human circrna array v2.0  (Arraystar inc)

Journal: OncoTargets and Therapy

Article Title: Comprehensive Analysis Identifies Hsa_circ_0058191 as a Potential Drug Resistance Target in Multiple Myeloma

doi: 10.2147/OTT.S505074

Figure Lengend Snippet: Screening and validation of abnormally expressed circRNAs in multiple myeloma. ( a ) A volcanic map showing 360 up-regulated and 438 down-regulated differentially expressed circRNAs in the circRNA microarray determined based on (|log2fold change|> 1.5, p < 0.05) as selection thresholds. ( b ) The clustering heatmap indicating that the bortezomib-resistant samples were clustered together, effectively separating them from healthy donor samples. ( c ) The genome map displaying the distribution of circRNAs across different chromosomes, where each horizontal line represents a chromosome, and the red dots above the line indicate the number of circRNAs on that chromosome. ( d ) The Venn diagram illustrates the intersecting genes of differentially expressed circRNAs in Multiple Myeloma from the microarray, GSE208782, and GSE133058 datasets. ( e ) The model diagram of hsa_circ_0058191. Sanger sequencing illustrating the junction point of hsa_circ_0058191. ( f ) The qRT-PCR results showing that hsa_circ_0058191 was significantly upregulated in the bortezomib-resistant group compared to the bortezomib-sensitive MM patients.

Article Snippet: Using the Arraystar Human circRNA Array (V2.0) and Agilent Feature Extraction software (version 11.0.1.1), we performed a comprehensive array analysis on whole blood samples from five bortezomib-resistant patients and healthy donors.

Techniques: Biomarker Discovery, Microarray, Selection, Sequencing, Quantitative RT-PCR

Journal: Iranian Journal of Biotechnology

Article Title: Research on Circular RNA Expression Profiles in the Photoaging Mouse Model

doi: 10.30498/ijb.2023.351439.3445

Figure Lengend Snippet: Differentially expressed circRNAs in the UV group and control group. A) The box plot shows the variations in circRNA expression. B) The scatter plot and the volcano plot. C) Illustrate the distributions of the data in the circRNA profiles (FC>1.5; P<0.05). D) The result from hierarchical clustering shows a distinguishable circRNA expression profiling among samples. The heat map shows the differentially expressed circRNAs in samples. Each group consists of three samples. T, UVA+UVB treated group; N, Control group; circRNA, circular RNA; FC, fold change.

Article Snippet: The labeled cRNA was hybridized with Arraystar Mouse circRNA Arrays V2.0 (8X15K; Arraystar, Inc.USA) and incubated in an Agilent hybridization oven (Agilent Technologies, Inc.USA) at 65 °C for 17 hours.

Techniques: Control, Expressing

Journal: Iranian Journal of Biotechnology

Article Title: Research on Circular RNA Expression Profiles in the Photoaging Mouse Model

doi: 10.30498/ijb.2023.351439.3445

Figure Lengend Snippet: CircRNAs are differentially expressed following UVA and UVB treatment.

Article Snippet: The labeled cRNA was hybridized with Arraystar Mouse circRNA Arrays V2.0 (8X15K; Arraystar, Inc.USA) and incubated in an Agilent hybridization oven (Agilent Technologies, Inc.USA) at 65 °C for 17 hours.

Techniques:

Journal: Journal of Diabetes

Article Title: CircMAP3K5 promotes cardiomyocyte apoptosis in diabetic cardiomyopathy by regulating miR ‐22‐3p/ DAPK2 Axis

doi: 10.1111/1753-0407.13471

Figure Lengend Snippet: Differential expression of circRNA by A, scatter plot, B, volcanic map, and C, cluster analysis in normal group and diabetic cardiomyopathy (DCM) group. circRNA, circular RNA.

Article Snippet: These circRNAs were amplified and transcribed into fluorescent cRNA using a random primer method (Arraystar Super RNA Labeling Kit; Arraystar). labeled cRNAs that were hybridized to Arraystar Rat circRNA Array V2.0 (8 × 15 K) with a total of 14 145 circRNA probes on the chip.

Techniques: Expressing

Journal: Journal of Diabetes

Article Title: CircMAP3K5 promotes cardiomyocyte apoptosis in diabetic cardiomyopathy by regulating miR ‐22‐3p/ DAPK2 Axis

doi: 10.1111/1753-0407.13471

Figure Lengend Snippet: Depletion of circRNA Mitogen‐activated protein kinase kinase kinase 5 (circMAP3K5) attenuates cardiomyocyte apoptosis in a diabetic cardiomyopathy (DCM) cell model. A, quantitative real‐time polymerase chain reaction results show expression levels of circMAP3K5 in samples of DCM ( n = 3) and control ( n = 3) cells. B, Western blots showing expression levels of Bcl‐2, Bax, and cleaved caspase‐3 proteins in the samples. C, Flow cytometry results depict the rate of apoptosis. Statistically significant difference: * p < .05 ( n = 3). circRNA, circular RNA; HG, high glucose.

Article Snippet: These circRNAs were amplified and transcribed into fluorescent cRNA using a random primer method (Arraystar Super RNA Labeling Kit; Arraystar). labeled cRNAs that were hybridized to Arraystar Rat circRNA Array V2.0 (8 × 15 K) with a total of 14 145 circRNA probes on the chip.

Techniques: Real-time Polymerase Chain Reaction, Expressing, Western Blot, Flow Cytometry

Journal: Journal of Diabetes

Article Title: CircMAP3K5 promotes cardiomyocyte apoptosis in diabetic cardiomyopathy by regulating miR ‐22‐3p/ DAPK2 Axis

doi: 10.1111/1753-0407.13471

Figure Lengend Snippet: CircRNA mitogen‐activated protein kinase kinase kinase 5 (circMAP3K5) acts as a sponge for miR‐22‐3p in cardiomyocytes. A, Predicted potential interactions between circMAP3K5 and miR‐22‐3p according to Miranda software. B, quantitative real‐time polymerase chain reaction (qRT‐PCR) results showing expression level of miR‐22‐3p in H9c2 cells. C, Luciferase activity in wild‐type circMAP3K5 (circMAP3K5 WT) and a mutant with a miR‐22‐3p binding site (circMAP3K5 MUT) in 293 T cells transfected with a control mimic or a miR‐22‐3p mimic. D, qRT‐PCR results depicting levels of miR‐22‐3p expression in H9c2 cells transfected with either si‐MAP3K5 NC or si‐MAP3K5. E, qRT‐PCR results showing levels of miR‐22‐3p expression in H9c2 cells transfected with either pLc‐MAP3K5 vector or pLc‐MAP3K5. F, Western blots showing expression levels of the apoptosis regulatory protein. Statistically significant difference: * p < .05 ( n = 3). HG, high glucose; miRNA, microRNA.

Article Snippet: These circRNAs were amplified and transcribed into fluorescent cRNA using a random primer method (Arraystar Super RNA Labeling Kit; Arraystar). labeled cRNAs that were hybridized to Arraystar Rat circRNA Array V2.0 (8 × 15 K) with a total of 14 145 circRNA probes on the chip.

Techniques: Software, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, Expressing, Luciferase, Activity Assay, Mutagenesis, Binding Assay, Transfection, Plasmid Preparation, Western Blot

Journal: Journal of Diabetes

Article Title: CircMAP3K5 promotes cardiomyocyte apoptosis in diabetic cardiomyopathy by regulating miR ‐22‐3p/ DAPK2 Axis

doi: 10.1111/1753-0407.13471

Figure Lengend Snippet: CircRNA mitogen‐activated protein kinase kinase kinase 5 (circMAP3K5) promotes HG‐induced cardiomyocyte apoptosis by regulating the miR‐22‐3p/DAPK2 axis. A, Western blots showing expression levels of DAPK2 protein in cardiac myocytes transfected with either si‐circMAP3K5 or pLcMAP3K5, and exposed to high glucose concentrations (25 mmol/L) for 48 h. B, Western blots showing expression levels of apoptosis‐related proteins in cardiomyocytes transfected with si‐circMAP3K5, miR‐22‐3p inhibitor, and/or pcDNA‐DAPK2, under high glucose concentrations (25 mmol/L). C, Proposed mechanism of circMAP3K5 mediated DCM pathological process: Increases circMAP3K5 levels in the diabetic cardiomyopathy (DCM) heart leading to its interaction with miR‐22, which affects cardiomyocytes apoptosis through upregulation of DAPK2. DAPK2, death‐associated protein kinase 2; HG, high glucose.

Article Snippet: These circRNAs were amplified and transcribed into fluorescent cRNA using a random primer method (Arraystar Super RNA Labeling Kit; Arraystar). labeled cRNAs that were hybridized to Arraystar Rat circRNA Array V2.0 (8 × 15 K) with a total of 14 145 circRNA probes on the chip.

Techniques: Western Blot, Expressing, Transfection

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