Farrow et al Supplementary tables 1 - 13

<p dir="ltr">Farrow et al Supplementary tables:</p><ol><li>All oligonucleotides included in the synthesied library (Agilent), see phenotype abbreviation descriptors above table</li><li>78 PD GWAS loci identified by Nalls et al 2019, and the number of elements tested per locus. Rows 82-95 show GWAS loci identified by Nalls et al that did not pass final QC, but were included in the library</li><li>21 PARK genes and summary data on the number of eQTLS identified in the brain, associated with the expression of these PARK genes</li><li>CoDeS3D output data highlighting all putative regulatory eQTLs associated with the expression of one or more of the PARK genes in brain cell-types and tissues</li><li>Summary data from Booms et al. highlighting putative regulatory SNPs in microglia</li><li>MPRA identified general enhancers, based on Z-score calculations (+/- 3SD)</li><li>Allele specific enhancers (<0.05, MPRAlm tool) identified in HEK293 cells. LD tag SNP listed where the SNP was a PDGWAS_LD SNP.</li><li>Elements excluded from allele-specific mpralm analysis due to insufficient barcode numbers for either the ref or alt allele</li><li>Mean depletion rank score for each element (SNP) included in the MPRA oligonucleotide library</li><li>FABIAN prediction analysis to identify which allele-specific regulatory elements may disrupt a transcription factor binding site</li><li>Epigenomic and regulatory annotations of the allele-specific and general enhancer sites, data obtained from Haploreg</li><li>CoDeS3D output data highlighting significant eQTLS for each of the allele-specific and general enhancer SNPs. Analysis was run across all tissues within the GTEx database and all Hi-C cell-types available (see doi: 10.1093/brain/awac022 for more details)</li><li>Differentially expressed genes in the KOLF.21J iPSC line for three of the MPRA identified allele-specific enhancers (rs11646653, rs78222414, rs3815082). Gene expression is compared between 3 replicates of the edited clones vs. 9 replicates of the WT cell line.</li></ol><p><br></p>