Additional file 9 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 9: Figure S4. CV and DS-CV differentiative potential. Representative images showing CV and DS-CV undergoing osteogenic (a) and adipogenic (b) differentiation after 7 and 14 days of induction. Osteogenesis was confirmed by von Kossa staining to highlight mineral deposition and adipogenesis by Oil-red-O positive cytoplasmic neutral lipids. Expression levels of osteogenic markers, (the transcription factor RUNX-2 and osteocalcin, Bglap) and (the nuclear receptor PPAR-g and adiponectin, Adipq) were determined by quantitative RT-PCR after 14 days of induction. Data were normalized to the reference gene (Gapdh) and represented as fold change compared with the expression untreated CV or DS-CV. Values are mean ± SD (n = 3). Asterisks depict highly significant (*p < 0.01 and **p < 0.001)

Additional file 8 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 8: Figure S3. Chromosome cytoband enrichment. The GSEA applied to all differentially expressed genes identify the enriched genomic locations (chromosome cytobands) from the msigdb hallmarks collections. a Three cytobands outside of chromosome 21 were found to be enriched with FDR < 0.1. The band chr22q11.25 was up-regulated and the bands, chr2q31.1 and chr6p21.32 were down-regulated. b Part of the detected DEGs mainly linked to chromosomes 2, 22 and 6

Additional file 1 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 1. Quantitative PCR between CV and DS-CV performed to evaluate the expression gene levels of collagen I at 7 and 14 days of osteogenic induction. Results show an increased expression in both CV and DS-CV. Data are showed as the mean (±SD) of three biological replicates

Additional file 3 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 3: Table S1. The list of differential expressed genes (DEGs) in CV and DS-CV samples

Additional file 5 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 5: Table S2. Gene set enrichment analysis (GSEA) for CHr21_2_ (GO process, KEGG pathway, Reactome pathway)

Additional file 4 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 4: Figure S2. Gene Set Enrichment Analysis (GSEA) for all genes (GO process, KEGG pathway and Reactome pathway). GSEA highlighted ranks genes by log fold change to identify up- and downregulated pathways and processes. In GO process (a), KEGG (b) and Reactome pathway (c) cell cycle processes or cell cycle pathways related are significantly down-regulated

Additional file 7 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 7: Table S4. Gene set enrichment analysis (GSEA) for CHr21_22_ (GO process, KEGG pathway, Reactome pathway)

Additional file 2 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 2: Figure S1. Heatmaps of Euclidean distance between CV and DS-CV. a Heatmap of Euclidean distance scores of normalized genes counts on chromosome 2 for DS-CV versus CV. Dendrograms show hierarchical clustering results. b Heatmap of Euclidean distance scores of normalized genes counts on chromosome 6 for DS-CV versus CV. c Heatmap of Euclidean distance scores of normalized genes counts on chromosome 22 for DS-CV versus CV. Dendrograms show hierarchical clustering results

Additional file 6 of Transcriptomic analysis of stem cells from chorionic villi uncovers the impact of chromosomes 2, 6 and 22 in the clinical manifestations of Down syndrome

Additional file 6: Table S3. Gene set enrichment analysis (GSEA) for CHr21_6_ (GO process, KEGG pathway, Reactome pathway)