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Data Science in Cancer Genomics and Precision Medicine: 2nd Edition

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Genetics and Genomics".

Deadline for manuscript submissions: 20 June 2025 | Viewed by 2030

Special Issue Editor

Special Issue Information

Dear Colleagues,

This is a continuation to our series on the hot topic of “Data Science in Cancer Genomics and Precision Medicine”. We have already published a successful Special Issue, receiving interesting contributions and stimulating discussions (https://www.mdpi.com/journal/ijms/special_issues/Genomics_Medicine).

Data science in cancer genomics represents a new interdisciplinary field that applies statistics and next-generation sequencing (NGS) technologies to understand alterations in the genome of cancer cells. The data generated by these technologies are often termed “multi-omics data” and can include information on DNA, RNA, proteins, and epigenetic modifications. The use of data science in cancer genomics allows us to better understand the molecular basis of different cancers and exploit this information to match each patient with the most appropriate molecular targeted therapy, widely known as “precision medicine”. While traditional chemotherapy and radiation treatments target cellular processes that are common to both healthy and cancerous cells, precision medicine specifically directs newly developed treatments to cancer cells based on their underlying molecular profile.

This Special Issue of the International Journal of Molecular Sciences focuses on the research field of cancer genomics and precision medicine and welcomes both original research articles and review papers that deal with the molecular mechanisms underlying modifications in human cancer cells.

Dr. Apostolos Zaravinos
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. International Journal of Molecular Sciences is an international peer-reviewed open access semimonthly journal published by MDPI.

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Keywords

  • cancer genomics
  • big data
  • tumor immunology
  • translational oncology
  • precision medicine
  • next-generation sequencing
  • omics
  • cancer genomic datasets

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Published Papers (1 paper)

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Research

27 pages, 12788 KiB  
Article
A Multi-Omics Analysis of a Mitophagy-Related Signature in Pan-Cancer
by Nora Agir, Ilias Georgakopoulos-Soares and Apostolos Zaravinos
Int. J. Mol. Sci. 2025, 26(2), 448; https://doi.org/10.3390/ijms26020448 - 7 Jan 2025
Viewed by 1116
Abstract
Mitophagy, an essential process within cellular autophagy, has a critical role in regulating key cellular functions such as reproduction, metabolism, and apoptosis. Its involvement in tumor development is complex and influenced by the cellular environment. Here, we conduct a comprehensive analysis of a [...] Read more.
Mitophagy, an essential process within cellular autophagy, has a critical role in regulating key cellular functions such as reproduction, metabolism, and apoptosis. Its involvement in tumor development is complex and influenced by the cellular environment. Here, we conduct a comprehensive analysis of a mitophagy-related gene signature, composed of PRKN, PINK1, MAP1LC3A, SRC, BNIP3L, BECN1, and OPTN, across various cancer types, revealing significant differential expression patterns associated with molecular subtypes, stages, and patient outcomes. Pathway analysis revealed a complex interplay between the expression of the signature and potential effects on the activity of various cancer-related pathways in pan-cancer. Immune infiltration analysis linked the mitophagy signature with certain immune cell types, particularly OPTN with immune infiltration in melanoma. Methylation patterns correlated with gene expression and immune infiltration. Mutation analysis also showed frequent alterations in PRKN (34%), OPTN (21%), PINK1 (28%), and SRC (15%), with implications for the tumor microenvironment. We also found various correlations between the expression of the mitophagy-related genes and sensitivity in different drugs, suggesting that targeting this signature could improve therapy efficacy. Overall, our findings underscore the importance of mitophagy in cancer biology and drug resistance, as well as its potential for informing treatment strategies. Full article
(This article belongs to the Special Issue Data Science in Cancer Genomics and Precision Medicine: 2nd Edition)
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