Journal: Molecular Cancer

Article Title: Circular RNA cTFRC acts as the sponge of MicroRNA-107 to promote bladder carcinoma progression

doi: 10.1186/s12943-019-0951-0

Figure Lengend Snippet: Up-regulated circRNAs in BC tumor tissues and its correlation with prognosis of patients. a cTFRC increased in BC tissues as compared to that in the matched nontumor tissues analyzed by circRNAs Arraystar Chip. b Schematic representation of the high expression level of cTFRC in 57 BC patients tissues compared with adjacent normal patients tissues by qPCR. c cTFRC upregulated in recurrent BC patients. d The high expression levels of cTFRC in BC patients with high grade. e Advanced T stage is associated with higher cTFRC levels. f The expression of cTFRC higher in patients with lymphatic metastasis. g Prognostic significance of cTFRC expression for BC patients was performed with cTFRC values by using the median value as the cutoff

Article Snippet: Fig. 1 Up-regulated circRNAs in BC tumor tissues and its correlation with prognosis of patients. a cTFRC increased in BC tissues as compared to that in the matched nontumor tissues analyzed by circRNAs Arraystar Chip. b Schematic representation of the high expression level of cTFRC in 57 BC patients tissues compared with adjacent normal patients tissues by qPCR. c cTFRC upregulated in recurrent BC patients. d The high expression levels of cTFRC in BC patients with high grade. e Advanced T stage is associated with higher cTFRC levels. f The expression of cTFRC higher in patients with lymphatic metastasis. g Prognostic significance of cTFRC expression for BC patients was performed with cTFRC values by using the median value as the cutoff

Techniques: Expressing

Journal: BMC Molecular and Cell Biology

Article Title: circRNA_0005529 facilitates growth and metastasis of gastric cancer via regulating miR-527/Sp1 axis

doi: 10.1186/s12860-020-00340-8

Figure Lengend Snippet: Knockdown of circ_0005529 inhibited GC growth and lung metastasis in vivo. a Image of corresponding tumors dissected from mice 21 days post-implantation. Volumes and weight of the xenograft tumors derived from subcutaneous implantation of MKN-45 cells (sh-NC or sh-circRNA). b IHC staining of Sp1, Ki67 and E-cadherin in the xenograft tumors derived from subcutaneous implantation of MKN-45 cells (sh-NC or sh-circRNA). Scale bar = 50 μm. c Tumor metastasis progression was measured by in vivo luciferase imaging at days 30 after intravenous injection of MKN-45 cells (sh-NC or sh-circRNA). d Representative images and H&E staining analysis of lungs dissected from mice with intravenous injection of MKN-45 cells (sh-NC or sh-circRNA). (Mean ± SEM, * p < 0.05, ** p < 0.01)

Article Snippet: After RNase R treatment (2 U/μg, 30 min at 37 °C, Epicentre Technologies, Madison, WI, USA), RNA samples were labeled, hybridized, washed and analyzed by circRNA chips (Arraystar Human circRNAs chip, Rockville, MD, USA).

Techniques: In Vivo, Derivative Assay, Immunohistochemistry, Luciferase, Imaging, Injection, Staining

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: Scientific Reports

Article Title: Circular RNAs expression profiles in human gastric cancer

doi: 10.1038/s41598-017-09076-6

Figure Lengend Snippet: Hierarchical clustering, volcano plots, and scatter plots exhibited the differentially expressed circRNAs in gastric cancer tissues compared to paired non-gastric cancer tissues. ( A ) Hierarchical clustering, numbers were the samples used for the microarray assay. C: cancer tissues, N: non-cancerous tissues. ( B ) Differentially expressed circRNAs were displayed by volcano plots. The green and red parts indicated >2 fold-decreased and -increased expression of the dysregulated circRNAs in GC tissues, respectively (p < 0.05). ( C ) Differentially expressed circRNAs were displayed by scatter plots. The green and red parts indicated >2 fold-decreased and -increased expression of the dysregulated circRNAs in GC tissues (p < 0.05).

Article Snippet: The circRNAs expression profile microarray chip assay and data and bioinformatics analysis were carried out by Capitalbio Corporation (Beijing, China).

Techniques: Microarray, Expressing

Journal: Scientific Reports

Article Title: Circular RNAs expression profiles in human gastric cancer

doi: 10.1038/s41598-017-09076-6

Figure Lengend Snippet: The top up- and down-regulated differentially expressed circRNAs in GC tissues compared to those in non-cancerous tissues by both probes.

Article Snippet: The circRNAs expression profile microarray chip assay and data and bioinformatics analysis were carried out by Capitalbio Corporation (Beijing, China).

Techniques:

Journal: Scientific Reports

Article Title: Circular RNAs expression profiles in human gastric cancer

doi: 10.1038/s41598-017-09076-6

Figure Lengend Snippet: Verification of the differentially expressed circRNAs by qRT-PCR. The expression of 7 lncRNAs in 50 paired GC tissues was detected by qRT-PCR, which were shown by the expression fold changes. Comparison of the results obtained from qPCR and microarray assay revealed satisfactory consistency.

Article Snippet: The circRNAs expression profile microarray chip assay and data and bioinformatics analysis were carried out by Capitalbio Corporation (Beijing, China).

Techniques: Quantitative RT-PCR, Expressing, Comparison, Microarray

Journal: Scientific Reports

Article Title: Circular RNAs expression profiles in human gastric cancer

doi: 10.1038/s41598-017-09076-6

Figure Lengend Snippet: The numbers of potential targeted miRNAs of the differentially expressed circRNAs.

Article Snippet: The circRNAs expression profile microarray chip assay and data and bioinformatics analysis were carried out by Capitalbio Corporation (Beijing, China).

Techniques:

Journal: Scientific Reports

Article Title: Circular RNAs expression profiles in human gastric cancer

doi: 10.1038/s41598-017-09076-6

Figure Lengend Snippet: Represent circRNA-miRNA network. This network was based on the expression profile results and the related software. The 3 dysregulated circRNAs, hsa_circ_0076304, hsa_circ_0035431, and hsa_circ_0076305 (purple red nodes) having the highest magnitude of change, were predicted to be functionally connected with their targeted miRNAs in the network.

Article Snippet: The circRNAs expression profile microarray chip assay and data and bioinformatics analysis were carried out by Capitalbio Corporation (Beijing, China).

Techniques: Expressing, Software

Journal: Frontiers in Oncology

Article Title: CircRNA_036186 mediates HNSCC progression by regulating 14-3-3ζ

doi: 10.3389/fonc.2024.1498139

Figure Lengend Snippet: Identification of circRNA_036186-miR-193b-3p-14-3-3ζ-regulatory axis. (A) The heatmap illustrates the expression profiles of 287 circRNAs, of which 146 exhibited increased expression and 141 exhibited decreased expression. The colouration gradually transitions from blue to red, indicating increased expression. (B) The five most highly ranked circRNAs and their target miRNAs, each corresponding to a node, are shown with two interacting genes based on base sequence pairing connected by a solid line. (C) The intersection results of the HNSCC occurrence and development group, the prognosis group, and the competing endogenous RNA networks in OncomiR. (D) The predicted target mRNAs from three databases—Wayne ’ s map, miR-193b-3pmicroT-CDS, Tarbase, and TargetScan—were taken as intersections. (E) A search of the Tarbase database revealed that miR-193b-3p has a base sequence that binds and interacts with the 14-3-3ζ target. (F, G) The results of the RT-PCR experiments indicated that circRNA_036186 and miR-193b-3p exhibited elevated expression in HNSCC tissues relative to paracancerous tissues in five pairs of HNSCC and paracancerous tissue samples. (H, I) The results of RT-PCR experiments indicated that the mRNA expression of circRNA_036186 and miR-193b-3p was markedly elevated in all three HNSCC cell lines relative to HOK. (n=3, * p <0.05, ** p <0.01, *** p <0.001, **** p <0.0001).

Article Snippet: We used the Arratstar Super RNA Labeling Kit to amplify the enriched circRNA, which was then transcribed into fluorescent cRNA.The labelled cRNA was hybridised to the Arraystar Human circRNA V2 chip.

Techniques: Expressing, Sequencing, Reverse Transcription Polymerase Chain Reaction

Journal: Frontiers in Oncology

Article Title: CircRNA_036186 mediates HNSCC progression by regulating 14-3-3ζ

doi: 10.3389/fonc.2024.1498139

Figure Lengend Snippet: Top 5 circRNA.

Article Snippet: We used the Arratstar Super RNA Labeling Kit to amplify the enriched circRNA, which was then transcribed into fluorescent cRNA.The labelled cRNA was hybridised to the Arraystar Human circRNA V2 chip.

Techniques:

Journal: Frontiers in Oncology

Article Title: CircRNA_036186 mediates HNSCC progression by regulating 14-3-3ζ

doi: 10.3389/fonc.2024.1498139

Figure Lengend Snippet: Effect of down-regulation of circRNA_0361863p and miR-193b-3p on 14-3-3ζ in HSC2. (A) The results of the RT-PCR experiment indicated that si-circ_0036186 had been successfully transfected into HSC2. (B) The results of the RT-PCR experiments indicated that miR-193b-3p had been successfully transfected into HSC2. (C) Reverse transcription polymerase chain reaction (RT-PCR) experiments were conducted to ascertain the impact of transfection on 14-3-3ζ mRNA expression. (D, E) Western blotting experiments were conducted to ascertain the impact of transfection on 14-3-3ζ protein expression. (n=3, * p <0.05, *** p <0.001, **** p <0.0001).

Article Snippet: We used the Arratstar Super RNA Labeling Kit to amplify the enriched circRNA, which was then transcribed into fluorescent cRNA.The labelled cRNA was hybridised to the Arraystar Human circRNA V2 chip.

Techniques: Reverse Transcription Polymerase Chain Reaction, Transfection, Reverse Transcription, Polymerase Chain Reaction, Expressing, Western Blot

Journal: Frontiers in Oncology

Article Title: CircRNA_036186 mediates HNSCC progression by regulating 14-3-3ζ

doi: 10.3389/fonc.2024.1498139

Figure Lengend Snippet: Effect of down-regulation of circRNA_0361863p and miR-193b-3p on the proliferation, migration, invasion, and scratch healing rate of HSC2 cells. (A–D) The Transwell assay assessed the impact of circRNA_0361863p and miR-193b-3p down-regulation on cell migration and invasion of HSC2. (E, F) The Scratch test assessed the scratch healing rate of HSC2 after the down-regulation of circRNA_0361863p and miR-193b-3p. (G) The cell activity of HSC2 was evaluated after the down-regulation of circRNA_0361863p and miR-193b-3p through CCK-8 experiments. (n=3, **** p <0.0001).

Article Snippet: We used the Arratstar Super RNA Labeling Kit to amplify the enriched circRNA, which was then transcribed into fluorescent cRNA.The labelled cRNA was hybridised to the Arraystar Human circRNA V2 chip.

Techniques: Migration, Transwell Assay, Activity Assay, CCK-8 Assay

Journal: Discover Oncology

Article Title: Hsa_circ_0072732 enhances sunitinib resistance of renal cell carcinoma by inhibiting ferroptosis

doi: 10.1007/s12672-024-01580-2

Figure Lengend Snippet: Hsa_circ_0072732 was upregulated in RCC. A The upregulated circRNAs analysis in GSE108735 and GSE100186. GSE100186: eight renal celar cell carcinoma tissues from CCRCC surgery were distributed into two experimental groups: tumor tissue group and normal tissue group, then perform circRNAs chips by Arraystar Human circRNAs chip (Arraystar). GSE108735:seven paired frozen carcinoma tissues as well as normal tissues from patients with renal cell carcinoma were used for circRNA profiling by second generation of RNA sequencing. B The expressions of Hsa_circ_0072732 were detected using qRT-PCR in RCC and normal renal epithelial cell line KiMA. C , D Actinomycin D assays were performed in 786-O and Caki-1. qRT-PCR was used for detection. E , F RNase R assays were performed in 786-O and Caki-1. qRT-PCR was used for detection. *P < 0.05; **P < 0.01; ***P < 0.001

Article Snippet: GSE100186: eight renal celar cell carcinoma tissues from CCRCC surgery were distributed into two experimental groups: tumor tissue group and normal tissue group, then perform circRNAs chips by Arraystar Human circRNAs chip (Arraystar).

Techniques: RNA Sequencing, Quantitative RT-PCR