Sub-networks of expression around <i>Ddx60</i> and <i>Dhx58</i> genes in obese versus lean mice.

<p>Comparison of obese mice fed a high-fat/high-sucrose (HF/HS) diet and lean mice fed a chow diet (microarray data). Only edges corresponding to significant correlations are shown (P<0.05 and cor>0.4). The thicker and shorter edges correspond to stronger correlations. Networks were visualized using the gplot function of the sna R package.</p

Module membership of some genes of interest before (T0) and after surgery (T3), separately in RYGB and AGB.

<p>The module membership of a gene represents the correlation to its module eigengene. For each module, the eigengene at T3 was calculated on the same gene set as at T0.</p

Descriptive characteristics of the study population (<i>n</i> = 22 women).

<p>Data are mean ± SD or n (%)</p><p>Descriptive characteristics of the study population (<i>n</i> = 22 women).</p

Differential expression by time of the main genes disconnected from immune-response modules after surgery.

<p>Differential expression by time of the main genes disconnected from immune-response modules after surgery.</p

Gene coexpression networks at baseline identified by WGCNA.

<p>(A) Hierarchical clustering of module eigengenes. The open red square indicates the 5 modules with the highest proportions of differentially expressed genes (>20%). (B) Stability of modules by Jackknife analysis. The <i>x</i> axis indicates the mean Jaccard index and the <i>y</i> axis the proportion of genes correctly classified (i.e. attributed to the proper module in ≥ 18 out of 22 sub-analyses). The ellipse surrounds the most stable modules.</p

Pathways enriched in genes upregulated (A) and downregulated (B) after surgery-induced weight loss.

<p>The <i>x</i> axis indicates the significance of the GSEA score test for enrichment in the given pathway.</p

Network circle plots of other modules at baseline.

<p>See legend of <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0125718#pone.0125718.g004" target="_blank">Fig 4</a>. The <i>darkmagenta</i> reflects ectoderm, the <i>skyblue</i> and <i>steelblue</i> modules reflect the extracellular matrix and the <i>violet</i> module reflect lipid metabolism.</p

Network circle plots of immune-response modules at baseline.

<p>The figure depicts the connectivity patterns between the top 30 hubgenes of each module. Genes are ranked in the anticlockwise direction according to decreasing module membership. The size of each black circle indicates the gene connectivity (number of connected genes). An orange line indicates a positive correlation and a blue line a negative correlation between any 2 genes. The <i>turquoise</i> module reflects a general immune response, the <i>magenta</i> module reflects lymphocyte activation, the <i>tan</i> module reflects neutrophil activation and the <i>plum</i> module reflects the interferon signaling pathway.</p

Gene-level association analysis of genes identified in the SNP-level analysis

<p>Gene-level association analysis of genes identified in the SNP-level analysis</p

Variants associated with DCM.

<p>Variants associated with DCM.</p