Fat distribution in women associates with depot-specific transcriptomics signatures and chromatin structure

Figure S1: Depot-specific gene expression in adipocytes. (A and B) - Heat map representation of depot-specific gene expression determined by RNA-seq from the abdominal (ABD) and gluteofemoral (GF) depots in the 5 apple (left side, in red) and 5 pear-shaped women (right side, in blue). (C and D) - Venn diagrams depict number of genes up-regulated in each depot only in apples (red circle), only in pears (blue circle) or in both groups (intersection). Figure S2: ATAC-seq peaks in ABD and GF depots for both groups of body shape women. A- Read distribution plot of open chromatin regions in apple and pear adipocytes isolated from ABD and GF depot from each subject. Sub=Subject; Rep=Replicate. (B-C) Correlation plot of all the accessible chromatin regions defined by ATAC-seq from the 10 participants (Apples and Pears) in Abdominal (B) and gluteofemoral (C) depot. D- Genomic distribution of the accessible chromatin regions in abdominal and GF depot. E- Graphic representation of the genomic distribution of the apple and pear-specific open chromatin regions observed in the GF depot (p value<0.05). Figure S3: Differential binding analysis identifies depot-specific chromatin accessibility in adipocytes isolated from apple and pear-shaped women. A- Correlation plot of accessible chromatin regions defined by ATAC-seq from fat depots (Gluteofemoral-GF, Abdominal-ABD) in apple women (left side, in red) and pear women (right side, in blue). B- Volcano plot representation of abdominal and GF-specific open chromatin regions in adipocytes isolated from apples (left side, p≤0.05) and pear (right side, p≤0.1) women. Abdominal- (highlighted in darker red and darker blue) and GF-specific (highlighted in lighter red and lighter blue) open chromatin regions are represented. C- Promoter analysis of differentially expressed genes in ABD and GF. Boxplot representation of the average RPKM calculated from the 5 apple participants (left side) or from the 5 pear participants (right side) *p<0.05, **p<0.01, ***p<0.001 paired t-test. Figure S4: Heat map representation of the individual gene expression data of the nuclear receptor ligand identified in abdominal (ABD) and gluteo-femoral (GF) adipocyte fraction isolated from apple- and pear-shaped subjects. In red are the nuclear receptor ligand the most expressed. SUPPLEMENTAL TABLES Table S1. Clinical characteristics of the 10 participants used for RNA-seq and ATAC-seq analysis. Table S2. Computational tools, docker images and Common Workflows Language used to process the RNA-Seq data. Table S3. List of genes differentially regulated between ABD and GF depot in apple- and pear-shaped women. Table S4. List of genes differentially regulated between apple and pear group in ABD and GF depots. Table S5. List of genes up-regulated in apple-shaped women in the GF depot and involved in inflammatory/immune pathways with the associated average TPM values (average from 5 apple and 5 pear subjects). Table S6. List of ATAC-seq peaks body-shape specific in ABD and GF depots. Table S7. List of ATAC-seq peaks depot-specific in apple- and pear-shaped women.