (3) (2019) 645-656.
[22]	I. Garmendia, M. J. Pajares, F. Hermida-Prado, D. Ajona, C. Bértolo, C. Sainz, A. Lavín, A. B. Remírez, K. Valencia, H. Moreno, I. Ferrer, C. Behrens, M. Cuadrado, L. Paz-Ares, X. R. Bustelo, I. Gil-Bazo, D. Alameda, F. Lecanda, A. Calvo, E. Felip, M. Sánchez-Céspedes, Wistuba, II, R. Granda-Diaz, J. P. Rodrigo, J. M. García-Pedrero, R. Pio, L. M. Montuenga, J. Agorreta, YES1 Drives Lung Cancer Growth and Progression and Predicts Sensitivity to Dasatinib, American journal of respiratory and critical care medicine 200 (7) (2019) 888-899.
[23]	X. Yue, J. Ai, Y. Xu, Y. Chen, M. Huang, X. Yang, B. Hu, H. Zhang, C. He, X. Yang, W. Tang, X. Peng, L. Dong, H. Wang, J. Fan, J. Ding, M. Geng, Polymeric immunoglobulin receptor promotes tumor growth in hepatocellular carcinoma, Hepatology (Baltimore, Md.) 65 (6) (2017) 1948-1962.
[24]	I. Yajima, M. Y. Kumasaka, Y. Naito, T. Yoshikawa, H. Takahashi, Y. Funasaka, T. Suzuki, M. Kato, Reduced GNG2 expression levels in mouse malignant melanomas and human melanoma cell lines, Am J Cancer Res 2 (3) (2012) 322-9.
[25]	J. F. Tang, Z. H. Yu, T. Liu, Z. Y. Lin, Y. H. Wang, L. W. Yang, H. J. He, J. Cao, H. L. Huang, G. Liu, Five miRNAs as novel diagnostic biomarker candidates for primary nasopharyngeal carcinoma, Asian Pac J Cancer Prev 15 (18) (2014) 7575-81.
[26]	X. M. Hu, X. H. Yan, Y. W. Hu, J. L. Huang, S. W. Cao, T. Y. Ren, Y. T. Tang, L. Lin, L. Zheng, Q. Wang, miRNA-548p suppresses hepatitis B virus X protein associated hepatocellular carcinoma by downregulating oncoprotein hepatitis B x-interacting protein, Hepatol Res 46 (8) (2016) 804-15.
[27]	Y. Liang, X. Song, Y. Li, P. Su, D. Han, T. Ma, R. Guo, B. Chen, W. Zhao, Y. Sang, N. Zhang, X. Li, H. Zhang, Y. Liu, Y. Duan, L. Wang, Q. Yang, circKDM4C suppresses tumor progression and attenuates doxorubicin resistance by regulating miR-548p/PBLD axis in breast cancer, Oncogene 38 (42) (2019) 6850-6866.
[28]	Y. Bai, G. Zhang, R. Cheng, R. Yang, H. Chu, CASC15 contributes to proliferation and invasion through regulating miR-766-5p/ KLK12 axis in lung cancer, Cell cycle (Georgetown, Tex.) 18 (18) (2019) 2323-2331.
[29]	B. Jia, L. Xia, F. Cao, The role of miR-766-5p in cell migration and invasion in colorectal cancer, Exp Ther Med 15 (3) (2018) 2569-2574.
[30]	X. Z. Dong, Z. R. Zhao, Y. Hu, Y. P. Lu, P. Liu, L. Zhang, LncRNA COL1A1-014 is involved in the progression of gastric cancer via regulating CXCL12-CXCR4 axis, Gastric Cancer 23 (2) (2020) 260-272.
[31]	Y. Guo, J. Zhai, J. Zhang, C. Ni, H. Zhou, Improved Radiotherapy Sensitivity of Nasopharyngeal Carcinoma Cells by miR-29-3p Targeting COL1A1 3'-UTR, Medical science monitor: international medical journal of experimental and clinical research 25 (2019) 3161-3169.
[32]	J. Luan, J. Wang, Q. Su, X. Chen, G. Jiang, X. Xu, Meta-analysis of the differentially expressed microRNA profiles in nasopharyngeal carcinoma, Oncotarget 7 (9) (2016) 10513-21.
[33]	L. Liu, N. Bi, L. Wu, X. Ding, Y. Men, W. Zhou, L. Li, W. Zhang, S. Shi, Y. Song, L. Wang, MicroRNA-29c functions as a tumor suppressor by targeting VEGFA in lung adenocarcinoma, Mol Cancer 16 (1) (2017) 50.

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APA Style

Ping Ouyang, Wenyan Wu, Rang Li, Xuefeng Zhou, Tao Li. (2021). Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. American Journal of Internal Medicine, 9(1), 36-48. https://doi.org/10.11648/j.ajim.20210901.16

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ACS Style

Ping Ouyang; Wenyan Wu; Rang Li; Xuefeng Zhou; Tao Li. Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. Am. J. Intern. Med. 2021, 9(1), 36-48. doi: 10.11648/j.ajim.20210901.16

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AMA Style

Ping Ouyang, Wenyan Wu, Rang Li, Xuefeng Zhou, Tao Li. Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. Am J Intern Med. 2021;9(1):36-48. doi: 10.11648/j.ajim.20210901.16

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@article{10.11648/j.ajim.20210901.16,
  author = {Ping Ouyang and Wenyan Wu and Rang Li and Xuefeng Zhou and Tao Li},
  title = {Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma},
  journal = {American Journal of Internal Medicine},
  volume = {9},
  number = {1},
  pages = {36-48},
  doi = {10.11648/j.ajim.20210901.16},
  url = {https://doi.org/10.11648/j.ajim.20210901.16},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ajim.20210901.16},
  abstract = {Introduction: Nasopharyngeal carcinoma (NPC) is an endemic cancer in southern China, particularly in Guangdong population, but the prognosis of NPC is poor. Recently microRNA (miR) has been shown to have function in aiding the treatment of cancer. Thus, in this study, miRNAs and genes associated with NPC were analyzed. Methods: mRNA-sequencing and miR-sequencing data were obtained from the Gene Expression Omnibus. The differentially expressed genes (DEGs) and miRNAs (DEMs) were filter out. Then, the gene function annotations about the DEGs were predicted using Gene Ontology (GO) and KEGG pathway. Subsequently, the protein-protein interaction (PPI) network was established based on the STRING database, and function modules were identified using Cytoscape. Finally, DEGs targeted by DEMs were predicted by using the miRDB, miRTarBase, TargetScan and DIANA databases, and the DEM-DEG negative interaction network was built. Results: In all, 704 DEGs (about 49.9% upregulated) were enriched in 234 GO terms and 53 KEGG pathways. Seven hub genes (APP, GNG2, VAV1, RAC2, YES1, EGFR and GNB5) in 6 function modules were found for the PPI network. In addition, 86 DEMs were identified containing 56 upregulated and 30 downregulated miRNAs. There were 538 DEM-DEG pairs, of which miR-93-5p/TGFBR2, miR-455-3p/STK17B and miR-766-5p/ITGAV had functions in other cancers, moreover, these pairs may potentially contributed to NPC pathogenesis. Conclusion: The constructed miRNA-mRNA negetive regulatory network will give help in elucidating the molecular mechanisms of NPC. The important DEGs, DEMs and DEM-DEG pairs associated with NPC may contribute to the diagnosis and treatment of NPC in the future.},
 year = {2021}
}

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TY  - JOUR
T1  - Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma
AU  - Ping Ouyang
AU  - Wenyan Wu
AU  - Rang Li
AU  - Xuefeng Zhou
AU  - Tao Li
Y1  - 2021/01/28
PY  - 2021
N1  - https://doi.org/10.11648/j.ajim.20210901.16
DO  - 10.11648/j.ajim.20210901.16
T2  - American Journal of Internal Medicine
JF  - American Journal of Internal Medicine
JO  - American Journal of Internal Medicine
SP  - 36
EP  - 48
PB  - Science Publishing Group
SN  - 2330-4324
UR  - https://doi.org/10.11648/j.ajim.20210901.16
AB  - Introduction: Nasopharyngeal carcinoma (NPC) is an endemic cancer in southern China, particularly in Guangdong population, but the prognosis of NPC is poor. Recently microRNA (miR) has been shown to have function in aiding the treatment of cancer. Thus, in this study, miRNAs and genes associated with NPC were analyzed. Methods: mRNA-sequencing and miR-sequencing data were obtained from the Gene Expression Omnibus. The differentially expressed genes (DEGs) and miRNAs (DEMs) were filter out. Then, the gene function annotations about the DEGs were predicted using Gene Ontology (GO) and KEGG pathway. Subsequently, the protein-protein interaction (PPI) network was established based on the STRING database, and function modules were identified using Cytoscape. Finally, DEGs targeted by DEMs were predicted by using the miRDB, miRTarBase, TargetScan and DIANA databases, and the DEM-DEG negative interaction network was built. Results: In all, 704 DEGs (about 49.9% upregulated) were enriched in 234 GO terms and 53 KEGG pathways. Seven hub genes (APP, GNG2, VAV1, RAC2, YES1, EGFR and GNB5) in 6 function modules were found for the PPI network. In addition, 86 DEMs were identified containing 56 upregulated and 30 downregulated miRNAs. There were 538 DEM-DEG pairs, of which miR-93-5p/TGFBR2, miR-455-3p/STK17B and miR-766-5p/ITGAV had functions in other cancers, moreover, these pairs may potentially contributed to NPC pathogenesis. Conclusion: The constructed miRNA-mRNA negetive regulatory network will give help in elucidating the molecular mechanisms of NPC. The important DEGs, DEMs and DEM-DEG pairs associated with NPC may contribute to the diagnosis and treatment of NPC in the future.
VL  - 9
IS  - 1
ER  -

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Author Information

Ping Ouyang

Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Guangdong Medical University, Dongguan, P. R. China
Wenyan Wu

Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Guangdong Medical University, Dongguan, P. R. China
Rang Li

Institute of Medical Systems Biology, School of Public Health, Guangdong Medical University, Dongguan, P. R. China
Xuefeng Zhou

Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Guangdong Medical University, Dongguan, P. R. China
Tao Li

Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Guangdong Medical University, Dongguan, P. R. China

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Plain Text BibTeX RIS

APA Style

Ping Ouyang, Wenyan Wu, Rang Li, Xuefeng Zhou, Tao Li. (2021). Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. American Journal of Internal Medicine, 9(1), 36-48. https://doi.org/10.11648/j.ajim.20210901.16

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ACS Style

Ping Ouyang; Wenyan Wu; Rang Li; Xuefeng Zhou; Tao Li. Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. Am. J. Intern. Med. 2021, 9(1), 36-48. doi: 10.11648/j.ajim.20210901.16

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AMA Style

Ping Ouyang, Wenyan Wu, Rang Li, Xuefeng Zhou, Tao Li. Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma. Am J Intern Med. 2021;9(1):36-48. doi: 10.11648/j.ajim.20210901.16

Copy | Download

@article{10.11648/j.ajim.20210901.16,
  author = {Ping Ouyang and Wenyan Wu and Rang Li and Xuefeng Zhou and Tao Li},
  title = {Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma},
  journal = {American Journal of Internal Medicine},
  volume = {9},
  number = {1},
  pages = {36-48},
  doi = {10.11648/j.ajim.20210901.16},
  url = {https://doi.org/10.11648/j.ajim.20210901.16},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ajim.20210901.16},
  abstract = {Introduction: Nasopharyngeal carcinoma (NPC) is an endemic cancer in southern China, particularly in Guangdong population, but the prognosis of NPC is poor. Recently microRNA (miR) has been shown to have function in aiding the treatment of cancer. Thus, in this study, miRNAs and genes associated with NPC were analyzed. Methods: mRNA-sequencing and miR-sequencing data were obtained from the Gene Expression Omnibus. The differentially expressed genes (DEGs) and miRNAs (DEMs) were filter out. Then, the gene function annotations about the DEGs were predicted using Gene Ontology (GO) and KEGG pathway. Subsequently, the protein-protein interaction (PPI) network was established based on the STRING database, and function modules were identified using Cytoscape. Finally, DEGs targeted by DEMs were predicted by using the miRDB, miRTarBase, TargetScan and DIANA databases, and the DEM-DEG negative interaction network was built. Results: In all, 704 DEGs (about 49.9% upregulated) were enriched in 234 GO terms and 53 KEGG pathways. Seven hub genes (APP, GNG2, VAV1, RAC2, YES1, EGFR and GNB5) in 6 function modules were found for the PPI network. In addition, 86 DEMs were identified containing 56 upregulated and 30 downregulated miRNAs. There were 538 DEM-DEG pairs, of which miR-93-5p/TGFBR2, miR-455-3p/STK17B and miR-766-5p/ITGAV had functions in other cancers, moreover, these pairs may potentially contributed to NPC pathogenesis. Conclusion: The constructed miRNA-mRNA negetive regulatory network will give help in elucidating the molecular mechanisms of NPC. The important DEGs, DEMs and DEM-DEG pairs associated with NPC may contribute to the diagnosis and treatment of NPC in the future.},
 year = {2021}
}

Copy | Download

TY  - JOUR
T1  - Analysis of the Differentially Expressed Genes and microRNAs and Prediction of miRNA-mRNA negative Regulatory Network in Nasopharyngeal Carcinoma
AU  - Ping Ouyang
AU  - Wenyan Wu
AU  - Rang Li
AU  - Xuefeng Zhou
AU  - Tao Li
Y1  - 2021/01/28
PY  - 2021
N1  - https://doi.org/10.11648/j.ajim.20210901.16
DO  - 10.11648/j.ajim.20210901.16
T2  - American Journal of Internal Medicine
JF  - American Journal of Internal Medicine
JO  - American Journal of Internal Medicine
SP  - 36
EP  - 48
PB  - Science Publishing Group
SN  - 2330-4324
UR  - https://doi.org/10.11648/j.ajim.20210901.16
AB  - Introduction: Nasopharyngeal carcinoma (NPC) is an endemic cancer in southern China, particularly in Guangdong population, but the prognosis of NPC is poor. Recently microRNA (miR) has been shown to have function in aiding the treatment of cancer. Thus, in this study, miRNAs and genes associated with NPC were analyzed. Methods: mRNA-sequencing and miR-sequencing data were obtained from the Gene Expression Omnibus. The differentially expressed genes (DEGs) and miRNAs (DEMs) were filter out. Then, the gene function annotations about the DEGs were predicted using Gene Ontology (GO) and KEGG pathway. Subsequently, the protein-protein interaction (PPI) network was established based on the STRING database, and function modules were identified using Cytoscape. Finally, DEGs targeted by DEMs were predicted by using the miRDB, miRTarBase, TargetScan and DIANA databases, and the DEM-DEG negative interaction network was built. Results: In all, 704 DEGs (about 49.9% upregulated) were enriched in 234 GO terms and 53 KEGG pathways. Seven hub genes (APP, GNG2, VAV1, RAC2, YES1, EGFR and GNB5) in 6 function modules were found for the PPI network. In addition, 86 DEMs were identified containing 56 upregulated and 30 downregulated miRNAs. There were 538 DEM-DEG pairs, of which miR-93-5p/TGFBR2, miR-455-3p/STK17B and miR-766-5p/ITGAV had functions in other cancers, moreover, these pairs may potentially contributed to NPC pathogenesis. Conclusion: The constructed miRNA-mRNA negetive regulatory network will give help in elucidating the molecular mechanisms of NPC. The important DEGs, DEMs and DEM-DEG pairs associated with NPC may contribute to the diagnosis and treatment of NPC in the future.
VL  - 9
IS  - 1
ER  -

Copy | Download