Bioinformatics and system biology techniques to determine biomolecular signatures and pathways of prion disorder

Article

Mredul, Md Bazlur Rahman, Khan, Umama, Rana, Humayan Kabir, Meem, Tahera Mahnaz, Awal, Md Abdul, Rahman, Md Habibur and Khan, Md Salauddin. 2022. "Bioinformatics and system biology techniques to determine biomolecular signatures and pathways of prion disorder." Bioinformatics and Biology Insights. 16, pp. 1-14. https://doi.org/10.1177/11779322221145373
Article Title

Bioinformatics and system biology techniques to determine biomolecular signatures and pathways of prion disorder

ERA Journal ID200214
Article CategoryArticle
AuthorsMredul, Md Bazlur Rahman, Khan, Umama, Rana, Humayan Kabir, Meem, Tahera Mahnaz, Awal, Md Abdul, Rahman, Md Habibur and Khan, Md Salauddin
Journal TitleBioinformatics and Biology Insights
Journal Citation16, pp. 1-14
Number of Pages14
Year2022
PublisherSAGE Publications Ltd
Place of PublicationUnited Kingdom
ISSN1177-9322
Digital Object Identifier (DOI)https://doi.org/10.1177/11779322221145373
Web Address (URL)https://journals.sagepub.com/doi/10.1177/11779322221145373
Abstract

Prion disorder (PD) is caused by misfolding and the formation of clumps of proteins in the brain, notably Prion proteins resulting in a steady decrease in brain function. Early detection of PD is difficult due to its unpredictable nature, and diagnosis is limited regarding specificity and sensitivity. Considering the uncertainties, the current study used network-based integrative system biology approaches to reveal promising molecular biomarkers and therapeutic targets for PD. In this study, brain transcriptomics gene expression microarray datasets (GSE160208 and GSE124571) of human PD were evaluated and 35 differentially expressed genes (DEGs) were identified. By employing network-based protein–protein interaction (PPI) analysis on these DEGs, 10 central hub proteins, including SPP1, FKBP5, HPRT1, CDKN1A, BAG3, HSPB1, SYK, TNFRSF1A, PTPN6, and CD44, were identified. Employing bioinformatics approaches, a variety of transcription factors (EGR1, SSRP1, POLR2A, TARDP, and NR2F1) and miRNAs (hsa-mir-8485, hsa-mir-148b-3p, hsa-mir-4295, hsa-mir-26b-5p, and hsa-mir-16-5p) were predicted. EGR1 was found as the most imperative transcription factor (TF), and hsa-mir-16-5p and hsa-mir-148b-3p were found as the most crucial miRNAs targeted in PD. Finally, resveratrol and hypochlorous acid were predicted as possible therapeutic drugs for PD. This study could be helpful in better understanding of molecular systems and prospective pharmacological targets for developing effective PD treatments.

KeywordsPrion disorder; bioinformatics; system biology; pathways; biomarkers; networks
Contains Sensitive ContentDoes not contain sensitive content
ANZSRC Field of Research 2020310202. Biological network analysis
Byline AffiliationsKhulna University, Bangladesh
Green University of Bangladesh, Bangladesh
Islamic University, Bangladesh
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