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Author:

Zhou, Doudou (Zhou, Doudou.) | Li, Jianqiang (Li, Jianqiang.) (Scholars:李建强) | Yang, Ji-Jiang (Yang, Ji-Jiang.) | Wang, Qing (Wang, Qing.) | Qiu, Weiliang (Qiu, Weiliang.) | Chen, Shi (Chen, Shi.) | Lu, Minhua (Lu, Minhua.)

Indexed by:

CPCI-S Scopus

Abstract:

Oral squamous cell carcinomas (OSCC) is the most common head and neck cancer worldwide, with more than 300,000 new cases being diagnosed annually. Studies have shown that miRNAs are involved in the process of growth, differentiation, apoptosis, invasion and metastasis of OSCC tumor cells. How miRNAs work together to contribute to this process is still largely unknown. The goal of our study was to characterize the co-expression network of miRNAs and to identify the miRNA subnetworks (modules) that were significantly associated with the OSCC cancer status. We also searched hub miRNAs that might play a vital role in the development of OSCC. We applied the weighted gene co-expression network analysis (WGCNA) to the miRNA expression profile data from a paired design study contributed by Shiah et al. To account for the within-pair correlation, a linear mixed model (LMM) was constructed to test the associations of miRNA modules to cancer status. Two significant modules (turquoise module with 254 miRNAs and grey module with 309 miRNAs) were identified. The miRNA miR-let-7c was the hub miRNA in the turquoise module in terms of node degree. Finally, we used miRsystem to perform the target gene prediction and KEGG pathway enrichment analysis of miRNAs within the two modules. Interestingly, the two modules have similar sets of target genes so that the top 6 enriched KEGG pathways for the 2 modules were the same. Compared with the probe-wise test used by Shiah et al., we took the network approach and identified significant OSCC-associated miRNA modules, which could help uncover the mechanism that miRNAs interplay each other to contribute to OSCC.

Keyword:

co-expression network paired design KEGG pathway WGCNA linear mixed effects model

Author Community:

  • [ 1 ] [Zhou, Doudou]Beijing Univ Technol, Sch Software Engn, Beijing, Peoples R China
  • [ 2 ] [Li, Jianqiang]Beijing Univ Technol, Sch Software Engn, Beijing, Peoples R China
  • [ 3 ] [Yang, Ji-Jiang]Tsinghua Univ, Tsinghua Natl Lab Informat Sci & Technol, Beijing, Peoples R China
  • [ 4 ] [Wang, Qing]Tsinghua Univ, Tsinghua Natl Lab Informat Sci & Technol, Beijing, Peoples R China
  • [ 5 ] [Qiu, Weiliang]Harvard Med Sch, Channing Div Network Med, Brigham & Womens Hosp, Boston, MA USA
  • [ 6 ] [Chen, Shi]Peking Union Med Coll Hosp, Dept Endocrinol, Beijing, Peoples R China
  • [ 7 ] [Lu, Minhua]Shenzhen Univ, Natl Reg Key Technol Engn Lab Med Ultrasound, Guangdong Key Lab Biomed Measurements & Ultrasoun, Dept Biomed Engn, Shenzhen, Peoples R China

Reprint Author's Address:

  • [Yang, Ji-Jiang]Tsinghua Univ, Tsinghua Natl Lab Informat Sci & Technol, Beijing, Peoples R China

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Source :

2017 IEEE 41ST ANNUAL COMPUTER SOFTWARE AND APPLICATIONS CONFERENCE (COMPSAC), VOL 2

ISSN: 0730-3157

Year: 2017

Page: 199-203

Language: English

Cited Count:

WoS CC Cited Count: 0

SCOPUS Cited Count:

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 2

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