Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: CircRNA_103827 and circRNA_104816 expressions in granulosa cells according to patients’ clinical characteristics.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques: Biomarker Discovery

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: CircRNA_103827 and circRNA_104816 expression levels in granulosa cells according to ART outcomes.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques: Expressing

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: The top 10 significantly differentially expressed circRNAs between young and older women ranked by fold change.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques:

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: Comparison of candidate circRNAs (circRNA_103829, circRNA_10827, circRNA_104816, circRNA_101889, circRNA_103828, circRNA_100833, circRNA_104852, circRNA_103611) expression levels in granulosa cells from additional young (n = 20) and older (n = 20) women by qRT-PCR. YA, women with young age (≤ 30 years); AA, women with advanced age (≥ 38 years). P values were calculated by Mann-Whitney U test. Relative expressions were analyzed by 2 -ΔΔCt method which was normalized to GAPDH. For each box plotting, the central mark represents the median, the edges of the box represent the 25 th and 75 th percentiles, and the whiskers are the most extreme data points not considered outliers.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques: Comparison, Expressing, Quantitative RT-PCR, MANN-WHITNEY

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: ( A-E ) circRNA_103827 expression levels in granulosa cells according to (A) serum AMH levels, (B) AFC, (C) retrieved oocytes, (D) top quality embryos and (E) top quality embryo percentage. ( F-J ) circRNA_104816 expression levels in granulosa cells according to (F) serum AMH levels, (G) AFC, (H) retrieved oocytes, (I) top quality embryos and (J) top quality embryo percentage.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques: Expressing

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: ROC analysis to evaluate predictive performance of circRNA_103827, circRNA_104816 expressions in granulosa cells and top quality embryo proportion for ( A-C ) clinical pregnancy outcomes, as well as for ( D-F ) live births. AUC, area under the ROC curve.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques:

Journal: PLoS ONE

Article Title: Circular RNA expression profiling of human granulosa cells during maternal aging reveals novel transcripts associated with assisted reproductive technology outcomes

doi: 10.1371/journal.pone.0177888

Figure Lengend Snippet: (A) CircRNA_103827/circRNA_104816 targeted “Top 5” miRNA-gene network was portrayed based on sequence-pairing prediction. A pink round node represents a gene, a blue square represents miRNA, and a yellow diamond represents a circRNA. Overlapping genes of both circRNAs in this interactive network were ANKRD20A9P , XIST and KCNQ1OT1 . (B) GO and (C) KEGG pathway analysis of circRNA_103827 and circRNA_104816 predicted target genes. The top 10 significantly enriched activities and their scores (negative logarithm of P value) were listed in the X-axis and the Y-axis, respectively.

Article Snippet: In stage 1, GCs samples from women of advanced age (AA, ≥ 38 years, n = 3) and young age (YA, ≤ 30 years, n = 3) were analyzed by a human circRNA microarray (8×15K, Arraystar Inc.).

Techniques: Sequencing

Journal: Frontiers in Oncology

Article Title: Microarray and bioinformatic analysis reveal the parental genes of m6A modified circRNAs as novel prognostic signatures in colorectal cancer

doi: 10.3389/fonc.2022.939790

Figure Lengend Snippet: Differentially expressed m6A modified circRNAs and mRNA. (A) Hierarchical clustering heatmap of differentially m6A modified circRNAs. (B) Volcano plots of differentially mRNA based on TCGA-COAD. (C) Volcano plots of differentially mRNA based on GSE106582. (D) The intersected genes between microarray, COAD-TCGA and GSE106582.

Article Snippet: Arraystar m6A-circRNA epitranscriptomic microarray was used to identify differentially m6A modified circRNAs between CRC and the control group.

Techniques: Modification, Microarray

Journal: Frontiers in Oncology

Article Title: Microarray and bioinformatic analysis reveal the parental genes of m6A modified circRNAs as novel prognostic signatures in colorectal cancer

doi: 10.3389/fonc.2022.939790

Figure Lengend Snippet: Information on circRNAs formed by nine parental genes.

Article Snippet: Arraystar m6A-circRNA epitranscriptomic microarray was used to identify differentially m6A modified circRNAs between CRC and the control group.

Techniques:

Journal: Experimental & Molecular Medicine

Article Title: Circular RNA circ-4099 is induced by TNF-α and regulates ECM synthesis by blocking miR-616-5p inhibition of Sox9 in intervertebral disc degeneration

doi: 10.1038/s12276-018-0056-7

Figure Lengend Snippet: Top 10 differentially expressed circRNAs (degenerated vs. non-degenerated)

Article Snippet: This array is the first commercially available circRNA microarray (Arraystar, Inc., USA) designed for the global profiling of human circRNAs.

Techniques:

Journal: Experimental & Molecular Medicine

Article Title: Circular RNA circ-4099 is induced by TNF-α and regulates ECM synthesis by blocking miR-616-5p inhibition of Sox9 in intervertebral disc degeneration

doi: 10.1038/s12276-018-0056-7

Figure Lengend Snippet: a Scatter plot of circRNA expression. The circRNAs above the top green line and below the bottom green line indicated more than a twofold change between the degenerated and normal IVD NP tissues. b Volcano Plot of the differentially expressed circRNAs. The red points in the plot represent differentially expressed circRNAs with statistical significance. c Hierarchical clustering shows the distinguishable circRNA expression profile between the two groups and homogeneity within the groups. d The sequence of the amplified Circ-4099 product was completely consistent with CircBase. e Co-localization between circ-4099 (red) and miR-616-5p (green) was observed by RNA in situ hybridization in hNP cells after co-transfection with circ-4099-expressing and miR-616-5p-expressing vectors. The nuclei were stained with DAPI (blue). Scale bar = 10 µm. f The expression levels of circ-4099 are significantly higher in degenerated NP tissues than in non-degenerated NP tissues. g – i The expression levels of circ-68610/2069/92328 are higher in degenerated NP tissues than in non-degenerated NP tissues. j qRT-PCR analysis shows that TNF-α upregulates the expression of circ-4099 in a dose-dependent and time-dependent manner. For time-dependent studies, 50 ng/ml TNF-α was used. k hNP cells were transfected with the circ-4099-Luc promoter and the induction in luciferase activity was measured following TNF-α treatment ( P < 0.001)

Article Snippet: This array is the first commercially available circRNA microarray (Arraystar, Inc., USA) designed for the global profiling of human circRNAs.

Techniques: Expressing, Sequencing, Amplification, RNA In Situ Hybridization, Cotransfection, Staining, Quantitative RT-PCR, Transfection, Luciferase, Activity Assay

Journal: Experimental & Molecular Medicine

Article Title: Circular RNA circ-4099 is induced by TNF-α and regulates ECM synthesis by blocking miR-616-5p inhibition of Sox9 in intervertebral disc degeneration

doi: 10.1038/s12276-018-0056-7

Figure Lengend Snippet: a Plasmid map of the Circ-4099 over-expression plasmid. b The qPCR products were used to confirm the Circ-4099 sequence. c , d hNP cells were transfected with Circ-4099, NC (PLCDH-ciR) or negative control, and total RNA was collected. qPCR was used to detect the expression of Circ-4099 and its linear RNA (DENND5A) (linear + circRNA). The results showed that the Circ-4099 over-expression plasmid can extremely enhance Circ-4099 expression. These data confirm the validity and efficiency of the Circ-4099 over-expression plasmid. e , f qRT-PCR showed that Circ-4099 over-expression led to increased Collagen II and Aggrecan mRNA expression, which was suppressed by treatment with miR-616-5p mimics, while MMP3 and ADAMTS5 showed few significant differences in regulation. g , h Western blotting also showed that he Collagen II and Aggrecan protein expression levels were significantly increased by circ-4099 over-expression treatment. We next tested the effects of Circ-4099 on expression of inflammatory cytokines in hNP. i , j The IL-1β, TNF-α, and PGE2 mRNA levels were significantly suppressed in hNP cells transduced with Circ-4099 over-expression plasmid, which was inhibited by treatment with miR-616-5p mimics. k , l IL-1β, TNF-α, IL-6, and PGE2 cytokine release into medium was detected by ELISA, which showed similar results

Article Snippet: This array is the first commercially available circRNA microarray (Arraystar, Inc., USA) designed for the global profiling of human circRNAs.

Techniques: Plasmid Preparation, Over Expression, Sequencing, Transfection, Negative Control, Expressing, Quantitative RT-PCR, Western Blot, Transduction, Enzyme-linked Immunosorbent Assay

Journal: Journal of Orthopaedic Surgery and Research

Article Title: Comprehensive analysis of potential ceRNA network and immune cell infiltration in intervertebral disc degeneration

doi: 10.1186/s13018-022-03331-x

Figure Lengend Snippet: IDD datasets included for analysis

Article Snippet: GSE67566 , GPL19978 Agilent-069978 Arraystar Human CircRNA microarray V1 , 5 , 5.

Techniques: Microarray

Journal: Non-coding RNA Research

Article Title: Circular RNAs in intracranial aneurysms: Emerging roles in pathogenesis, diagnosis and therapeutic intervention

doi: 10.1016/j.ncrna.2023.11.012

Figure Lengend Snippet: Schematic illustration of the effect of circular RNAs (circRNAs) on intracranial aneurysm (IA) rupture. Current evidence strongly suggests a central role for endothelial dysfunction in the initiation and progression of IA. Post-subarachnoid hemorrhage (SAH), several early pathophysiological events can be commonly observed in blood-brain barrier (BBB) components, such as the endothelium (endothelial dysfunction). In results, post- SAH injuries can disrupt the integrity and function of the BBB . Both negative (red cross) and positive (green cross) regulation of circRNAs have been observed in this pathological cascade. The role of circRNAs is based on components: 1) strong role in endothelial cells (ECs) homeostasis; 2) regulation of barrier function and vascular tone; 3) associated with SAH and its complications; 4) correlates with clinical outcomes (Glasgow Coma Scale, the volume of SAH, modified Fisher scale, Hunt-Hess levels, and surgical type; 5) regulators of transcription/translation, sequesters of microRNA (miRNA)/RNA-binding proteins (RBPs), and biomarkers of IA.

Article Snippet: Leveraging the power of the Arraystar human circRNAs microarray, differentially expressed circRNAs between patients with UIAs and RIAs were meticulously analyzed.

Techniques: Modification, RNA Binding Assay

Journal: Non-coding RNA Research

Article Title: Circular RNAs in intracranial aneurysms: Emerging roles in pathogenesis, diagnosis and therapeutic intervention

doi: 10.1016/j.ncrna.2023.11.012

Figure Lengend Snippet: Schematic illustration of circular RNAs (circRNAs) regulation mechanisms underlying vascular smooth muscle cells (VSMCs) phenotypic modulation, oxidative stress, and cell death in intracranial aneurysms (IAs). As can be seen from the figure, circRNAs play a role both in the development and progression of IA and in the inhibition of IA through the control of VSMC. However, some of them exhibit a double effect as circ_FOXO3 and circ_0020397.

Article Snippet: Leveraging the power of the Arraystar human circRNAs microarray, differentially expressed circRNAs between patients with UIAs and RIAs were meticulously analyzed.

Techniques: Inhibition

Journal: Non-coding RNA Research

Article Title: Circular RNAs in intracranial aneurysms: Emerging roles in pathogenesis, diagnosis and therapeutic intervention

doi: 10.1016/j.ncrna.2023.11.012

Figure Lengend Snippet: Benefits of using cell free circular RNAs (circRNAs) as biomarkers.

Article Snippet: Leveraging the power of the Arraystar human circRNAs microarray, differentially expressed circRNAs between patients with UIAs and RIAs were meticulously analyzed.

Techniques:

Journal: Non-coding RNA Research

Article Title: Circular RNAs in intracranial aneurysms: Emerging roles in pathogenesis, diagnosis and therapeutic intervention

doi: 10.1016/j.ncrna.2023.11.012

Figure Lengend Snippet: The studied cell free circular RNAs (circRNAs) are presented as non-invasive biomarkers in intracranial aneurysms (IAs).

Article Snippet: Leveraging the power of the Arraystar human circRNAs microarray, differentially expressed circRNAs between patients with UIAs and RIAs were meticulously analyzed.

Techniques:

Journal: Non-coding RNA Research

Article Title: Circular RNAs in intracranial aneurysms: Emerging roles in pathogenesis, diagnosis and therapeutic intervention

doi: 10.1016/j.ncrna.2023.11.012

Figure Lengend Snippet: Summary information on the role of circular RNAs (circRNAs) in the formation and development of intracranial aneurysms (IAs).

Article Snippet: Leveraging the power of the Arraystar human circRNAs microarray, differentially expressed circRNAs between patients with UIAs and RIAs were meticulously analyzed.

Techniques: Migration, Transformation Assay

Journal: Physiological Genomics

Article Title: Circular RNAs in rat models of cardiovascular and renal diseases

doi: 10.1152/physiolgenomics.00064.2017

Figure Lengend Snippet: Box plots show the distribution of expression levels for all samples in the circular (circ)RNA microarray data set. R-1, R-2, and R-3 are 3 individual Dahl salt-resistant rats (R). S-1, S-2, and S-3 are 3 individual Dahl salt-sensitive rats (S). WKY-1, WKY-2, and WKY-3 are 3 individual Wistar Kyoto rats (WKY). SHR-1, SHR-2, and SHR-3 are 3 individual spontaneously hypertensive rats (SHR).

Article Snippet: Arraystar Rat Circular RNA Microarray ( www.arraystar.com ) was used for microarray experiments.

Techniques: Expressing, Microarray

Journal: Physiological Genomics

Article Title: Circular RNAs in rat models of cardiovascular and renal diseases

doi: 10.1152/physiolgenomics.00064.2017

Figure Lengend Snippet: Differentially expressed circRNAs between normotensive and hypertensive rats. The figure represents the number of circRNAs differentially expressed according to the microarray analysis. Based on the location and direction on the genome, circRNAs are subcategorized into exonic, intronic, antisense, sense overlapping, and intergenic. S vs. R up indicates circRNAs were upregulated in Dahl salt-sensitive rats (S) compared with Dahl salt-resistant rats (R). S vs. R down indicates circRNAs were downregulated in S compared with R. SHR vs. WKY up indicates circRNAs were upregulated in spontaneously hypertensive rats (SHR) compared with Wistar Kyoto rats (WKY). SHR vs. WKY down indicates circRNAs were downregulated in SHR compared with WKY.

Article Snippet: Arraystar Rat Circular RNA Microarray ( www.arraystar.com ) was used for microarray experiments.

Techniques: Microarray

Journal: Physiological Genomics

Article Title: Circular RNAs in rat models of cardiovascular and renal diseases

doi: 10.1152/physiolgenomics.00064.2017

Figure Lengend Snippet: Validation of differentially expressed circRNAs in the microarray study by quantitative RT-PCR. R, Dahl salt-resistant rat; S, Dahl salt-sensitive rat; WKY, Wistar Kyoto rat; SHR, spontaneously hypertensive rat. *P < 0.05, **P < 0.01, ***P < 0.001.

Article Snippet: Arraystar Rat Circular RNA Microarray ( www.arraystar.com ) was used for microarray experiments.

Techniques: Biomarker Discovery, Microarray, Quantitative RT-PCR