A Mini Review of Node Centrality Metrics in Biological Networks

International Journal of Network Dynamics and Intelligence, Journal Year: 2022, Volume and Issue: unknown, P. 99 - 110

Published: Dec. 22, 2022

Survey/review study A Mini Review of Node Centrality Metrics in Biological Networks Mengyuan Wang 1,2, Haiying 1, and Huiru Zheng 1,* 1 School Computing, Ulster University, Belfast, BT15 1ED, United Kingdom 2 Scotland’s Rural College, Edinburgh, EH25 9RG, * Correspondence: [email protected] Received: 31 October 2022 Accepted: 21 November Published: 22 December Abstract: The diversity nodes a complex network causes each node to have varying significance, the important often significant impact on structure function network. Although interpretation results biological networks must always depend topological nodes, there is presently no consensus how use these metrics, most analyses result basic limited number metrics. To thoroughly comprehend networks, it necessary consistently understand notion centrality. Therefore, for 10 typical nodal metrics first assesses their current applications, advantages, disadvantages as well potential applications. Then, review previous studies provided, suggestions are made correspondingly purpose improving topology algorithms. Finally, following recommendations this study: (1) comprehensive accurate assessment centrality necessitates multiple including both target its surroundings, density maximum neighbourhood component(DMNC) can be used complement other metrics; (2) different applied identify with functions, which mapped modular bridging roles, susceptibility; (3) groups verified against other, degree component (MNC), eccentricity, closeness radiality; stress betweenness.

Language: Английский

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Natural-product-based, carrier-free, noncovalent nanoparticles for tumor chemo-photodynamic combination therapy

Pharmacological Research, Journal Year: 2024, Volume and Issue: 203, P. 107150 - 107150

Published: March 21, 2024

Cancer, with its diversity, heterogeneity, and complexity, is a significant contributor to global morbidity, disability, mortality, highlighting the necessity for transformative treatment approaches. Photodynamic therapy (PDT) has aroused continuous interest as viable alternative conventional cancer treatments that encounter drug resistance. Nanotechnology brought new advances in medicine shown great potential delivery treatment. For precise efficient therapeutic utilization of such tumor approach high spatiotemporal selectivity minimal invasiveness, carrier-free noncovalent nanoparticles (NPs) based on chemo-photodynamic combination essential. Utilizing natural products foundation nanodrug development offers unparalleled advantages, including exceptional pharmacological activity, easy functionalization/modification, well biocompatibility. The natural-product-based, carrier-free, NPs revealed excellent synergistic anticancer activity comparison free photosensitizers bioactive products, representing an favorable avenue improve efficacy. Herein, comprehensive summary current strategies representative application examples past decade (such paclitaxel, 10-hydroxycamptothecin, doxorubicin, etoposide, combretastatin A4, epigallocatechin gallate, curcumin) therapy. We highlight insightful design synthesis smart aim enhance PDT Meanwhile, we discuss future challenges opportunities associated these provide enlightenment, spur innovative ideas, facilitate PDT-mediated clinical transformation.

Language: Английский

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From Data to Cure: A Comprehensive Exploration of Multi-omics Data Analysis for Targeted Therapies

Molecular Biotechnology, Journal Year: 2024, Volume and Issue: unknown

Published: April 2, 2024

In the dynamic landscape of targeted therapeutics, drug discovery has pivoted towards understanding underlying disease mechanisms, placing a strong emphasis on molecular perturbations and target identification. This paradigm shift, crucial for discovery, is underpinned by big data, transformative force in current era. Omics characterized its heterogeneity enormity, ushered biological biomedical research into data domain. Acknowledging significance integrating diverse omics strata, known as multi-omics studies, researchers delve intricate interrelationships among various layers. review navigates expansive landscape, showcasing tailored assays each layer through genomes to metabolomes. The sheer volume generated necessitates sophisticated informatics techniques, with machine-learning (ML) algorithms emerging robust tools. These datasets not only refine classification but also enhance diagnostics foster development therapeutic strategies. Through integration high-throughput focuses targeting modeling multiple disease-regulated networks, validating interactions targets, enhancing potential using network pharmacology approaches. Ultimately, this exploration aims illuminate impact era, shaping future research.

Language: Английский

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Advance computational tools for multiomics data learning

Biotechnology Advances, Journal Year: 2024, Volume and Issue: 77, P. 108447 - 108447

Published: Sept. 7, 2024

Language: Английский

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Exploring the Molecular Terrain: A Survey of Analytical Methods for Biological Network Analysis

Symmetry, Journal Year: 2024, Volume and Issue: 16(4), P. 462 - 462

Published: April 10, 2024

Biological systems, characterized by their complex interplay of symmetry and asymmetry, operate through intricate networks interacting molecules, weaving the elaborate tapestry life. The exploration these networks, aptly termed “molecular terrain”, is pivotal for unlocking mysteries biological processes spearheading development innovative therapeutic strategies. This review embarks on a comprehensive survey analytical methods employed in network analysis, focusing elucidating roles asymmetry within networks. By highlighting strengths, limitations, potential applications, we delve into reconstruction, topological analysis with an emphasis detection, examination dynamics, which together reveal nuanced balance between stable, symmetrical configurations dynamic, asymmetrical shifts that underpin functionality. equips researchers multifaceted toolbox designed to navigate decipher networks’ intricate, balanced landscape, thereby advancing our understanding manipulation systems. Through this detailed exploration, aim foster significant advancements paving way novel interventions deeper comprehension molecular underpinnings

Language: Английский

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Single-cell transcriptomic reveals network topology changes of cancer at the individual level

Computational Biology and Chemistry, Journal Year: 2025, Volume and Issue: 117, P. 108401 - 108401

Published: Feb. 27, 2025

Language: Английский

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Mapping the pathogenic nexus: Gene overlap and protein interaction networks in Alzheimer’s and breast cancer as a precursor to protein structure prediction and analysis

Advances in protein chemistry and structural biology, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 1, 2025

Language: Английский

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Computational resources and chemoinformatics for translational health research

Advances in protein chemistry and structural biology, Journal Year: 2024, Volume and Issue: unknown, P. 27 - 55

Published: Jan. 1, 2024

Language: Английский

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Respiratory tract infections: an update on the complexity of bacterial diversity, therapeutic interventions and breakthroughs

Archives of Microbiology, Journal Year: 2024, Volume and Issue: 206(9)

Published: Aug. 17, 2024

Language: Английский

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A Strategy Utilizing Protein–Protein Interaction Hubs for the Treatment of Cancer Diseases

International Journal of Molecular Sciences, Journal Year: 2023, Volume and Issue: 24(22), P. 16098 - 16098

Published: Nov. 8, 2023

We describe a strategy for the development of rational approach neoplastic disease therapy based on demonstration that scale-free networks are susceptible to specific attacks directed against its connective hubs. This involves (i) selection up-regulated hubs connectivity in tumors interactome, (ii) drug repurposing these hubs, (iii) RNA silencing non-druggable (iv) vitro hub validation, (v) tumor-on-a-chip, (vi) vivo and (vii) clinical trial. Hubs protein targets assessed as cancer context personalized oncology. confirmed existence negative correlation between malignant cell aggressivity target number needed drugs or interference (RNAi) maximize benefit patient’s overall survival. Interestingly, we found some additional proteins not generally targeted by treatments might justify addition inhibitors designed them order improve therapeutic outcomes. However, many druggable, available pharmacopeia is limited, which justifies encapsulated RNAi.

Language: Английский

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