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Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines

Understanding complex disease mechanisms requires a comprehensive understanding of the gene regulatory networks, as complex diseases are often characterized by the dysregulation and dysfunction of molecular networks, rather than abnormalities in single genes. Specifically, the exploration of cell li...

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Detalles Bibliográficos
Autor principal: Park, Heewon
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10454379/
https://www.ncbi.nlm.nih.gov/pubmed/37628965
http://dx.doi.org/10.3390/ijms241612784
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author Park, Heewon
author_facet Park, Heewon
author_sort Park, Heewon
collection PubMed
description Understanding complex disease mechanisms requires a comprehensive understanding of the gene regulatory networks, as complex diseases are often characterized by the dysregulation and dysfunction of molecular networks, rather than abnormalities in single genes. Specifically, the exploration of cell line-specific gene networks can provide essential clues for precision medicine, as this methodology can uncover molecular interplays specific to particular cell line statuses, such as drug sensitivity, cancer progression, etc. In this article, we provide a comprehensive review of computational strategies for cell line-specific gene network analysis: (1) cell line-specific gene regulatory network estimation and analysis of gene networks under varying epithelial–mesenchymal transition (EMT) statuses of cell lines; and (2) an explainable artificial intelligence approach for interpreting the estimated massive multiple EMT-status-specific gene networks. The objective of this review is to help readers grasp the concept of computational network biology, which holds significant implications for precision medicine by offering crucial clues.
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spelling pubmed-104543792023-08-26 Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines Park, Heewon Int J Mol Sci Review Understanding complex disease mechanisms requires a comprehensive understanding of the gene regulatory networks, as complex diseases are often characterized by the dysregulation and dysfunction of molecular networks, rather than abnormalities in single genes. Specifically, the exploration of cell line-specific gene networks can provide essential clues for precision medicine, as this methodology can uncover molecular interplays specific to particular cell line statuses, such as drug sensitivity, cancer progression, etc. In this article, we provide a comprehensive review of computational strategies for cell line-specific gene network analysis: (1) cell line-specific gene regulatory network estimation and analysis of gene networks under varying epithelial–mesenchymal transition (EMT) statuses of cell lines; and (2) an explainable artificial intelligence approach for interpreting the estimated massive multiple EMT-status-specific gene networks. The objective of this review is to help readers grasp the concept of computational network biology, which holds significant implications for precision medicine by offering crucial clues. MDPI 2023-08-14 /pmc/articles/PMC10454379/ /pubmed/37628965 http://dx.doi.org/10.3390/ijms241612784 Text en © 2023 by the author. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Review
Park, Heewon
Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title_full Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title_fullStr Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title_full_unstemmed Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title_short Unraveling the Molecular Puzzle: Exploring Gene Networks across Diverse EMT Status of Cell Lines
title_sort unraveling the molecular puzzle: exploring gene networks across diverse emt status of cell lines
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10454379/
https://www.ncbi.nlm.nih.gov/pubmed/37628965
http://dx.doi.org/10.3390/ijms241612784
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