Behavior of the density current in a semi-closed water body and tidal river

研究科: 千葉大学大学院自然科学研究科博士(学術)報告番号:甲第学287

Integrated Left Ventricular Global Transcriptome and Proteome Profiling in Human End-Stage Dilated Cardiomyopathy - Fig 7

<p>Venn diagrams representing overlap of (A) predicted upstream regulators, (B) enriched GO biological processes, and (C) KEGG pathways between differentially expressed genes and proteins.</p

Functional interaction network of 16 genes.

<p>Genes were clustered according to their associated pathways, which are shaded with a different color. Green nodes indicate down-regulated, red, up-regulated, and linker genes (non-colored nodes). The edges represent interactions between genes, with arrows indicating directed interactions and dotted lines indicating predicted relationships.</p

Gene interaction network analyses of 16 commonly dysregulated proteins/genes based on the Ingenuity knowledge base.

<p>Green indicates down-regulated, and red, up-regulated. The color intensity is correlated with fold change. Straight and dashed lines represent direct or indirect gene to gene interactions, respectively.</p

GO Biological Process and pathway analyses of differentially expressed genes (DEGs) and proteins (DEPs) using the PANTHER classification system.

<p>(A-B) Pie charts displaying significantly enriched biological processes respectively, and (C-D) signaling pathways associated with DEGs and DEPs.</p

Validation analyses using independently performed microarray and RNAseq datasets.

<p>(A) <b>The PCA and (B) unsupervised hierarchical clustering using our 16 gene set discriminated individuals as DCM and controls in Barth et al.’s [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0162669#pone.0162669.ref016" target="_blank">16</a>] microarray data</b>. Samples are in the columns and genes are in the rows (gene symbols are listed on the right). The expression level of each gene across samples is scaled to [−3, 3] interval. The expression levels are depicted using a color scale as shown at the top of the figure. (C) <b>PCA analysis using RNA-Seq dataset for (non-ischemic cardiomyopathy (NICM) (n = 8) and normal controls (n = 8) from Yang et al [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0162669#pone.0162669.ref026" target="_blank">26</a>].</b> (D) <b>Venn diagram representing the genes common to DEGs in our DCM patients (Colak et al[<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0162669#pone.0162669.ref015" target="_blank">15</a>]) with DEGs in validation datasets from datasets from Yang et al [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0162669#pone.0162669.ref026" target="_blank">26</a>] and Liu et al [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0162669#pone.0162669.ref023" target="_blank">23</a>] for RNA-Seq data for independent samples from human failing heart</b>.</p

Overlapping KEGG pathways for mRNA and proteomics in in dilated cardiomyopathy.

<p>Overlapping KEGG pathways for mRNA and proteomics in in dilated cardiomyopathy.</p

The 16 overlapping differential expressed genes/proteins in transcriptomic and proteomic data in the study.

<p>The 16 overlapping differential expressed genes/proteins in transcriptomic and proteomic data in the study.</p

Schematic representation of the p16-related regulation of AUF1,

<p>E2F1 and CyclinD1. See text for details.</p

p16 modulates apoptosis through E2F1.

<p>(A) Western blots showing the expression of the indicated pro-and anti-apoptotic proteins in U2OS and EHI. (B) Western blots showing the expression of the indicated proteins in U2OS, U2OS cells stably transfected with plasmids encoding either scrambled sequence (ctl) or E2F1 (+). The numbers below the bands indicate the corresponding expression levels. (C) U2OS, EH1 and E2F1-expressing U2OS cells were either mock-treated or challenged with doxorubicin (2 µM) and then re-incubated for 72 hrs. Cells were then divided into two groups; one was used to analyze cell death by annexinV/PI flow cytometry. The numbers in the charts indicate the proportions of early and late apoptosis. (D) Histogram showing the proportions of apoptosis (early+late) induced by different doses of doxorubicin. The error bars represent standard deviation of three different experiments. (E) The second group of cells was used to assess the level of the indicated proteins by immunoblotting. (F) Graph showing the Bax/Bcl-2 ratio in the indicated cells after treatment with doxorubicin. Error bars represent standard deviation of at least three different experiments.</p