mouse circrna chip sequencing  (Arraystar inc)

Journal: Frontiers in Neuroscience

Article Title: Identification of Blood Circular RNAs as Potential Biomarkers for Acute Ischemic Stroke

doi: 10.3389/fnins.2020.00081

Figure Lengend Snippet: Characterization of the expression profile of circular RNAs in blood samples of MCAO-treated mice. (A) Normalized intensities of all circular RNAs expressed in the blood in sham and 5 min, 3-h, and 24-h MCAO-treated mice; n = 3 per group. (B) The scatter plots show the differentially expressed circRNAs in the 5-min, 3-h, and 24-h MCAO groups compared with sham. circRNAs in the scatter plot above and below the diagonal line indicate upregulation and downregulation, respectively. (C) Volcano plots show circRNA expression profiles in the 5-min, 3-h, and 24-h MCAO groups compared with sham control. Red dots represent differentially expressed circRNAs ( p < 0.05 and fold-change ≥ 2.0). (D) Distribution of different types of differentially expressed circRNAs, including those consisting of exon, intron, intergenic region, sense, and antisense sequences. (E) Venn diagram shows the overlapping differentially expressed circRNA probes among the three groups compared with sham control. The total numbers of probes exhibiting differential expression in 5 min, 3 h, and 24 h are 1051, 782, and 2721, respectively.

Article Snippet: Fifty microliters of hybridization solution was dispensed into the gasket slide and assembled on the circRNA expression microarray slide [Arraystar Mouse circRNA Array v2 (8 × 15K, Arraystar)].

Techniques: Expressing, Control, Quantitative Proteomics

Journal: Frontiers in Neuroscience

Article Title: Identification of Blood Circular RNAs as Potential Biomarkers for Acute Ischemic Stroke

doi: 10.3389/fnins.2020.00081

Figure Lengend Snippet: RT-qPCR verification of the microarray data from mouse blood. Representative circRNAs with significant differential expression at 5 min (upper panel), 3 h (middle panel), and 24 h of MCAO (lower panel) were verified by RT-qPCR. Left and right panels show the circRNAs with upregulation and downregulation, respectively. Values are mean ± SEM ( n = 3 per group). ∗ p < 0.05, ∗∗ p < 0.05, and ∗∗∗ p < 0.001 compared with sham (independent samples t -test, single-tailed).

Article Snippet: Fifty microliters of hybridization solution was dispensed into the gasket slide and assembled on the circRNA expression microarray slide [Arraystar Mouse circRNA Array v2 (8 × 15K, Arraystar)].

Techniques: Quantitative RT-PCR, Microarray, Quantitative Proteomics

Journal: Frontiers in Neuroscience

Article Title: Identification of Blood Circular RNAs as Potential Biomarkers for Acute Ischemic Stroke

doi: 10.3389/fnins.2020.00081

Figure Lengend Snippet: circRNA-miRNA interaction. Diagrams show the predicted miRNAs (square boxes) that bind to the verified differentially expressed circRNAs (round circles) at the 5-min (A) , 3-h (B) , and 24-h (C) time points of MCAO in mice. Blue lines represent upregulation; red lines represent downregulation.

Article Snippet: Fifty microliters of hybridization solution was dispensed into the gasket slide and assembled on the circRNA expression microarray slide [Arraystar Mouse circRNA Array v2 (8 × 15K, Arraystar)].

Techniques:

Journal: Frontiers in Neuroscience

Article Title: Identification of Blood Circular RNAs as Potential Biomarkers for Acute Ischemic Stroke

doi: 10.3389/fnins.2020.00081

Figure Lengend Snippet: Gene ontology analysis. Gene ontology classifications of the circRNA-miRNA target genes at the (A) 5-min, (B) 3-h, and (C) 24-h time points of MCAO. Color key represents log( p -value).

Article Snippet: Fifty microliters of hybridization solution was dispensed into the gasket slide and assembled on the circRNA expression microarray slide [Arraystar Mouse circRNA Array v2 (8 × 15K, Arraystar)].

Techniques:

Journal: Frontiers in Neuroscience

Article Title: Identification of Blood Circular RNAs as Potential Biomarkers for Acute Ischemic Stroke

doi: 10.3389/fnins.2020.00081

Figure Lengend Snippet: KEGG pathway analysis of circRNA-miRNA target genes. (A) KEGG pathway analysis of the circRNA-miRNA target genes at the (A) 5-min, (B) 3-h and (C) 24-h time points of MCAO. Color key represents log( p value).

Article Snippet: Fifty microliters of hybridization solution was dispensed into the gasket slide and assembled on the circRNA expression microarray slide [Arraystar Mouse circRNA Array v2 (8 × 15K, Arraystar)].

Techniques:

Journal: Frontiers in Molecular Neuroscience

Article Title: Differential Expression Profiles and Functional Prediction of Circular RNAs and Long Non-coding RNAs in the Hippocampus of Nrf2-Knockout Mice

doi: 10.3389/fnmol.2019.00196

Figure Lengend Snippet: The primers used in qRT-PCR experiments.

Article Snippet: The circRNA microarray was analyzed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, Inc., United States) by Kangchen BioTech, Inc. (Shanghai, China).

Techniques:

Journal: Frontiers in Molecular Neuroscience

Article Title: Differential Expression Profiles and Functional Prediction of Circular RNAs and Long Non-coding RNAs in the Hippocampus of Nrf2-Knockout Mice

doi: 10.3389/fnmol.2019.00196

Figure Lengend Snippet: Top 10 up- and down-regulated DEcircRNAs in the hippocampus of Nrf2 (−/−) mice.

Article Snippet: The circRNA microarray was analyzed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, Inc., United States) by Kangchen BioTech, Inc. (Shanghai, China).

Techniques:

Journal: Frontiers in Molecular Neuroscience

Article Title: Differential Expression Profiles and Functional Prediction of Circular RNAs and Long Non-coding RNAs in the Hippocampus of Nrf2-Knockout Mice

doi: 10.3389/fnmol.2019.00196

Figure Lengend Snippet: QRT-PCR validation of the expression levels of candidate circRNAs (A) and lncRNAs (B) . * p < 0.05 and ∗∗ p < 0.01. The deep red column indicates the expression status of lncRNAs through microarray analyses; the blue column indicates the expression status of lncRNAs through qRT-PCR experiments. n = 3.

Article Snippet: The circRNA microarray was analyzed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, Inc., United States) by Kangchen BioTech, Inc. (Shanghai, China).

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

Journal: Frontiers in Molecular Neuroscience

Article Title: Differential Expression Profiles and Functional Prediction of Circular RNAs and Long Non-coding RNAs in the Hippocampus of Nrf2-Knockout Mice

doi: 10.3389/fnmol.2019.00196

Figure Lengend Snippet: DEcircRNA-miRNA-DEceRNA interaction subnetworks of up-regulated circRNAs and down-regulated circRNAs in the Nrf2 (–/–) hippocampus. (A) Subnetwork of mmu_circRNA_44531 in the Nrf2 (–/–) hippocampus. (B) Subnetwork of mmu_circRNA_34132 in the Nrf2 (–/–) hippocampus. (C) Subnetwork of mmu_circRNA_000903 in the Nrf2 (–/–) hippocampus. (D) Subnetwork of mmu_circRNA_018676 in the Nrf2 (–/–) hippocampus. (E) Subnetwork of mmu_circRNA_45901 in the Nrf2 (–/–) hippocampus. (F) Subnetwork of mmu_circRNA_33836 in the Nrf2 (–/–) hippocampus. (G) Subnetwork of mmu_circRNA_34137 in the Nrf2 (–/–) hippocampus. (H) Subnetwork of mmu_circRNA_34106 in the Nrf2 (–/–) hippocampus. (I) Subnetwork of mmu_circRNA_008691 in the Nrf2 (–/–) hippocampus. (J) Subnetwork of mmu_circRNA_003237 in the Nrf2 (–/–) hippocampus. Yellow nodes indicate DEcircRNAs. Magenta and green nodes indicate miRNAs sponged by DEcircRNAs and the gene ID of their DEceRNAs, respectively. Edges represent interactions.

Article Snippet: The circRNA microarray was analyzed using Arraystar Mouse circRNA Array V2 analysis (Arraystar, Inc., United States) by Kangchen BioTech, Inc. (Shanghai, China).

Techniques:

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