Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: Previously characterized miRNA target interactions in TNBC.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques:

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: Identification of DEmiRs and DEGs. ( A ) Volcano plot of miRNA differential expression in TNBC samples; ( B ) volcano plot of mRNA differential expression in TNBC samples; ( C ) heatmap of miRNA differential expression between TNBC samples and normal samples; ( D ) heatmap of mRNA differential expression between TNBC samples and normal samples; ( E ) GO functional enrichment for differentially expressed mRNAs. Left: bar chart of top 10 GO biological processes analysis; right: bar chart of GO molecular functions analysis.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Quantitative Proteomics, Functional Assay

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: Identification of prognosis-related miRNAs in TNBC. ( A ) A univariate Cox regression analysis was performed to identify key clinical features that affected survival outcomes, the green squares represent significant clinical features, while the black square indicates non-significant features; ( B ) a random forest algorithm was performed to identify key clinical features associated with survival outcomes; ( C ) Venn plot showing TCGA-, HubmiR-, and random forest combination-selected miRNAs; ( D ) performance comparison of different miRNA subsets in terms of median accuracy and median AUC among two machine-learning algorithms.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Comparison

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: ( A ) Expression profile of selected miRNAs and mRNAs in TNBC data. The box plots show the expression values for normal versus disease samples. Statistical significance is indicated as follows: *** for p -value < 0.0001, **** for p -value < 0.00001, and ***** for p -value < 0.000001; ( B ) the miRNA–mRNA regulatory network in TNBC and a network diagram of individual target gene functions.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Expressing

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: Relative expression of target genes in MDA-MB-231 cells following miRNA inhibitor transfection. Bar graphs represent the relative expression levels of target genes in cells transfected with miRNA inhibitors compared to negative control. Statistical significance is indicated as follows: * for p -value < 0.05 and ** for p -value < 0.001.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Expressing, Transfection, Negative Control

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: Performance evaluation and validation of the MTI-based prognostic model in TNBC. ( A ) ROC curves comparing the predictive performance of three approaches: 10 MTI correlations, 10 MTI associated gene expression, and 4-miRNA signatures; ( B ) distribution of risk score and overall survival status of the patients based on the risk score in TCGA cohorts. The vertical gray dashed line on the x-axis denotes the risk score cutoff value, and the horizontal gray dashed line on the y-axis indicates the corresponding rank value of the cutoff; ( C ) Kaplan–Meier survival curves for high- and low-risk groups in the TCGA_TNBC cohort; ( D ) distribution of risk score and overall survival status of the patients based on the risk score in GSE19783 cohorts. The vertical gray dashed line on the x-axis denotes the risk score cutoff value, and the horizontal gray dashed line on the y-axis indicates the corresponding rank value of the cutoff; ( E ) Kaplan–Meier survival curves for high- and low-risk groups in the GSE19783 validation cohort; ( F ) ROC curve of the 10 MTI correlation-based model in the GSE19783 dataset.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Biomarker Discovery, Gene Expression

Journal: International Journal of Molecular Sciences

Article Title: Unveiling Novel miRNA–mRNA Interactions and Their Prognostic Roles in Triple-Negative Breast Cancer: Insights into miR-210, miR-183, miR-21, and miR-181b

doi: 10.3390/ijms26051916

Figure Lengend Snippet: The TF–miRNA–mRNA regulatory network of TNBC. ( A ) A global network of TF–miRNA–mRNA interactions. The edge types are represented as follows: a red line with an inhibition arrow indicates that the miRNA represses the target mRNA, while a gray line with an arrow represents TF regulation on genes, without a specific indication of activation or repression. The nodes are classified into three types: red for miRNAs, blue for mRNAs, and green for TFs; ( B ) eight different types of four-node regulatory motifs. Red circles the motif with coherent FFL; ( C ) KEGG analysis of TFs belonging to coherent FFL. Red circles the most enriched KEGG pathway; ( D ) the coherent FFL motif subnetwork of the most enriched KEGG pathway; ( E ) the functional annotation of TFs in the most enriched KEGG pathway.

Article Snippet: After concentration and purity measurement, SuperScriptIII Reverse Transcriptase (Invitrogen, Shanghai, China) and miRcute Plus miRNA first-stand cDNA kit (TIANGEN, Beijing, China) were used to generate first-strand cDNA for mRNA.

Techniques: Inhibition, Activation Assay, Functional Assay