Additional file 8: of Single-cell RNA sequencing reveals the impact of chromosomal instability on glioblastoma cancer stem cells

Table S1. Differentially expressed genes unadjusted for copy number. The column names refer to the T.score, T.test p value, Mann-Whitney U test p value, the log2 gene expression fold change and the average gene expression between GliNS2 and CB660 cells. Table S2. Copy number dependent differentially expressed genes. The column names that are labeled in green refer to the CNV unadjusted T.score, T.test p value, Mann-Whitney U test p value and the Bonferroni adjusted p value. The column names that are labeled in red refer to the CNV adjusted coefficient in the model, p value and adjusted p value. The column names that are labeled in blue refer to the pearson correlation coefficient between original gene expression and its estimated copy number, spearman correlation coefficient between original gene expression and its estimated copy number and the chromosome position of the genes. Table S3. Copy number independent differentially expressed genes. The column names that are labeled in green refer to the CNV unadjusted T.score, T.test p value, Mann-Whitney U test p value and the Bonferroni adjusted p value. The column names that are labeled in red refer to the CNV adjusted coefficient in the model, p value and adjusted p value. The column names that are labeled in blue refer to the pearson correlation coefficient between original gene expression and its estimated copy number, spearman correlation coefficient between original gene expression and its estimated copy number and the chromosome position of the genes. Table S4. Copy number adjusted differentially expressed genes enrichment. Gene ontology enrichment analysis of the CI genes. The column names refer to the gene ontology (GO) term, the number of genes in the GO term, the number of overlapped genes between CI genes and the GO term, the enrichment ratio of the GO term, the statistical significance of the enrichment (p value) and the statistical significance of the enrichment after multiple testing correction (p.adjust). Table S5. Genes enriched in negative regulation of cell cycle. The column names refer to the coefficient of the gene in the copy number adjusted model, the p value of each gene after copy number adjustment, the log2 gene fold change between GliNS2 and CB660 cells, the average gene expression between GliNS2 and CB660 cells, the Pearson and Spearman correlation between original gene expression and copy number variation, the position of each gene on the chromosome, the GO term ID and GO term name. Table S6. Dataset summary. Sample sizes for the five additional microarray gene expression datasets used to perform association analysis of clinical factors and prediction of patient survival. (XLSX 434 kb)