Journal: Molecular Medicine Reports

Article Title: Construction and analysis of circular RNA molecular regulatory networks in clear cell renal cell carcinoma

doi: 10.3892/mmr.2019.10811

Figure Lengend Snippet: Differential expression analysis of microarray GSE100186. (A) Heatmap of GSE100186, in the heatmap, the green color represents low expression while the red color represents high expression. (B) Volcano plot of GSE100186. Compared with the normal group, red represents upregulated genes in the cancer group, whereas blue represents downregulated genes in the cancer group. NOT represents no change in the differential expression analysis.

Article Snippet: Arraystar circRNA microarray ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21825 ) analysis was used to examine the expression of circRNAs in CCRCC and matched non-tumor tissues. mRNA expression and miRNA profiling of TCGA CCRCC data was performed to identify differentially expressed genes (DEGs) and differentially expressed miRNAs (DEMs) between cancer and normal tissues.

Techniques: Expressing, Microarray

Journal: Molecular Medicine Reports

Article Title: Construction and analysis of circular RNA molecular regulatory networks in clear cell renal cell carcinoma

doi: 10.3892/mmr.2019.10811

Figure Lengend Snippet: Enrichment analysis of the circRNA-miRNA-up-regulated mRNA network. (A) Regulatory network of hub circRNAs. Arrowheads represent circRNAs, diamonds represent miRNAs and circles represent genes. (B) Dotplot of GO and KEGG enrichment analyses. circRNA, circular RNA; GO, Gene Ontology; KEGG, Kyoto Encyclopedia of Genes and Genomes; miRNA, microRNA.

Article Snippet: Arraystar circRNA microarray ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21825 ) analysis was used to examine the expression of circRNAs in CCRCC and matched non-tumor tissues. mRNA expression and miRNA profiling of TCGA CCRCC data was performed to identify differentially expressed genes (DEGs) and differentially expressed miRNAs (DEMs) between cancer and normal tissues.

Techniques:

Journal: Molecular Medicine Reports

Article Title: Construction and analysis of circular RNA molecular regulatory networks in clear cell renal cell carcinoma

doi: 10.3892/mmr.2019.10811

Figure Lengend Snippet: Top five GO terms and KEGG pathways enriched in the circRNA-miRNA-upregulated mRNA network.

Article Snippet: Arraystar circRNA microarray ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21825 ) analysis was used to examine the expression of circRNAs in CCRCC and matched non-tumor tissues. mRNA expression and miRNA profiling of TCGA CCRCC data was performed to identify differentially expressed genes (DEGs) and differentially expressed miRNAs (DEMs) between cancer and normal tissues.

Techniques: Activity Assay, Binding Assay

Journal: Molecular Medicine Reports

Article Title: Construction and analysis of circular RNA molecular regulatory networks in clear cell renal cell carcinoma

doi: 10.3892/mmr.2019.10811

Figure Lengend Snippet: Enrichment analysis of the circRNA-miRNA-downregulated mRNA network. (A) Regulatory network of hub circRNAs. Arrowheads represent circRNAs, diamonds represent miRNAs and circles represent genes. (B) Top 5 GO terms and (C) top 5 KEGG pathways, as determined by enrichment analysis. circRNA, circular RNA; GO, Gene Ontology; KEGG, Kyoto Encyclopedia of Genes and Genomes; miRNA, microRNA.

Article Snippet: Arraystar circRNA microarray ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21825 ) analysis was used to examine the expression of circRNAs in CCRCC and matched non-tumor tissues. mRNA expression and miRNA profiling of TCGA CCRCC data was performed to identify differentially expressed genes (DEGs) and differentially expressed miRNAs (DEMs) between cancer and normal tissues.

Techniques:

Journal: Molecular Medicine Reports

Article Title: Construction and analysis of circular RNA molecular regulatory networks in clear cell renal cell carcinoma

doi: 10.3892/mmr.2019.10811

Figure Lengend Snippet: Top five GO terms and KEGG pathways enriched in the circRNA-miRNA-downregulated mRNA network.

Article Snippet: Arraystar circRNA microarray ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21825 ) analysis was used to examine the expression of circRNAs in CCRCC and matched non-tumor tissues. mRNA expression and miRNA profiling of TCGA CCRCC data was performed to identify differentially expressed genes (DEGs) and differentially expressed miRNAs (DEMs) between cancer and normal tissues.

Techniques: Activity Assay

Journal: Cell Death & Disease

Article Title: Angiotensin II inhibits apoptosis of mouse aortic smooth muscle cells through regulating the circNRG-1/miR-193b-5p/NRG-1 axis

doi: 10.1038/s41419-019-1590-5

Figure Lengend Snippet: a Scatter plots were used to evaluate the difference in the expression of circRNAs between Ang II and control groups. The values plotted on X and Y axes are the averaged normalized signal values of each group (log2 scaled). The circRNAs above the top green line and below the bottom green line indicate >1.5-fold change between the two groups. b Hierarchical clustering analysis showed the differentially expressed circRNAs over 2.0-fold change. Red color indicates high expression level, and blue color indicates low expression level. c Divergent and convergent primers were used to verify whether circNRG-1 was a circRNA. Convergent primers were used to detect NRG-1 mRNA. Divergent primers amplified circNRG-1 in cDNA but not gDNA. GAPDH served as linear control and size marker in base pairs. d Sanger sequencing confirmed head-to-tail junction of circNRG-1. e RNA fluorescence in situ hybridization for circNRG-1 was detected. Nuclei were stained with DAPI. Scale bars = 50 μm. f qRT-PCR detected circNRG-1 expression in MASMCs treated with Ang II (10 −7 M) for the different times. Data represent the means ± SEM of three independent experiments. * P < 0.05, *** P < 0.001 vs . Ang II for 0 h

Article Snippet: Circular RNA expression profiling was performed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, USA).

Techniques: Expressing, Control, Amplification, Marker, Sequencing, Fluorescence, In Situ Hybridization, Staining, Quantitative RT-PCR

Journal: Cell Death & Disease

Article Title: Angiotensin II inhibits apoptosis of mouse aortic smooth muscle cells through regulating the circNRG-1/miR-193b-5p/NRG-1 axis

doi: 10.1038/s41419-019-1590-5

Figure Lengend Snippet: The orange, purple and green nodes represent circRNA, miRNA and mRNA respectively. Markers highlighting staining showed circNRG-1-miR-193b-5p-NRG-1 interactions

Article Snippet: Circular RNA expression profiling was performed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, USA).

Techniques: Staining

Journal: Cell Death & Disease

Article Title: Circ ERCC2 ameliorated intervertebral disc degeneration by regulating mitophagy and apoptosis through miR-182-5p/SIRT1 axis

doi: 10.1038/s41419-019-1978-2

Figure Lengend Snippet: a Volcano plots showed differential expression of circRNAs detected by circRNA microarray in IVDD compared with the control. b Volcano plots showed differential expression of circRNAs in GSE67566. c The 9 downregulated circRNAs in IVDD were identified based on the overlap of circRNA microarray and GSE67566. d Heatmap of 9 circRNAs in circRNA microarray and heatmap of 9 circRNAs in GSE67566. e qRT-PCR analysis confirmed the downregulation of circRNAs in IVDD compared with control. * p < 0.05. f circ ERCC2 is transcribed from 13, 14, and 15 exons of the ERCC2 gene. The expression of circ ERCC2 was lower in NP tissues from IVDD compared with the control detected by FISH. g FISH detection of circ ERCC2 in the cytoplasm of NPCs. In ( f ) and ( g ), blue fluorescence indicated the nucleus and green fluorescence indicated circ ERCC2. Scale bar: 20 μm. h Representative plots of apoptosis detected by flow cytometry. circ ERCC2 inhibited the rate of apoptosis of NPCs. * p < 0.05, ** p < 0.01. i NPCs were treated by TBHP or/and circ ERCC2, and mitophagy and apoptosis related proteins were detected by Western blot analysis

Article Snippet: Identification of differentially expressed circRNAs was performed by overlapping microarray analysis of human circRNAs (Arraystar, CA, USA) and microarray dataset (GSE67566) obtained from Gene Expression Omnibus (GEO) database.

Techniques: Quantitative Proteomics, Microarray, Control, Quantitative RT-PCR, Expressing, Fluorescence, Flow Cytometry, Western Blot

Journal: Medicine

Article Title: Comprehensive Circular RNA Profiling Reveals That hsa_circ_0005075, a New Circular RNA Biomarker, Is Involved in Hepatocellular Crcinoma Development

doi: 10.1097/MD.0000000000003811

Figure Lengend Snippet: Differentially expressed circRNAs between HCC tissues and adjacent nontumorous tissues. The result from unsupervised hierarchical clustering analysis shows distinguishable circRNA expression profiling among samples (H for HCC and N for normal adjacent nontumorous tissues). Each column represents the expression profile of a tissue sample, and each row corresponds to a circRNA. “Red” indicates higher expression level, and “green” indicates lower expression level. HCC = hepatocellular carcinoma.

Article Snippet: And then, the microarray analysis of circRNAs was conducted according to the manufacturer's protocol (Arraystar, Rockville, MD).

Techniques: Expressing

Journal: Medicine

Article Title: Comprehensive Circular RNA Profiling Reveals That hsa_circ_0005075, a New Circular RNA Biomarker, Is Involved in Hepatocellular Crcinoma Development

doi: 10.1097/MD.0000000000003811

Figure Lengend Snippet: The expression levels of candidate circRNAs for validation in HCC tissue and adjacent liver tissue samples. A, Hsa_circ_0005075, hsa_circ_0000520, and hsa_circ_0066444 expression levels were examined in 60 paired tissue samples by qRT-PCR; only hsa_circ_0005075 was significantly differentially expressed between the 2 groups ( P < 0 .001). B, The expression levels of hsa_circ_0005075 in each patient with comparison between cancer (HCC) and adjacent normal tissues (n = 30). C, The expression levels of hsa_circ_0005075 in the HCC group are significantly higher than those in corresponding nontumorous tissues ( P < 0 .001).

Article Snippet: And then, the microarray analysis of circRNAs was conducted according to the manufacturer's protocol (Arraystar, Rockville, MD).

Techniques: Expressing, Biomarker Discovery, Quantitative RT-PCR, Comparison