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Integrative Omics Approaches for Precision Biotech: Tools, Applications and Future...
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Integrative Omics Approaches for Precision Biotech: Tools, Applications and Future Perspectives

A special issue of BioTech (ISSN 2673-6284).

Deadline for manuscript submissions: 30 October 2026 | Viewed by 2685

Special Issue Editor

Prof. Dr. Valeria D’Argenio

E-Mail Website
Guest Editor
1. Department for the Promotion of Human Sciences and Quality of Life, San Raffaele Roma Open University, 00166 Rome, Italy
2. CEINGE-Biotecnologie Avanzate Franco Salvatore, 80145 Napoli, Italy
Interests: next generation sequencing; genomics; cancer genomics; hereditary cancers; metagenomics; human microbiome; molecular diagnostics
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

The development and diffusion of omics technologies have revolutionized the way that we understand biological systems, offering unprecedented insights into several fields, including genomics, transcriptomics, proteomics, metabolomics, and beyond. As these different kinds of biological data become increasingly integrated, they will open new horizons for innovation in biotechnology—ranging from precision medicine and synthetic biology to sustainable agriculture and environmental biotech.

This Special Issue aims to highlight the latest advances in integrative omics approaches and their transformative impact on precision biotechnology. We welcome original research articles, reviews, and methodological papers that explore novel omics-based strategies, computational tools, and multi-omics applications designed to address real-world challenges.

Topics of interest include, but are not limited to, the following:

  • Multi-omics integration platforms and pipelines;
  • AI and machine learning in omics data analysis;
  • Omics-guided metabolic and genome engineering;
  • Applications in precision diagnostics and therapeutics;
  • Plant and microbial omics for sustainable biotech;
  • Single-cell omics and spatial transcriptomics.;
  • Challenges in omics data harmonization and standardization;
  • Future perspectives and ethical implications in precision biotech.

We encourage submissions that combine experimental and computational approaches and foster interdisciplinary collaboration.

Prof. Dr. Valeria D’Argenio
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 250 words) can be sent to the Editorial Office for assessment.

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. BioTech is an international peer-reviewed open access quarterly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1800 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • multi-omics integration
  • precision biotechnology
  • systems biology
  • bioinformatics tools
  • translational omics

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Further information on MDPI's Special Issue policies can be found here.

Published Papers (2 papers)

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22 pages, 7755 KB  
Article
Transcriptomic Insights into lncRNA–miRNA–mRNA Networks Regulating Angiogenesis and Metastasis in Prostate Cancer
by Jonathan Puente-Rivera, Stephanie I. Nuñez Olvera, Ameyatzin Ereth Robles-Chávez, Nayeli Goreti Nieto-Velázquez and María Elizbeth Alvarez-Sánchez
BioTech 2026, 15(1), 12; https://doi.org/10.3390/biotech15010012 - 1 Feb 2026
Viewed by 775
Abstract
Prostate cancer (PCa) is a leading cause of cancer-related mortality in men and is often characterized by aggressive growth and bone metastasis. Angiogenesis plays a central role in tumor progression and dissemination. This study aimed to explore the regulatory roles of long non-coding [...] Read more.
Prostate cancer (PCa) is a leading cause of cancer-related mortality in men and is often characterized by aggressive growth and bone metastasis. Angiogenesis plays a central role in tumor progression and dissemination. This study aimed to explore the regulatory roles of long non-coding RNAs (lncRNAs) and microRNAs (miRNAs) in angiogenesis and metastasis during PCa progression. Publicly available RNA-seq datasets were analyzed to identify differentially expressed miRNAs between metastatic (N1) and nonmetastatic (N0) PCa. Bioinformatic tools were used to reconstruct co-regulatory networks involving miRNAs, lncRNAs, and angiogenesis-related mRNAs. RT-qPCR was performed on serum-derived liquid biopsies from N0 and N1 patients and healthy controls to validate the key regulatory axes. Transcriptomic analysis revealed that miRNAs such as hsa-miR-183-5p and hsa-miR-216a-5p were upregulated in N1 PCa and associated with pro-angiogenic signaling, whereas hsa-miR-206 and hsa-miR-184, known for their anti-angiogenic functions, were downregulated. Network analysis identified the LINC00261–miR-206–HIF1A axis as the central regulatory module. RT-qPCR validation confirmed the significant downregulation of LINC00261 and miR-206, along with HIF1A overexpression in N1 samples compared to N0 and controls (p < 0.001), supporting in silico predictions. These findings highlight the role of ncRNA-mediated regulation of PCa angiogenesis and metastasis. The LINC00261–miR-206–HIF1A axis may serve as a promising noninvasive biomarker and potential therapeutic target. The integration of computational and experimental data provides a strong rationale for the further functional validation of advanced PCa. Full article
(This article belongs to the Special Issue Integrative Omics Approaches for Precision Biotech: Tools, Applications and Future Perspectives)
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Review

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26 pages, 2722 KB  
Review
Multi-Scale Transcriptomics Redefining the Tumor Immune Microenvironment
by Jing Sun, Yingxue Xiao, Lingling Xie, Dan Qin, Yue Zou, Yingying Liu, Yitong Zhai, Minyi Zhang, Tong Li, Youjin Hao and Bo Li
BioTech 2026, 15(1), 7; https://doi.org/10.3390/biotech15010007 - 15 Jan 2026
Cited by 1 | Viewed by 1203
Abstract
The tumor immune microenvironment (TIME) is closely involved in tumor initiation, malignant progression, immune escape, and response to immunotherapy. With the continued development of high-throughput sequencing technologies, transcriptomic approaches have become essential for examining the cellular and molecular features of the TIME. Bulk [...] Read more.
The tumor immune microenvironment (TIME) is closely involved in tumor initiation, malignant progression, immune escape, and response to immunotherapy. With the continued development of high-throughput sequencing technologies, transcriptomic approaches have become essential for examining the cellular and molecular features of the TIME. Bulk RNA sequencing offers tissue-level gene expression profiles and allows the estimation of immune cell composition through computational deconvolution. Single-cell RNA sequencing provides finer resolution, revealing cellular heterogeneity, lineage relationships, and functional states. Spatial transcriptomics (ST) retains the native anatomical context, making it possible to localize gene expression patterns and cell–cell interactions within intact tissues. These approaches, when considered together, have shifted TIME research from averaged measurements toward a more detailed and mechanistic understanding. This review summarizes the principles, applications and limitations of bulk, single-cell and spatial transcriptomic methods, highlighting emerging strategies for integrative analysis. Such multi-scale frameworks are increasingly important for studying immune dynamics and may contribute to the development of more precise biotechnological and immunotherapeutic strategies. Full article
(This article belongs to the Special Issue Integrative Omics Approaches for Precision Biotech: Tools, Applications and Future Perspectives)
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