Additional file 1: Table S1. of Reprogramming of stromal fibroblasts by SNAI2 contributes to tumor desmoplasia and ovarian cancer progression

Abstract

Listing of the Genes included in the signatures used from MSigDB or published literatures. Listing of the detailed genes included in the aforementioned signatures, all of which used for gene set enrichment analysis (GSEA) or single sample GSEA (ssGSEA) analysis were extracted either from MSigDB ( http://software.broadinstitute.org/gsea/msigdb/index.jsp ) or published literatures. Table S2. Clinicopathological characteristics of our enrolled ovarian cancer patients analysed by immunohistochemistry dichotomised by SNAI2 protein expression levels in carcinoma cells or tumor stromal fibroblasts. The associations between SNAI2 expression level and variant clinicopathological characteristics of ovarian cancer patients were analysed with χ2 test (Fisher’s exact test). Table S3. Univariate and multivariate Cox regression analysis of SNAI2 expression level and overall survival of ovarian cancer patients. The prognostic significance of SNAI2 expression and other clinicopathological variables was first assessed by univariate Cox, followed by multivariate Cox regression analysis regarding to the overall survival time in a cohort of 160 ovarian cancer patients. Table S4. Genes significantly positively correlated with SNAI2 expression in the ‘mesenchymal’ subtype of ovarian TCGA dataset. List of the 111 genes that were calculated significantly positively related with SNAI2 expression in the ‘mesenchymal’ subtype of ovarian TCGA profile, using the R2 Genomic Analysis and Visualization Platform ( http://r2.amc.nl ). Genes with a Pearson correlation greater than or equal to 0.35 and a p value less than 1% were selected from each cohort. Table S5. Genes significantly positively correlated with Snai2 expression in the ‘C1’ subtype of Tothill’s dataset (GSE9891). List of the 288 genes that were calculated strongly positively correlated with SNAI2 expression in the ‘C1’ subtype of Tothill’s dataset (GSE9891), using the R2 Genomic Analysis and Visualization Platform ( http://r2.amc.nl ). Genes with a Pearson correlation greater than or equal to 0.4 and a p value less than 1% were selected from each cohort. Table S6. Listing of the 77 Genes included in the calculated ‘Snai2 mesenchymal signature’ of ovarian cancer. Designation of our defined ‘Snai2 mesenchymal signature’ and listing of the 77 genes included in the signature, through Overlapping analysis of the gene set that were calculated positively correlated with SNAI2 expression in the ‘mesenchymal’ subtype of ovarian TCGA profile and the ‘C1’ subtype of Tothill’s dataset (GSE9891). (XLSX 120 kb)