Journal: bioRxiv

Article Title: Desmoplakin mutations in cardiac fibroblasts cause TGFβ1-mediated pathological fibrogenesis in desmoplakin cardiomyopathy via beclin-1 regulation

doi: 10.1101/2024.09.09.612149

Figure Lengend Snippet: A , A simple diagram of 3 structural domains in DSP. B, All MSCs express MSC phenotypes by flow cytometry. C, An unbiased clustering analysis of global transcriptome mRNA expression profiles (a Heat map) of iPSC-MSCs, cardiac FBs, and skin FBs from the same donor (SW) by RNAseq. Increased and decreased gene expressions are shown in red and green, respectively. D-E, DSP -mutant MSCs show ≤ 50% WT DSP mRNA and DSP protein levels when compared to normal MSCs. F, All MSCs expressed similar immunostaining intensities and mRNA levels of aSMA at baseline and after TGFb1. The number of independent biological replicates for each data point is shown in all Figures. Asterisks denote p <0.05 by ANOVA except F by Kruskal-Wallis. Values are means ± SD. Scale bars are 50 µm. Raw data are in the Source Data Files for verification.

Article Snippet: To obtain a global view of how DSP deficiency affects the gene expression networks (Figures S6E-F and S7), we used Illumina mRNA expression microarrays to profile iPSC-MSCs from DSP R160X proband, DSP R160X proband’s mother (carrying the same heterozygous DSP mutation but with no clinical ACM), DSP E1159R proband, and the normal (SW) line at baseline to find common deregulated pathways.

Techniques: Flow Cytometry, Expressing, Mutagenesis, Immunostaining

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: