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Article

Biomarkers, Master Regulators and Genomic Fabric Remodeling in a Case of Papillary Thyroid Carcinoma

Personalized Genomics Laboratory, CRI Center for Computational Systems Biology, Roy G Perry College of Engineering, Prairie View A&M University, Prairie View, TX 77446, USA
Genes 2020, 11(9), 1030; https://doi.org/10.3390/genes11091030
Received: 1 August 2020 / Revised: 25 August 2020 / Accepted: 1 September 2020 / Published: 2 September 2020
(This article belongs to the Special Issue Genetic Perspectives in Thyroid Cancer)
Publicly available (own) transcriptomic data have been analyzed to quantify the alteration in functional pathways in thyroid cancer, establish the gene hierarchy, identify potential gene targets and predict the effects of their manipulation. The expression data have been generated by profiling one case of papillary thyroid carcinoma (PTC) and genetically manipulated BCPAP (papillary) and 8505C (anaplastic) human thyroid cancer cell lines. The study used the genomic fabric paradigm that considers the transcriptome as a multi-dimensional mathematical object based on the three independent characteristics that can be derived for each gene from the expression data. We found remarkable remodeling of the thyroid hormone synthesis, cell cycle, oxidative phosphorylation and apoptosis pathways. Serine peptidase inhibitor, Kunitz type, 2 (SPINT2) was identified as the Gene Master Regulator of the investigated PTC. The substantial increase in the expression synergism of SPINT2 with apoptosis genes in the cancer nodule with respect to the surrounding normal tissue (NOR) suggests that SPINT2 experimental overexpression may force the PTC cells into apoptosis with a negligible effect on the NOR cells. The predictive value of the expression coordination for the expression regulation was validated with data from 8505C and BCPAP cell lines before and after lentiviral transfection with DDX19B. View Full-Text
Keywords: 8505C cell line; apoptosis; BCPAP cell line; BRAF; CFLAR; IL6; oxidative phosphorylation; SPINT2; thyroid hormone synthesis; weighted pathway regulation 8505C cell line; apoptosis; BCPAP cell line; BRAF; CFLAR; IL6; oxidative phosphorylation; SPINT2; thyroid hormone synthesis; weighted pathway regulation
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MDPI and ACS Style

Iacobas, D.A. Biomarkers, Master Regulators and Genomic Fabric Remodeling in a Case of Papillary Thyroid Carcinoma. Genes 2020, 11, 1030. https://doi.org/10.3390/genes11091030

AMA Style

Iacobas DA. Biomarkers, Master Regulators and Genomic Fabric Remodeling in a Case of Papillary Thyroid Carcinoma. Genes. 2020; 11(9):1030. https://doi.org/10.3390/genes11091030

Chicago/Turabian Style

Iacobas, Dumitru A. 2020. "Biomarkers, Master Regulators and Genomic Fabric Remodeling in a Case of Papillary Thyroid Carcinoma" Genes 11, no. 9: 1030. https://doi.org/10.3390/genes11091030

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