DJ-1 Supplementary Tables S1-S8

Table S1: Raw normalized TMM data from sncRNA-seq for 9 samples (3 samples for each condition) of miRNAs in DJ-1 OX, Empty plasmid and DJ1 OX & X-ray. Table S2: Filtered results sncRNA-seq for DEMs (differnetially expressed miRNAs) miRNAs in 5 sets (each is 622 lines) (A) N.T (not treated) X-ray vs NT. (B) KD DJ-1-1 vs NT. (C) KD DJ-1 vs KD RULC; (D) siRNA RULC-X-ray vs siRNA RULC. (E) KD DJ-1 X-ray vs KD- siRNA DJ-1. Table S3: Raw normalized TMM data from sncRNA-seq for 15 samples (3 samples for each group) of miRNAs in N.T (not treated) and NT X-ray, KD by siRNA RULC, KD siRNA DJ-1, KD-by siRNA DJ-1 X-ray. Table S4: Filtered results sncRNA-seq for DEMs (differnetially expressed miRNAs) miRNAs in DJ-1 OX settings. Tables S2A and Table S2B are for DEMs of DJ-1 OX vs. Empty plasmid and DJ1 OX & X-ray vs DJ1 OX. Table S5: miRTarBase only MTI functional target lists, experimenrtal evidence and reference for downregulation for the setting of: (A) Downregulated KD DJ-1 X-ray vs KD DJ-1 (399 unique targets). (B) Upregulation for the setting of KD DJ-1 X-ray vs KD DJ-1 (224 unique targets). Table S6. The expression trend of 31 genes associated with core miRNA machinery (biogenesis, trafficking, stability). Analysis partitioned to (A) KD of DJ-1 X-ray vs DJ-1 KD. (B) OX of DJ-1 X-ray vs DJ-1 OX. (C) A list of 31 miRNA core machinery genes Table S7: Filtered DEGs for coding genes (13,594) identified by RNA-seq for OX of DJ-1 X-ray vs DJ-1 OX. Table S8: Filtered DEGs for coding genes (13,966) identified by RNA-seq for KD of DJ-1 X-ray vs DJ-1 KD.