Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: Morphological changes, and related protein and differential miRNA expression in BEAS-2B cells after irradiation. A. Cell morphology was observed from E- to M-phenotype at 0 h, 6 h and 48 h after irradiation. B. Changes in EMT-associated marker proteins after irradiation, E-cadherin decreased, and N-cadherin, Vimentin, α-SMA, and Twist increased. C. Differences between different groups (between samples) of miRNAs are shown in a histogram. The horizontal axis is the comparison group; the vertical axis the number of differential miRNAs in the comparison group, where Up is a significant difference in the up-regulation of the number of miRNAs, and Down is a significant difference in the down-regulation of the number of miRNAs. D. The differences generated by the comparison are reflected in the volcano map, gray is the non-differentiated miRNA, red is the up-regulated differential miRNA, and green is the significantly down-regulated difference miRNA. The X-axis is the display of log2 Fold Change, and the Y-axis is the display of -log10 P-value. This displays the overall distribution of differentially expressed miRNAs.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: Expressing, Irradiation, Marker, Comparison, Generated

Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: RT-PCR confirmation of differentially expressed miRNAs. A. RT-PCR confirmed that the miRNAs with obvious changes at 6 h and 48 h were consistent with the sequencing results. B. RT-PCR confirmed that the miRNAs with obvious changes at 6 h were consistent with the sequencing results. C. RT-PCR confirmed that the miRNAs with obvious changes at 48 h were consistent with the sequencing results. Note: The data represent the mean ± SEM (n = 3), compared with the same group of 0 h group * P < 0.05.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: Reverse Transcription Polymerase Chain Reaction, Sequencing

Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: Hierarchical cluster analysis of BEAS-2B cells at different times after irradiation. A. Stratified cluster analysis of miRNAs with different differences between unirradiated cells and cells 6 h after irradiation. B. Stratified cluster analysis of miRNAs with different differences between unirradiated cells and cells 48 h after irradiation. C. miRNA hierarchical cluster analysis between cells 48 h and 6 h after irradiation.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: Irradiation

Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: Go enrichment analysis of the target genes of differentially expressed miRNAs A. The intersection of target genes of differentially expressed significantly miRNAs at 48 h-vs-6 h, 6 h-vs-0 h, 48 h-vs-0 h. B. GO enrichment analysis. Bar graphs at 6 h-vs-0 h and 48 h-vs-0 h top10 (screening the top 10 GO entries in the three categories). The Fisher's algorithm was used to perform CC (cell component), BP (biological process), and MF (molecular function) enrichment analysis on the target genes predicted by differential expressed miRNAs in each comparison group, with the enriched term obtained using top GO. Draw a directed acyclic graph. C. 6 h-vs-0 h BP. D. 6 h-vs-0 h CC. E. 6 h-vs-0 h MF. F. 48 h-vs-0 h BP. G. 48 h-vs-0 h CC. H. 48 h-vs-0 h MF. I. Differences in miRNA target genes and all genes at the GO Level2 level distribution map. Blue indicates all gene-enriched GO Level2 entries, red indicates GO Level 2 entries for differential miRNA target gene enrichment, horizontal axis is the item name, and vertical axis indicates the number of genes and their percentages for the corresponding entries.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: Comparison

Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: KEGG enrichment analysis of the target genes of differentially expressed miRNAs. A. KEGG enrichment analysis top20 (sorted by -log10Pvalue for each entry) bubble map. Each dot corresponds to a path. The color is red, orange, yellow, green, blue, and purple. The p-value is sorted from small to large. The smaller the p-value, the more the color tends to red. The larger the dot, the greater the number of genes in this pathway. B. Comparison of miRNA target genes and all genes KEGG Level2 horizontal distribution. The horizontal axis is the difference between the miRNA target gene and the total number and ratio (%) of all genes annotated in the KEGG pathway, the vertical axis represents the name of the Level 2 pathway, and the number on the right side of the column represents the number of genes annotated to the Level 2 pathway.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: Comparison

Journal: Science Progress

Article Title: Comprehensive high-throughput sequencing analysis and verification of miRNAs isolated from bronchial epithelial cells undergoing radiation-induced epithelial-mesenchymal transition

doi: 10.1177/00368504251362376

Figure Lengend Snippet: Putative TFs for upregulated and downregulated miRNAs. A. Putative TFs for upregulated 48 h-vs-0 h miRNAs. B. Putative TFs for downregulated 6 h-vs-0 h miRNAs. C. Putative TFs for downregulated 48 h-vs-0 h miRNAs. D. Putative TFs for downregulated 48 h-vs-6 h co-expressed miRNAs. The depth of lines color with p -value. TFs, transcription factors.

Article Snippet: RNA was reverse transcribed into cDNA using the miRcute enhanced miRNA cDNA first strand synthesis kit (Tiangen Biotechnology; China; DP424) according to manufacturer's instructions.

Techniques: