Journal: Molecular Medicine Reports

Article Title: CircRNA expression profiles in human visceral preadipocytes and adipocytes

doi: 10.3892/mmr.2019.10886

Figure Lengend Snippet: Comparison of circRNA expression profiles between HPA-v and adipocytes. (A) Box plots revealed the distribution of circRNAs in the six samples after normalization. (B) Volcano plots revealed the differentially expressed circRNAs. Green and red dots represent significantly down- and upregulated circRNAs in adipocytes compared with HPA-v, respectively (fold change ≥5.0, P<0.01). (C) Hierarchical clustering was performed to reveal the differentially expressed circRNAs between HPA-v and adipocytes. (D) Expression patterns of select differentially expressed circRNAs in HPA-v and adipocytes were determined by qPCR. (E) The heatmap revealed the selected differentially expressed circRNAs in HPA-v and adipocytes. *P<0.05. circRNA, circular RNA; HPA-v, human preadipocytes from visceral fat tissue; AD, adipocytes; n.d., not detected.

Article Snippet: To investigate whether circRNAs are associated with lipid deposition, a human circRNA microarray (version 2.0; Agilent Technologies, Inc.) was used to assess circRNA expression profiles in HPA-v and adipocytes.

Techniques: Expressing

Journal: Molecular Medicine Reports

Article Title: CircRNA expression profiles in human visceral preadipocytes and adipocytes

doi: 10.3892/mmr.2019.10886

Figure Lengend Snippet: Top 10 up- and downregulated circRNAs in adipocytes.

Article Snippet: To investigate whether circRNAs are associated with lipid deposition, a human circRNA microarray (version 2.0; Agilent Technologies, Inc.) was used to assess circRNA expression profiles in HPA-v and adipocytes.

Techniques:

Journal: Molecular Medicine Reports

Article Title: CircRNA expression profiles in human visceral preadipocytes and adipocytes

doi: 10.3892/mmr.2019.10886

Figure Lengend Snippet: The top 15 significantly enriched pathways associated with the differentially expressed circRNA parental genes according to KEGG analysis. circRNAs, circular RNAs; KEGG, Kyoto Encyclopedia of Genes and Genomes.

Article Snippet: To investigate whether circRNAs are associated with lipid deposition, a human circRNA microarray (version 2.0; Agilent Technologies, Inc.) was used to assess circRNA expression profiles in HPA-v and adipocytes.

Techniques:

Journal: Molecular Medicine Reports

Article Title: CircRNA expression profiles in human visceral preadipocytes and adipocytes

doi: 10.3892/mmr.2019.10886

Figure Lengend Snippet: miRNAs with >2 miRNA response elements targeting the top 10 upregulated and downregulated circRNAs.

Article Snippet: To investigate whether circRNAs are associated with lipid deposition, a human circRNA microarray (version 2.0; Agilent Technologies, Inc.) was used to assess circRNA expression profiles in HPA-v and adipocytes.

Techniques:

Journal: Clinical and Translational Medicine

Article Title: Androgen receptor decreases the renal cell carcinoma bone metastases via suppressing the osteolytic formation through altering a novel circEXOC7 regulatory axis

doi: 10.1002/ctm2.353

Figure Lengend Snippet: CircRNA microarray and screening process. Results from circRNA microarray and bioinformatics analysis from five paired human RCC vs. RBM tissues were summarized in (A‐D). (A) Box plot demonstrated no significant differences in the distribution of intensity across 10 clinical samples. (B) Scatter plot displayed circRNAs expression correlation between RCC and RBM group. (C) Heat map generated from circRNAs microarray data reflecting circRNAs expression values in RCC and RBM groups. (D) Volcano plot showing DERs data. The red points indicate points‐of‐interest that display both large magnitude fold‐changes (x‐axis) and high statistical significance (‐log10 of p ‐value, y‐axis). The green line shows points above the line having p < 0.05 and points below the line having p > 0.05. This plot is colored such that those points having a fold‐change less than 2 (log2 = 1) are shown in gray. (E) The qRT‐PCR was performed to show 32 selected candidate circRNAs expression levels in cells. (F) The qRT‐PCR was performed on SW839 cells to show effects of manipulating efficiency of selected candidate circRNAs, ciR4#, ciR6#, ciR19#, and ciR26#. (G‐J) Interruption assays revealed that suppressing (G) ciR‐4# (hsa_circ_0001275), (H) ciR‐6# (hsa_circRNA_405974), expression cannot reverse/block the knocked‐down AR‐increased osteolytic formation in SW839 cells (scale bars, 200 μm), increasing (I) ciR‐19# (hsa_circ_0091743) expression, and (J) increasing ciR‐26# hsa_circ_0075303 expression cannot reverse/block the AR‐suppressed osteolytic formation in SW839 cell line (scale bars, 200 μm). For (E‐J), quantitation is at the right, and data are presented as Mean ± SD, ** p < 0.01, *** p < 0.001, **** p < 0.0001. Abbreviation: N.S., not significant

Article Snippet: In the current study, five human RCC and five RCC bone metastasis tissues were deeply sequenced using Arraystar human circRNA V2.0 microarray.

Techniques: Microarray, Expressing, Generated, Quantitative RT-PCR, Blocking Assay, Quantitation Assay

Journal: Clinical and Translational Medicine

Article Title: Androgen receptor decreases the renal cell carcinoma bone metastases via suppressing the osteolytic formation through altering a novel circEXOC7 regulatory axis

doi: 10.1002/ctm2.353

Figure Lengend Snippet: The expression of circEXOC7 is regulated by DHX9. (A) The qRT‐PCR was performed on SW839 and OS‐RC‐2 cell lines to show correlation between AR and four genes related to circRNA biogenesis. Among them, ADAR2 and DHX9 have a positive correlation with AR mRNA expression. (B and C) The qRT‐qPCR was performed to show (B) knocking down DHX9, and not (C) ADAR2 gene, led to increased circEXOC7 expression in SW839 cells. (D) WB was performed on SW839 and OS‐RC‐2 cells to show that modulated AR expression also altered DHX9 expression. (E) Predicted AR binding sites on the DHX9 promoter region using website http://jaspar.genereg.net/ . (F) ChIP assay showing AR could bind to the No. 2 potential ARE on the DHX9 5′‐promoter region. (G) The wild type and mutant pGL3‐DHX9 promoter reporter constructs. (H and I) Luciferase activity after transfection of wild type or mutant DHX9 promoter reporter constructs in OS‐RC‐2 cells (H) transfected with AR‐cDNA or pWPI and SW839 cells (I) transfected with AR‐shRNA or pLKO. For (B and C), (H and I), data are presented as Mean ± SD, * p < 0.05, ** p < 0.01, *** p < 0.001. Abbreviation: N.S., not significant

Article Snippet: In the current study, five human RCC and five RCC bone metastasis tissues were deeply sequenced using Arraystar human circRNA V2.0 microarray.

Techniques: Expressing, Quantitative RT-PCR, Binding Assay, Mutagenesis, Construct, Luciferase, Activity Assay, Transfection, shRNA

Journal: Journal of Cellular and Molecular Medicine

Article Title: Screening differential circular RNA expression profiles reveals the regulatory role of circMARS in anti‐tuberculosis drug‐induced liver injury

doi: 10.1111/jcmm.17157

Figure Lengend Snippet: Study flow chart. First, the difference of circRNA expression profiles between anti‐tuberculosis drug‐induced liver injury (ADLI) and non‐ADLI patients were explored. Then, a differentially expressed circRNA was selected for verification in a cohort of 300 patients. Finally, the function of this circRNA was verified in a self‐controlled cohort of 35 patients based on the results of the experimental study

Article Snippet: The circRNAs in the discovery cohort were profiled using the CapitalBio Technology CircRNA Human Gene Expression Microarray v2.0 (CapitalBio Technology, Beijing, China).

Techniques: Expressing

Journal: Journal of Cellular and Molecular Medicine

Article Title: Screening differential circular RNA expression profiles reveals the regulatory role of circMARS in anti‐tuberculosis drug‐induced liver injury

doi: 10.1111/jcmm.17157

Figure Lengend Snippet: Identification of circRNA expression profiles in ADLI. (A) The scatter plots of circRNAs expression variations in the ADLI patients and in vitro assays. The red and green points in the plot indicate the upregulated and downregulated circRNAs. (B) Venn diagrams of the co‐expression circRNAs in the serum and cells. Two drugs: cells with Isoniazid (INH) + Rifampicin (RFP); three drugs: cells with INH + RFP + Pyrazinamide (PZA)

Article Snippet: The circRNAs in the discovery cohort were profiled using the CapitalBio Technology CircRNA Human Gene Expression Microarray v2.0 (CapitalBio Technology, Beijing, China).

Techniques: Expressing, In Vitro

Journal: Cell Cycle

Article Title: Analysis of co-expression networks for circular RNAs and mRNAs reveals that circular RNAs hsa_circ_0047905, hsa_circ_0138960 and has-circRNA7690-15 are candidate oncogenes in gastric cancer

doi: 10.1080/15384101.2017.1380135

Figure Lengend Snippet: Heat map of the circRNA and mRNA profiles in GC tissues versus paired normal gastric mucosa tissues. Red indicates high relative expression, and green indicates low relative expression. The expression of mRNA (A) and circRNA (B) were hierarchically clustered on the y-axis, and the tissue samples are hierarchically clustered on the x-axis (Fold change ≧ 2, p < 0.05). Expression levels are presented in red and green, indicating upregulated and downregulated RNAs, respectively. Numbers marked with T and N are from five paired gastric cancer tissues and paired adjacent normal tissues, respectively.

Article Snippet: The labeled cRNAs were hybridized onto the CapitalBio Technology Human CircRNA Microarray v2.0 (V2.0,4 × 180K) and mRNA Human Gene Expression Microarray (V4.0,4 × 180K), including the global profiling of 170,340 circRNAs and 34,235 coding transcripts (from 21,901 genes).

Techniques: Expressing

Journal: Cell Cycle

Article Title: Analysis of co-expression networks for circular RNAs and mRNAs reveals that circular RNAs hsa_circ_0047905, hsa_circ_0138960 and has-circRNA7690-15 are candidate oncogenes in gastric cancer

doi: 10.1080/15384101.2017.1380135

Figure Lengend Snippet: Co-expression network in GC tissues and adjacent normal tissues. The co-expression network consists of 204 circRNAs and 169 mRNAs. (A) GC tissues; (B) Normal tissues. A round node represents a protein-coding gene, and a triangular node represents a circRNA. Solid lines between two nodes indicate positively-correlated interactions between genes, and dashed lines indicate negatively-correlated interactions. Structural cohesion levels are presented in different colors; red indicates a high cohesion level.

Article Snippet: The labeled cRNAs were hybridized onto the CapitalBio Technology Human CircRNA Microarray v2.0 (V2.0,4 × 180K) and mRNA Human Gene Expression Microarray (V4.0,4 × 180K), including the global profiling of 170,340 circRNAs and 34,235 coding transcripts (from 21,901 genes).

Techniques: Expressing

Journal: Cell Cycle

Article Title: Analysis of co-expression networks for circular RNAs and mRNAs reveals that circular RNAs hsa_circ_0047905, hsa_circ_0138960 and has-circRNA7690-15 are candidate oncogenes in gastric cancer

doi: 10.1080/15384101.2017.1380135

Figure Lengend Snippet: Top 3 Critical circRNAs.

Article Snippet: The labeled cRNAs were hybridized onto the CapitalBio Technology Human CircRNA Microarray v2.0 (V2.0,4 × 180K) and mRNA Human Gene Expression Microarray (V4.0,4 × 180K), including the global profiling of 170,340 circRNAs and 34,235 coding transcripts (from 21,901 genes).

Techniques:

Journal: Cell Cycle

Article Title: Analysis of co-expression networks for circular RNAs and mRNAs reveals that circular RNAs hsa_circ_0047905, hsa_circ_0138960 and has-circRNA7690-15 are candidate oncogenes in gastric cancer

doi: 10.1080/15384101.2017.1380135

Figure Lengend Snippet: siRNAs targeted at circRNA backspliced junction sequences.

Article Snippet: The labeled cRNAs were hybridized onto the CapitalBio Technology Human CircRNA Microarray v2.0 (V2.0,4 × 180K) and mRNA Human Gene Expression Microarray (V4.0,4 × 180K), including the global profiling of 170,340 circRNAs and 34,235 coding transcripts (from 21,901 genes).

Techniques:

Journal: Cancer Management and Research

Article Title: Profiles of differentially expressed circRNAs in esophageal and breast cancer

doi: 10.2147/CMAR.S167863

Figure Lengend Snippet: General information of ESCC patients for microarray test

Article Snippet: The RNA was isolated with an RNeasy mini kit (Qiagen, Hilden, Germany) and analyzed using an 8*15K Arraystar human circRNA microarray V2 (Catalog No: AS-CR-H-V2.0).

Techniques: Microarray

Journal: Cancer Management and Research

Article Title: Profiles of differentially expressed circRNAs in esophageal and breast cancer

doi: 10.2147/CMAR.S167863

Figure Lengend Snippet: General information of BC patients for microarray test

Article Snippet: The RNA was isolated with an RNeasy mini kit (Qiagen, Hilden, Germany) and analyzed using an 8*15K Arraystar human circRNA microarray V2 (Catalog No: AS-CR-H-V2.0).

Techniques: Microarray

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: Primers for qRT-PCR.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques:

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: CircRNA microarray expression in serum between PTMC and PTMC (L) patients. (A) The typical results of circRNA microarray. Each bright spot represents a circRNA gene. (B) Normalized data were plotted as a Box plot to determine the overall characteristics of distribution.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques: Microarray, Expressing

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: Representative up-regulated and down-regulated circRNAs in PTMC (L) patients compared with that in PTMC patients.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques:

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: GO and KEGG analysis of the parental genes of differentially expressed circRNAs. The parental genes of the differentially expressed circRNAs were identified using bioinformatics tools. (A) Functions of the upregulated circRNAs PTMC (L) patients were enriched by GO analysis. (B) KEGG pathway analysis of the circRNA parental genes.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques:

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: Highly matched miRNAs for the differentially expressed circRNAs between PTMC and PTMC (L) patients.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques:

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: CircRNA-miRNA-mRNA network of 10 differentially expressed circRNAs. (A) Predicted miRNA response elements for hsa_circRNA_404686. (B) Putative circRNA-miRNA-mRNA network of hsa_circRNA-404686 (brown node) mRNAs (blue nodes) and their target miRNAs (red nodes) was constructed using bioinformatics tools.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques: Construct

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: Validation of circRNAs expression via real-time PCR. (A) Expression of 10 differentially expressed circRNAs in dependent 3 pairs of patient samples were analyzed by real-time PCR. (B) Expression of hsa_circRNA_404686 in additional 3 pairs of patient samples were analyzed by real-time PCR. U6 snRNA was used as internal control. Compared with PTMC, ∗∗ P < .01, student t test.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques: Expressing, Real-time Polymerase Chain Reaction

Journal: Medicine

Article Title: Correlation between serum circRNA and thyroid micropapillary carcinoma with cervical lymph node metastasis

doi: 10.1097/MD.0000000000023255

Figure Lengend Snippet: Comparison of RT-PCR verification results and microarray results for circRNAs.

Article Snippet: CircRNA expression profiling and data analysis were carried out using Arraystar Human CircRNA V2.0 (Agilent).

Techniques: Microarray