Multi-Omics Analysis in the Study of Carcinogenesis

A special issue of Cancers (ISSN 2072-6694). This special issue belongs to the section "Cancer Pathophysiology".

Deadline for manuscript submissions: 15 September 2025 | Viewed by 1148

Special Issue Editor

Special Issue Information

Dear Colleagues,

Multi-omics analyses have been established as powerful tools in investigating carcinogenesis, offering a broad view of the molecular mechanisms underlying cancer initiation and progression. The importance of integrating data obtained from multi-omics analyses with data derived from single-omics methods has been widely acknowledged. Correlating datasets from genomics, transcriptomics, proteomics, and metabolomics with clinical practice observations has proven to be a powerful approach to distinguishing different subtypes of patients within a population, as well as in the search for novel drug targets. In addition, the use of machine and deep learning in multi-omics data analyses is promising for the future development of oncology research.

This Special Issue welcomes the submission of a broad range of research and review manuscripts investigating the implications of multi-omics analysis in oncology research. We believe that such a group of articles will benefit basic science and clinical research scientists by providing a valuable summary of knowledge from various disciplines.

Dr. Dimiter Avtanski
Guest Editor

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Keywords

  • carcinogenesis
  • cancer initiation and progression
  • oncology research
  • multi-omics analyses
  • genomics
  • transcriptomics, proteomics
  • metabolomics

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Published Papers (1 paper)

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Research

20 pages, 7697 KiB  
Article
MiRNA Profiling of Areca Nut-Induced Carcinogenesis in Head and Neck Cancer
by Hung-Han Huang, Joseph T. Chang, Guo-Rung You, Yu-Fang Fu, Eric Yi-Liang Shen, Yi-Fang Huang, Chia-Rui Shen and Ann-Joy Cheng
Cancers 2024, 16(21), 3710; https://doi.org/10.3390/cancers16213710 - 3 Nov 2024
Viewed by 828
Abstract
Background: While miRNAs are increasingly recognized for their role in tumorigenesis, their involvement in head and neck cancer (HNC) remains insufficiently explored. Additionally, the carcinogenic mechanisms of areca nut, a major habitual carcinogen in Southeast Asia, are not well understood. Methods and results: [...] Read more.
Background: While miRNAs are increasingly recognized for their role in tumorigenesis, their involvement in head and neck cancer (HNC) remains insufficiently explored. Additionally, the carcinogenic mechanisms of areca nut, a major habitual carcinogen in Southeast Asia, are not well understood. Methods and results: This study adopts a systematic approach to identify miRNA profiles associated with areca nut-induced HNC. Using miRNA microarray analysis, we identified 292 miRNAs dysregulated in areca nut-treated HNC cells, with 136 upregulated and 156 downregulated. Bioinformatic analysis of the TCGA-HNSC dataset uncovered a set of 692 miRNAs relevant to HNC development, comprising 449 overexpressed and 243 underexpressed in tumor tissues. Integrating these datasets, we defined a signature of 84 miRNAs, including 39 oncogenic miRNAs (OncomiRs) and 45 tumor-suppressive miRNAs (TsmiRs), highlighting their pivotal role in areca nut-induced carcinogenesis. MultiMiR analysis identified 740 genes cross-regulated by eight hub TsmiRs, significantly impacting key cancer-related pathways (p53, PI3K-AKT, MAPK, and Ras) and critical oncogenic processes. Moreover, we validated miR-499a-5p as a vital regulator, demonstrating its ability to mitigate areca nut-induced cancer progression by reducing cell migration, invasion, and chemoresistance. Conclusions: Thus, this miRNA signature addresses a crucial gap in understanding the molecular underpinnings of areca nut-induced carcinogenesis and offers a promising platform for clinical applications in risk assessment, diagnosis, and prognosis of areca nut-associated malignancies. Full article
(This article belongs to the Special Issue Multi-Omics Analysis in the Study of Carcinogenesis)
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