human circrna array v2 (8 × 15 k)  (Arraystar inc)

Journal: Journal of Experimental & Clinical Cancer Research : CR

Article Title: Circadian gene ARNTL initiates circGUCY1A2 transcription to suppress non-small cell lung cancer progression via miR-200c-3p/PTEN signaling

doi: 10.1186/s13046-023-02791-1

Figure Lengend Snippet: circRNA expression profile in NSCLC. A The scatter plot was used for assessing the variation in circRNA expression between tumor and paratumor samples. The values of x and y axes in the scatter plot were the normalized signal values of the samples (log2 scaled). B The volcano plot was constructed using fold-change values and P -values. The red dots represent differentially expressed circRNAs with statistically significant more than 2-fold changes. C The cluster heat map showed the differentially expressed circRNAs over 2-fold change. Red color indicates high expression level, and green color indicates low expression level. D Numbers of identified circRNAs in different chromosomes. E Expression of the top 10 downregulated circRNAs in tissues. F circGUCY1A2 expressions were evaluated using qRT-PCR in 120 pairs of NSCLC tissues and the matched adjacent normal tissues. G Kaplan-Meier survival curve indicated the high circGUCY1A2 expression is correlated with low survival rates. Data were represented as the mean ± SEM of three independent experiments. H The location of circRNA in chromatin, and its loop-forming site status I Total RNA extracted from the negative control or circGUCY1A2- transfected A549 and H1703 cells was incubated with or without RNAse R followed by real-time PCR. RNAse R treatment did not affect circGUCY1A2 levels but decreased linear GUCY1A2 mRNA levels. Ns: no significance, * P < 0.05, ** P < 0.01, *** P < 0.001. Error bars indicate the S.E.M

Article Snippet: Subsequently, the labeled cRNAs were hybridized onto the Arraystar Human circRNA Arrays (8 × 15 K, Arraystar), and incubated for 17 h at 65 °C in an Agilent Hybridization Oven.

Techniques: Expressing, Construct, Quantitative RT-PCR, Negative Control, Transfection, Incubation, Real-time Polymerase Chain Reaction

Journal: Translational Pediatrics

Article Title: Bioinformatic analysis of dysregulated circular RNAs in pediatric pulmonary hypertension linked congenital heart disease

doi: 10.21037/tp-22-117

Figure Lengend Snippet: Plasma circRNAs expression profiles in PAH and control samples. (A) Hierarchical-cluster map. The red and green shading respectively represents high and low expression levels. (B) Volcano map. The X-axis is denoted by log2 (fold change) and Y-axis is denoted by −log10 (P value). The green vertical lines represent a 1.5-fold change upregulation or downregulation and the green horizontal line represents a P value of 0.05. Differential expression of circRNAs that were statistically significant are represented by red squares in the plot. circRNA, circular RNA; PAH, pulmonary artery hypertension; CHD, congenital heart disease.

Article Snippet: The labeled cRNAs were hybridized to the Human circRNA Array (8×15 K, Arraystar) and array pictures were then scanned and analyzed using the Agilent software package.

Techniques: Clinical Proteomics, Expressing, Control, Quantitative Proteomics

Journal: Translational Pediatrics

Article Title: Bioinformatic analysis of dysregulated circular RNAs in pediatric pulmonary hypertension linked congenital heart disease

doi: 10.21037/tp-22-117

Figure Lengend Snippet: Relative expression levels of five differentially expressed circRNAs. (A) hsa_circ_005372 gene. (B) hsa_circ_101465 gene. (C) hsa_circ_010921 gene. (D) hsa_circ_003416 gene. (E) hsa_circ_008882 gene. The horizontal bars in the scatter chart represent the median expression values. circRNA, circular RNA, CHD, congenital heart disease; PAH, pulmonary artery hypertension.

Article Snippet: The labeled cRNAs were hybridized to the Human circRNA Array (8×15 K, Arraystar) and array pictures were then scanned and analyzed using the Agilent software package.

Techniques: Expressing

Journal: Translational Pediatrics

Article Title: Bioinformatic analysis of dysregulated circular RNAs in pediatric pulmonary hypertension linked congenital heart disease

doi: 10.21037/tp-22-117

Figure Lengend Snippet: Detailed interaction information between hsa_circRNA_005372 (A), hsa_circRNA_003416 (B), and their matching miRNAs. Two-dimensional structures are shown for the MRE sequence, pairing with target-miRNA nucleotides 13–16, and the target miRNA seed type (8mer, 7mer-m8 or imperfect). The exact nucleotide positions are shown in the alignments in the upper left and right corners. The “local AU” refers to the 30 nucleotides downstream and upstream of the seed sequence. A/U and G/C was stand for red and black bars, which represent seed regions with high and low accessibility, respectively. The extent of accessibility was represented by height of each bar. The position column displays the closer to the sides, the better. circRNA, circular RNA; MRE, miRNA-response element.

Article Snippet: The labeled cRNAs were hybridized to the Human circRNA Array (8×15 K, Arraystar) and array pictures were then scanned and analyzed using the Agilent software package.

Techniques: Sequencing

Journal: Translational Pediatrics

Article Title: Bioinformatic analysis of dysregulated circular RNAs in pediatric pulmonary hypertension linked congenital heart disease

doi: 10.21037/tp-22-117

Figure Lengend Snippet: circRNA–miRNA–mRNA construction network. The regulative network contained hsa_circ_005372 and hsa_circ_003416, along with 48 downstream miRNAs and target mRNAs. Brown, red, and light-blue nodes respectively represent are circRNAs, miRNAs, and protein-coding RNAs, and an edge with a T-shaped arrow indicates a directed relationship. Edges without arrows represent undirected relationships (ceRNA relationships). circRNA, circular RNA; miRNA, microRNA; mRNA, messenger RNA; ceRNA, competitive endogenous RNA.

Article Snippet: The labeled cRNAs were hybridized to the Human circRNA Array (8×15 K, Arraystar) and array pictures were then scanned and analyzed using the Agilent software package.

Techniques: