Yanqi Dang
Wei Wang
Aiping Lyu
Lisheng Wang5,6
Guang Ji- 1Institute of Digestive Diseases, China-Canada Center of Research for Digestive Diseases, Longhua Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, China
- 2State Key Laboratory of Integration and Innovation of Classic Formula and Modern Chinese Medicine (Shanghai University of Traditional Chinese Medicine), Shanghai, China
- 3Centre for Precision Health, Edith Cowan University, Joondalup, WA, Australia
- 4School of Chinese Medicine, Hong Kong Baptist University, Kowloon, Hong Kong SAR, China
- 5Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, ON, Canada
- 6China-Canada Centre of Research for Digestive Diseases, University of Ottawa, Ottawa, ON, Canada
Editorial on the Research Topic
Application of genomics and epigenetics in disease and syndrome classification
Genomics and epigenetics have revolutionized disease diagnosis and classification, providing comprehensive insights into disease categorizations (Shen et al., 2018; Koelsche et al., 2021; de Leval et al., 2022). By integrating genomics and epigenetics from the concept of central dogma vs. paracentral dogma (Wang, 2023a; Wang, 2023b), we could account for both genetic predisposition and environmental influences on disease development. In precision medicine, syndrome differentiation plays a crucial role in disease diagnosis and treatment (Dai et al., 2022). Exploring therapeutic strategies to specific syndromes enables more effective disease management. The incorporation of symptomatology and customized prescriptions contributes significantly to the advancement of precision medicine.
We are proud to showcase four featured publications in this Research Topic entitled “Application of Genomics and Epigenetics in Disease and Syndrome Classification”. This editorial aims to provide a concise overview of these articles and highlight their significant contributions to the field.
Genomic studies play a pivotal role in identifying genetic variations associated with diseases. Notably, genome-wide association studies have unveiled single nucleotide polymorphisms (SNPs) associated with specific diseases (Wang et al., 2023). In this Research Topic, Liu et al. found that miR-196a2 rs11614913 and miR-27a rs895819 may influence genetic susceptibility to gastric precancerous lesions (GPL) or gastric cancer (GC). Additionally, they revealed a synergistic effect between miR-196a2 rs11614913 and Helicobacter pylori infection in the onset and progression of GPL. A similar study previously indicated that pri-miR-124-1 rs531564 and STAT3 rs1053023 are associated with a higher risk of GC (Mirnoori et al., 2018). These studies demonstrated that SNPs of miRNAs could be significantly associated with GPL or GC. Moreover, Pervin et al. unveiled two novel and clinically impactful metabolic subtypes of pancreatic ductal adenocarcinoma, shedding light on the complexities of substantial intratumoral heterogeneity, consistent with previous studies (Mahajan et al., 2021).
RNA-binding proteins (RBPs) emerge as invaluable biomarkers in disease diagnosis and classification, serving multifaceted roles in detecting disease, monitoring progression, predicting treatment response, and stratifying patients based on molecular profiles. Furthermore, directing interventions towards dysregulated RBPs offers promise for innovative novel treatment strategies across various diseases. Yang et al. showed the pivotal regulatory effect of dysregulated RBPs and their associated alternative splicing events in the development of atopic dermatitis, suggesting promising avenues for therapeutic intervention.
Epigenetic modifications are important in cancer, exerting significant influence in tumor initiation and progression. Profiling these epigenetic alterations helps tumor classification, guiding prognostic assessments and therapeutic choices. Yi et al. made a substantial contribution by summarizing the role of m6A modification in regulating telomerase activity. They comprehensively reviewed the literature, focusing on the applications of the CRISPR system, and the impact of m6A modification on telomerase activity regulation. Additionally, they explored the treatment strategies targeting telomerase activity in age-related conditions and cancer. This review provides the important and the latest information for advancing research in anti-aging therapies and the management of tumor-related diseases.
In summary, genomics and epigenetics play significant roles in disease classification, unveiling the genetic and epigenetic complexity underlying disease progression. Integrating these approaches enhances our understanding of disease mechanisms and facilitates the development of precision medicine strategies. However, the integration of diverse omics data poses challenges due to the complexity and abundance of generated information. Moreover, the utilization of genomic and epigenomic data raises ethical and privacy considerations, emphasizing the need for stringent regulations and guidelines.
Author contributions
YD: Data curation, Project administration, Validation, Writing–original draft. WW: Formal Analysis, Validation, Visualization, Writing–review and editing. AL: Validation, Visualization, Writing–review and editing. LW: Validation, Visualization, Writing–review and editing. GJ: Funding acquisition, Project administration, Validation, Visualization, Writing–review and editing.
Funding
The author(s) declare that financial support was received for the research, authorship, and/or publication of this article. The National Nature Science Foundation of China (82320108022), provided funding for this project.
Acknowledgments
The authors would like to thank all the contributing authors, peer reviewers, and the editorial staff for their great contributions and generous support in the development and implementation of this Research Topic.
Conflict of interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Publisher’s note
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References
Dai, L., Xu, J. J., Zhou, W. J., Lu, A. P., and Ji, G. (2022). Appraisal of treatment outcomes in integrative medicine using metabonomics: taking non-alcoholic fatty liver disease with spleen deficiency syndrome as an example. J. Integr. Med. 20 (6), 524–533. doi:10.1016/j.joim.2022.08.002
de Leval, L., Alizadeh, A. A., Bergsagel, P. L., Campo, E., Davies, A., Dogan, A., et al. (2022). Genomic profiling for clinical decision making in lymphoid neoplasms. Blood 140 (21), 2193–2227. doi:10.1182/blood.2022015854
Koelsche, C., Schrimpf, D., Stichel, D., Sill, M., Sahm, F., Reuss, D. E., et al. (2021). Sarcoma classification by DNA methylation profiling. Nat. Commun. 12 (1), 498. doi:10.1038/s41467-020-20603-4
Mahajan, U. M., Alnatsha, A., Li, Q., Oehrle, B., Weiss, F. U., Sendler, M., et al. (2021). Plasma metabolome profiling identifies metabolic subtypes of pancreatic ductal adenocarcinoma. Cells 10 (7), 1821. doi:10.3390/cells10071821
Mirnoori, S. M., Shahangian, S. S., Salehi, Z., Mashayekhi, F., Talesh Sasani, S., and Saedi, H. S. (2018). Influence of single nucleotide polymorphisms in pri-miR-124-1 and STAT3 genes on gastric cancer susceptibility. Br. J. Biomed. Sci. 75 (4), 182–186. doi:10.1080/09674845.2018.1492206
Shen, S. Y., Singhania, R., Fehringer, G., Chakravarthy, A., Roehrl, M. H. A., Chadwick, D., et al. (2018). Sensitive tumour detection and classification using plasma cell-free DNA methylomes. Nature 563 (7732), 579–583. doi:10.1038/s41586-018-0703-0
Wang, J., Roy, S. K., Richard, S. A., and Xu, Y. (2023). Genome-wide association studies of REST gene associated neurological diseases/traits with related single nucleotide polymorphisms. Curr. Neurovasc Res. 20 (3), 410–422. doi:10.2174/1567202620666230727153306
Wang, W. (2023a). Editorial: orthodox vs paradox: the roles of glycomics, genetics and beyond in immunity, immune disorders and glycomedicine. Front. Immunol. 14, 1305552. doi:10.3389/fimmu.2023.1305552
Keywords: disease classification, syndrome classification, genomics, DNA methylation, RNA methylation, protein modification
Citation: Dang Y, Wang W, Lyu A, Wang L and Ji G (2024) Editorial: Application of genomics and epigenetics in disease and syndrome classification. Front. Genet. 15:1421163. doi: 10.3389/fgene.2024.1421163
Received: 21 April 2024; Accepted: 22 April 2024;
Published: 01 May 2024.
Edited and reviewed by:
Michael E. Symonds, University of Nottingham, United KingdomCopyright © 2024 Dang, Wang, Lyu, Wang and Ji. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
*Correspondence: Guang Ji, amlsaXZlckB2aXAuc2luYS5jb20=, amdAc2h1dGNtLmVkdS5jbg==; Yanqi Dang, eXFfZGFuZ0BzaHV0Y20uZWR1LmNu, ZGFuZ3lhbnFpOTAyMkAxMjYuY29t