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Expression profiles of pivotal microRNAs and targets in thyroid papillary carcinoma: an analysis of The Cancer Genome Atlas.

Cong D, He M, Chen S, Liu X, Liu X, Sun H - Onco Targets Ther (2015)

Bottom Line: Among them, CCNE2, COL4A1, TRAF6, and HSP90B1 were newly identified.Based on receiver operating characteristic curves, several miRNAs (miR-222, miR-221, and miR-34a) and genes (CCND1 and MET) were ideal diagnostic indicators, with sensitivities and specificities greater than 90%.In a clinical feature analysis, several miRNAs (miR-34a, miR-424, miR-20b, and miR-152) and genes (CCNE2, COL4A1, TRAF6, and HSP90B1) were associated with aggressive clinical features, which have not previously been reported.

View Article: PubMed Central - PubMed

Affiliation: Jilin Provincial Key Laboratory of Surgical Translational Medicine, Department of Thyroid and Parathyroid Surgery, People's Republic of China-Japan Union Hospital, Jilin University, Changchun, Jilin, People's Republic of China.

ABSTRACT
In the present study, we analyzed microRNA (miRNA) and gene expression profiles using 499 papillary thyroid carcinoma (PTC) samples and 58 normal thyroid tissues obtained from The Cancer Genome Atlas database. A pivotal regulatory network of 18 miRNA and 16 targets was identified. Upregulated miRNAs (miR-222, miR-221, miR-146b, miR-181a/b/d, miR-34a, and miR-424) and downregulated miRNAs (miR-9-1, miR-138, miR-363, miR-20b, miR-195, and miR-152) were identified. Among them, the upregulation of miR-424 and downregulation of miR-363, miR-195, and miR-152 were not previously identified. The genes CCNE2 (also known as cyclin E2), E2F1, RARA, CCND1 (cyclin D1), RUNX1, ITGA2, MET, CDKN1A (p21), and COL4A1 were overexpressed, and AXIN2, TRAF6, BCL2, RARB, HSP90B1, FGF7, and PDGFRA were downregulated. Among them, CCNE2, COL4A1, TRAF6, and HSP90B1 were newly identified. Based on receiver operating characteristic curves, several miRNAs (miR-222, miR-221, and miR-34a) and genes (CCND1 and MET) were ideal diagnostic indicators, with sensitivities and specificities greater than 90%. The combination of inversely expressed miRNAs and targets improved diagnostic accuracy. In a clinical feature analysis, several miRNAs (miR-34a, miR-424, miR-20b, and miR-152) and genes (CCNE2, COL4A1, TRAF6, and HSP90B1) were associated with aggressive clinical features, which have not previously been reported. Our study not only identified a pivotal miRNA regulatory network associated with PTC but also provided evidence that miRNAs and target genes can be used as biomarkers in PTC diagnosis and clinical risk evaluation.

No MeSH data available.


Related in: MedlinePlus

Regulatory network of pivotal miRNAs in PTC.Notes: Red-marked miRNAs and genes were upregulated and blue-marked miRNAs and genes were downregulated. Key regulatory network nodes were identified, including many genes, such as AXIN2, BCL2, CCND1, RUNX1, CCNE2, and miRNAs such as miR-424, miR-181a/b/d, miR-20b, miR-195, miR-152, and miR-144. Regulatory networks formed by these key nodes are shown, including the internal relationships among thyroid cancer miRNAs and genes.Abbreviations: miRNAs, microRNAs; PTC, papillary thyroid carcinoma.
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f2-ott-8-2271: Regulatory network of pivotal miRNAs in PTC.Notes: Red-marked miRNAs and genes were upregulated and blue-marked miRNAs and genes were downregulated. Key regulatory network nodes were identified, including many genes, such as AXIN2, BCL2, CCND1, RUNX1, CCNE2, and miRNAs such as miR-424, miR-181a/b/d, miR-20b, miR-195, miR-152, and miR-144. Regulatory networks formed by these key nodes are shown, including the internal relationships among thyroid cancer miRNAs and genes.Abbreviations: miRNAs, microRNAs; PTC, papillary thyroid carcinoma.

Mentions: Using starBase v2.0 (Jianhua Yang, Sun Yat-sen University, 2010–2013) to predict target genes, 30 miRNAs and 277 target genes were successfully predicted (data not shown). After Kyoto Encyclopedia of Genes and Genomes pathway mapping, 16 of 277 genes involved in cancer-related pathways were identified. Corresponding miRNAs were 17 of 30. The expression levels of 17 miRNAs and 16 target genes were visualized and are represented in Figure 1. These miRNAs and target genes were pivotal in PTC because all of them were differentially expressed by at least twofold and played roles in cancer signaling pathways. The regulatory network is represented in Figure 2.


Expression profiles of pivotal microRNAs and targets in thyroid papillary carcinoma: an analysis of The Cancer Genome Atlas.

Cong D, He M, Chen S, Liu X, Liu X, Sun H - Onco Targets Ther (2015)

Regulatory network of pivotal miRNAs in PTC.Notes: Red-marked miRNAs and genes were upregulated and blue-marked miRNAs and genes were downregulated. Key regulatory network nodes were identified, including many genes, such as AXIN2, BCL2, CCND1, RUNX1, CCNE2, and miRNAs such as miR-424, miR-181a/b/d, miR-20b, miR-195, miR-152, and miR-144. Regulatory networks formed by these key nodes are shown, including the internal relationships among thyroid cancer miRNAs and genes.Abbreviations: miRNAs, microRNAs; PTC, papillary thyroid carcinoma.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4556042&req=5

f2-ott-8-2271: Regulatory network of pivotal miRNAs in PTC.Notes: Red-marked miRNAs and genes were upregulated and blue-marked miRNAs and genes were downregulated. Key regulatory network nodes were identified, including many genes, such as AXIN2, BCL2, CCND1, RUNX1, CCNE2, and miRNAs such as miR-424, miR-181a/b/d, miR-20b, miR-195, miR-152, and miR-144. Regulatory networks formed by these key nodes are shown, including the internal relationships among thyroid cancer miRNAs and genes.Abbreviations: miRNAs, microRNAs; PTC, papillary thyroid carcinoma.
Mentions: Using starBase v2.0 (Jianhua Yang, Sun Yat-sen University, 2010–2013) to predict target genes, 30 miRNAs and 277 target genes were successfully predicted (data not shown). After Kyoto Encyclopedia of Genes and Genomes pathway mapping, 16 of 277 genes involved in cancer-related pathways were identified. Corresponding miRNAs were 17 of 30. The expression levels of 17 miRNAs and 16 target genes were visualized and are represented in Figure 1. These miRNAs and target genes were pivotal in PTC because all of them were differentially expressed by at least twofold and played roles in cancer signaling pathways. The regulatory network is represented in Figure 2.

Bottom Line: Among them, CCNE2, COL4A1, TRAF6, and HSP90B1 were newly identified.Based on receiver operating characteristic curves, several miRNAs (miR-222, miR-221, and miR-34a) and genes (CCND1 and MET) were ideal diagnostic indicators, with sensitivities and specificities greater than 90%.In a clinical feature analysis, several miRNAs (miR-34a, miR-424, miR-20b, and miR-152) and genes (CCNE2, COL4A1, TRAF6, and HSP90B1) were associated with aggressive clinical features, which have not previously been reported.

View Article: PubMed Central - PubMed

Affiliation: Jilin Provincial Key Laboratory of Surgical Translational Medicine, Department of Thyroid and Parathyroid Surgery, People's Republic of China-Japan Union Hospital, Jilin University, Changchun, Jilin, People's Republic of China.

ABSTRACT
In the present study, we analyzed microRNA (miRNA) and gene expression profiles using 499 papillary thyroid carcinoma (PTC) samples and 58 normal thyroid tissues obtained from The Cancer Genome Atlas database. A pivotal regulatory network of 18 miRNA and 16 targets was identified. Upregulated miRNAs (miR-222, miR-221, miR-146b, miR-181a/b/d, miR-34a, and miR-424) and downregulated miRNAs (miR-9-1, miR-138, miR-363, miR-20b, miR-195, and miR-152) were identified. Among them, the upregulation of miR-424 and downregulation of miR-363, miR-195, and miR-152 were not previously identified. The genes CCNE2 (also known as cyclin E2), E2F1, RARA, CCND1 (cyclin D1), RUNX1, ITGA2, MET, CDKN1A (p21), and COL4A1 were overexpressed, and AXIN2, TRAF6, BCL2, RARB, HSP90B1, FGF7, and PDGFRA were downregulated. Among them, CCNE2, COL4A1, TRAF6, and HSP90B1 were newly identified. Based on receiver operating characteristic curves, several miRNAs (miR-222, miR-221, and miR-34a) and genes (CCND1 and MET) were ideal diagnostic indicators, with sensitivities and specificities greater than 90%. The combination of inversely expressed miRNAs and targets improved diagnostic accuracy. In a clinical feature analysis, several miRNAs (miR-34a, miR-424, miR-20b, and miR-152) and genes (CCNE2, COL4A1, TRAF6, and HSP90B1) were associated with aggressive clinical features, which have not previously been reported. Our study not only identified a pivotal miRNA regulatory network associated with PTC but also provided evidence that miRNAs and target genes can be used as biomarkers in PTC diagnosis and clinical risk evaluation.

No MeSH data available.


Related in: MedlinePlus