Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: Study design flowchart. circRNA, circular RNA; miRNA, microRNA; RIF, recurrent implantation failure. DEcircRNAs, differentially expressed circRNAs; DEmiRNAs, differentially expressed miRNAs; DEmRNAs, differentially expressed mRNAs

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: Boxplots, volcano plots and Venn diagram of mRNAs for GSE103465. (A) Boxplot of GSE103465. (B) Volcano plots of DEmRNAs based on GSE103465. (C) Venn diagram of mRNAs for GeneCards and GSE103465, where the intersection section is predicted DEmRNAs asscociated with angiogenesis in RIF. circRNA, circular RNA; miRNA, microRNA; RIF, recurrent implantation failure

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: Boxplots, volcano plots and Venn diagram of miRNAs for GSE121219. (A) Boxplot of GSE121219. (B) Volcano plots of DEmiRNAs based on GSE121219. (C) Venn diagram of miRNAs for miRDIP and GSE121219, where the intersection section is predicted DEmiRNAs asscociated with angiogenesis in RIF. circRNA, circular RNA; miRNA, microRNA; RIF, recurrent implantation failure

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: Boxplots, volcano plots and Venn diagram of circRNAs for GSE147442. (A) Boxplot of GSE147442 after standardization. (B) Volcano plots of DEcircRNAs based on GSE147442. (C) Venn diagram of miRNAs for starBase 2.0 and GSE147442, where the intersection section is predicted DEcircRNAs asscociated with angiogenesis in RIF. circRNA, circular RNA; miRNA, microRNA; RIF, recurrent implantation failure

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: Figure 5 CircRNA-miRNA-mRNA regulatory network, which consists of 8 DEcircRNAs, 10 DEmiRNAs and 45 DERNAs. DEcircRNA, differentially expressed circular RNA; DEmiRNA, differentially expressed micro RNA; DERNA, differentially expressed RNA. Arrow-shape nodes: circRNAs, triangle nodes: miRNAs, ellipse-shaped nodes: mRNAs

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: BMC Medical Genomics

Article Title: Comprehensive analysis of circRNA-miRNA-mRNA network related to angiogenesis in recurrent implantation failure

doi: 10.1186/s12920-024-01944-1

Figure Lengend Snippet: A PPI network and circRNA–miRNA–hub gene regulatory subnetwork. (A) A PPI network of the fifty-five target genes associated with angiogenesis in RIF. (B) Six hub genes extracted by cytoHubba plug-in. (C) CircRNA–miRNA–hub gene regulatory subnetwork, consisting of 3 circRNAs, 3 miRNAs, and 3 mRNAs. PPI, protein–protein interaction; circRNA, circular RNA; miRNA, microRNA; RIF, recurrent implantation failure

Article Snippet: CircRNA, miRNA and mRNA microarray expression profile datasets were selected from the National Center of Biotechnology Information Gene Expression Omnibus (NCBI) GEO ( https://www.ncbi.nlm.nih.gov/geo/ ).

Techniques:

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Hematoxylin-eosin staining of control, ECRSwNP, and non-ECRSwNP groups, and differential expression of circRNAs and miRNAs in the three groups. (A) Representative images of hematoxylin-eosin staining. The scale bar represents 100 μm. (B) Hierarchical clustering analysis heat map showing significantly changed of circRNAs and (C) of miRNAs with fold change ≥2.0 ( p < 0.05) in the three groups (ECRSwNP, non-ECRSwNP, and control). The expressions of circRNAs and miRNAs were significantly different between CRSwNP and control groups, but ECRSwNP and non-ECRSwNP groups shared similar gene expression profiles. Then, they were combined as the CRSwNP group. Hierarchical clustering analysis heat map showing significantly changed of circRNAs (D) and of miRNAs (E) with fold change ≥2.0 ( p < 0.05) in the two groups (CRSwNP and control).

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Staining, Control, Quantitative Proteomics, Gene Expression

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Different expressions of circRNAs and miRNAs shown in volcano plots. The circRNAs and miRNAs were widely distributed in all chromosomes. Each column corresponds to a circRNA or a miRNA, the green column toward the center represents significantly downregulated and the red one toward the outside means upregulated. (A) Differential expression of circRNAs. (B) Differential expression of miRNAs.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Quantitative Proteomics

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Top 40 circRNA-miRNA co-expression networks. Co-expression networks were analyzed by miRanda-3.3 software, combined with entropy values below 20. Stars represent circRNAs; squares represent miRNA; lines represent correlative relationships. Different sizes and colors represent the corresponding (up/down) relationship.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Expressing, Software

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Top 10 significant enriched GO terms analysis of miRNAs. Differentially expressed miRNAs were mainly involved in biological process, cellular component, and molecular function. Compared with the normal subjects, the significantly over-presented miRNAs in the CRSwNP group were mainly involved in positive regulation of biological process, intracellular part, and binding.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Binding Assay

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: KEGG pathway analysis of circRNAs and miRNAs. Biological roles of the differentially expressed circRNAs (A) and miRNAs (B) . Biological roles of the differentially expressed circRNAs include amebiasis, salivary secretion, cell adhesion molecules (CAMs), and so on. Biological roles of the differentially expressed miRNAs include pathways in cancer, endocytosis, thyroid hormone signaling pathway, and so on.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques:

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Confirmation of the expression of circRNAs and miRNAs using RNA-sequencing and quantitative real-time polymerase chain reaction (qRT-PCR). CircRNAs and miRNAs were validated by RNA-sequencing (CRSwNP( n = 6); control subjects ( n = 3) (A) ; and qRT-PCR in an independent cohort of five CRSwNP subjects and five control subjects (B) . Each sample was detected in triplicate. GAPDH was used as the reference gene for circRNAs, and hsa-miR-16 was used as the reference gene for miRNAs. The relative expression levels of hsa-circ-0031593, hsa-circ-0031594, hsa-circ-0109623, hsa-circ-0000736, hsa-miR-132-3p, hsa-miR-145-5p, hsa-miR-146a-5p, hsa-miR-125a-5p, and hsa-miR-27b-3p by qRT-PCR. * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Expressing, RNA Sequencing, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, Control

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Confirmation of the expression of circRNAs and miRNAs using quantitative real-time polymerase chain reaction (qRT-PCR). Sample numbers were expanded to perform qRT-PCR (CRSwNP ( n = 29); control subjects ( n = 25). GAPDH was used as the reference gene for circRNAs, and hsa-miR-16 was used as the reference gene for miRNAs. The heights of columns represent the fold changes of CRSwNP compared with the control group. The relative expression levels of hsa-circ-0031593, hsa-circ-0031594, hsa-circ-0109623, hsa-circ-0000736, hsa-miR-132-3p, hsa-miR-145-5p, hsa-miR-146a-5p, hsa-miR-125a-5p and hsa-miR-27b-3p by qRT-PCR. * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Expressing, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, Control

Journal: Frontiers in Molecular Biosciences

Article Title: Gene Expression Profiles of Circular RNAs and MicroRNAs in Chronic Rhinosinusitis With Nasal Polyps

doi: 10.3389/fmolb.2021.643504

Figure Lengend Snippet: Functional value of circRNAs and miRNAs. The receiver operating characteristic (ROC) curve analysis for the function of CRSwNP. The ROC curve analysis of hsa-circ-0031593, hsa-circ-0031594, hsa-miR-132-3p, hsa-miR-145-5p, hsa-miR-146a-5p, and hsa-miR-27b-3p and principal component 1 of these six ncRNAs for the significance in the occurrence and development of CRSwNP. The AUC (area under curves) values are given on the graphs.

Article Snippet: MiRNA expression profile microarrays of these specimens were performed by CapitalBio.

Techniques: Functional Assay