Additional file 2 of Transcriptional profiling of multiple system atrophy cerebellar tissue highlights differences between the parkinsonian and cerebellar sub-types of the disease

Additional file 2 Table S1. Differentially expressed genes detected in the cohort 1 and cothort 2 in MSA. Table S2. Differentially expressed genes detected in the cohort 1 and cothort 2 in MSA-P. Table S3. Differentially expressed genes detected in the MSA-C in cohort 1 and 2 ranked by p-value. Table S4: Complete significant Results of the p-value combination for MSA (MSA-P + MSA-C). Table S5: Complete significant results of the p-value combination for MSA-P. Table S6: Complete significant results after p-value combination of the differential expression results from the two MSA-C cohorts. Table S7. Differentially expressed genes in SND (A) and OPCA (B) MSA patients from cohort 2. Genes significant also stratifying by the corresponding clinical subtype are reported in grey (MSA-P/SND or MSA-C/OPCA). Table S8. Complete results of the functional network enrichment analysis for the DEGs detected in MSA-C. Table S9. Differentially expressed genes detected in the comparison MSA-C vs MSA-P in cohort 1. No differentially expressed genes were detected in cohort 2. Table S10: Top 10 results after p-value combination of the differential expression results (MSA-C vs MSA-P) from the two MSA-C cohorts. No genes showed significance after multiple test correction. Table S11. Differentially expressed genes from the comparison OPCA vs SND patients from cohort 2. Table S12. Results of the GO analysis from the 156 DEGs obtained in the comparison OPCA vs SND. Table S13. Enrichment of AD genes (AMP-AD datasets) among MSA-C Differentially expressed genes. (A) Enrichment analysis run using different DEGs cutoff to select AD genes. (B) Enrichment analysis run using non-DEGs (adj p ≥ 0.950). Table S14. Overlap between MSA-C DEGs, AD temporal cortex and AD parahippocampal gyrus (data from AMP-AD). Genes are ranked by adj p in MSA-C. Table S15. Differentially expressed genes detected in oligodendrocytes (adj p < 0.05). Table S16. Results of the Cell Specific GO analysis. Table S17. Details of the genes included in the color-coded modules significantly associated with MSA-C. The genes are ranked for Module Membership p-value. Hub genes for each module are indicated in bold. Table S18. Complete results of the enrichment analysis conducted on the 4 co-expression modules associated with MSA-C. The GO categories are ranked by p-value. Table S19: Comparison between the differentially expressed genes obtained in the study from Darbelli et al. (2017) involving mice with excised QKI-exon 2 (QKI deficient) versus QKI-proficient.