human circrna array v2 chip  (Arraystar inc)

Journal: Molecular Therapy. Nucleic Acids

Article Title: The circular RNA Ataxia Telangiectasia Mutated regulates oxidative stress in smooth muscle cells in expanding abdominal aortic aneurysms

doi: 10.1016/j.omtn.2023.08.017

Figure Lengend Snippet: Circular RNAs are deregulated in human abdominal aortic aneurysm (A) Volcano plot depicting downregulated (51, blue) and upregulated (40, red). Circular RNAs (circRNAs) in human elective human abdominal aortic aneurysm (eAAA, n = 11) vs . control (CTRL, n = 6) aorta specimens, as resulted by array experiments. Log2 fold change and -log10 p value are plotted on the x and y axes, respectively. IDs of circRNAs meant for a first round of validation are highlighted. Statistics: unpaired t test; p values <0.05 are considered significant. (B) Pie chart illustrating the proportion of exonic (89.8%), intronic (5.7%), sense overlapping (3.4%), and antisense (1.1%) array-identified differentially expressed circRNAs. Absolute numbers are further indicated for each group. (C) Real-time quantitative PCR (qPCR) validation of hsa_circ_0005660 (c NFIX ), hsa_circ_0003641 (c ATM ), hsa_circ0042103 (c MYOCD ), hsa_circ003218 (c BMPR2 ), hsa_circ0004771 (c NRIP1 ), and hsa_circ0005615 (c NFATC3 ) differential expression in human eAAA (N = 8) and CTRL (N = 4) aortas. 2 –ddCT was calculated by normalizing on RPLPO . Data are represented as mean ± SEM. Statistics: unpaired t test; p values <0.05 are considered significant. NS, not significant; eAAA, elective AAA.

Article Snippet: The resulting labeled cDNA was then purified and 1 μg was fragmented, heated, and subsequently hybridized with an 8 × 15k commercially available array chip displaying 13,617 human circRNAs (Arraystar, no. AS-S-CR-H-V2.0) for 17 h at 65°C in an Agilent Hybridization Oven.

Techniques: Control, Biomarker Discovery, Real-time Polymerase Chain Reaction, Quantitative Proteomics

Journal: Frontiers in Genetics

Article Title: Expression Profile and Potential Function of Circular RNAs in Peripheral Blood Mononuclear Cells in Male Patients With Primary Gout

doi: 10.3389/fgene.2021.728091

Figure Lengend Snippet: Primer sequences used in the validation of circRNAs.

Article Snippet: We used the Arraystar Human circRNA Array v2 chip (8 × 15 K) (Arraystar, Rockville, MD, United States), which contains 13,617 human circRNA probes.

Techniques: Biomarker Discovery, Sequencing

Journal: Frontiers in Genetics

Article Title: Expression Profile and Potential Function of Circular RNAs in Peripheral Blood Mononuclear Cells in Male Patients With Primary Gout

doi: 10.3389/fgene.2021.728091

Figure Lengend Snippet: The top 15 upregulated and 15 downregulated circRNAs in gout patients compared with healthy control subjects.

Article Snippet: We used the Arraystar Human circRNA Array v2 chip (8 × 15 K) (Arraystar, Rockville, MD, United States), which contains 13,617 human circRNA probes.

Techniques: Control

Journal: Frontiers in Genetics

Article Title: Expression Profile and Potential Function of Circular RNAs in Peripheral Blood Mononuclear Cells in Male Patients With Primary Gout

doi: 10.3389/fgene.2021.728091

Figure Lengend Snippet: Expression profiles of circRNAs in gout patients compared with healthy controls. (A) Scatter plot demonstrating the heterogeneity of the expression of circRNAs in the gout and HC groups. The values of the X and Y axes represent the averaged normalized signal values of the groups (log2-scaled). The green line represents 1.5-fold changes. The expression of circRNAs above the top green line and below the bottom green line indicates changes by > 2-fold between the two groups. (B) Volcano plots visualizing differentially expressed circRNAs between the two groups. The vertical lines correspond to 1.5-fold up- and downregulated circRNA expression. The horizontal line represents a p -value of 0.05. The red point in the plot represents significantly differentially expressed circRNAs. (C) Clustered heatmap showing the relationships among the expression levels of samples. Expression values are represented by the color scale. The intensity increases from green (relatively low expression) to red (relatively high expression). Each column represents one sample, and each row represents a single circRNA. (D) Genomic region distribution of upregulated circRNAs. (E) Genomic region distribution of downregulated circRNAs. (F) Distribution of significantly dysregulated circRNAs in chromosomes. (G) Relative expression levels of the six circRNAs in five gout patients and three healthy control (HC) subjects. The Y-axis represents the ratio of the relative expression level of circRNAs in the gout group to that of the HC group. Gout: primary gout; HC: healthy controls.

Article Snippet: We used the Arraystar Human circRNA Array v2 chip (8 × 15 K) (Arraystar, Rockville, MD, United States), which contains 13,617 human circRNA probes.

Techniques: Expressing, Control

Journal: Frontiers in Genetics

Article Title: Expression Profile and Potential Function of Circular RNAs in Peripheral Blood Mononuclear Cells in Male Patients With Primary Gout

doi: 10.3389/fgene.2021.728091

Figure Lengend Snippet: Prediction and annotation of hsa_circRNA_103657 and hsa_circRNA_000241 ceRNA mechanism. (A) Construction of the circRNA-miRNA-mRNA network: the network of ceRNA includes 2 circRNAs, 10 miRNAs, and 525 mRNAs. (B) Schematic diagram of the gene category of the PI3K-Akt signaling pathway, which is the top enriched term in the KEGG pathway analysis. Image from the Kyoto Encyclopedia of Genes and Genomes (KEGG) resource ( http://www.genome.jp/kegg/ ).

Article Snippet: We used the Arraystar Human circRNA Array v2 chip (8 × 15 K) (Arraystar, Rockville, MD, United States), which contains 13,617 human circRNA probes.

Techniques:

Journal: Frontiers in Genetics

Article Title: Expression Profile and Potential Function of Circular RNAs in Peripheral Blood Mononuclear Cells in Male Patients With Primary Gout

doi: 10.3389/fgene.2021.728091

Figure Lengend Snippet: Clinical significance of hsa_circRNA_103657 and hsa_circRNA_000241 in primary gout (A,B,C,D) Correlations between the expression levels of circRNAs (hsa_circRNA_103657 and hsa_circRNA_000241) and laboratory data of gout, analyzed using Spearman’s coefficient. (E, F) Receiver operating characteristic (ROC) curve for the analysis of the diagnostic value of hsa_circRNA_103657 and hsa_circRNA_000241 for primary gout. AUC: area under the curve.

Article Snippet: We used the Arraystar Human circRNA Array v2 chip (8 × 15 K) (Arraystar, Rockville, MD, United States), which contains 13,617 human circRNA probes.

Techniques: Expressing, Diagnostic Assay