Data and tools used in FUMA are all publicly available from the following links (details are in Supplementary Table 1). dbSNP build 146 rsID archive: ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_grch137p13/database/organism_data/RsMergeArch.bcp.gz, 1000 genome phase 3 reference panel: ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/, CADD: http://cadd.gs.washington.edu/download, RegulomeDB: http://www.regulomedb.org/downloads, 15-core chromatin state: http://egg2.wustl.edu/roadmap/data/byFileType/chromhmmSegmentations/ChmmModels/coreMarks/jointModel/final/, GWAS catalog: https://www.ebi.ac.uk/gwas/, GTEx v6: http://www.gtexportal.org/home/, Blood eQTL Browser: http://genenetwork.nl/bloodeqtlbrowser/, BIOS QTL Browser: http://genenetwork.nl/biosqtlbrowser/, BRAINEAC: http://www.braineac.org/, HiC (GSE87112): https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE87112, promoter/enhancer regions: http://egg2.wustl.edu/roadmap/data/byDataType/dnase/, pLI score: ftp.broadinstitute.org/pub/ExAC_release/release0.3.1/functional_gene_constraint, ncRVIS score: http://journals.plos.org/plosgenetics/article/file?type=supplementary&id=info:doi/10.1371/journal.pgen.1005492.s011, MsigDB: http://software.broadinstitute.org/gsea/msigdb/, WikiPathways: http://wikipathways.org/index.php/WikiPathways, ANNOVAR: http://annovar.openbioinformatics.org/en/latest/, and MAGMA: https://ctg.cncr.nl/software/magma. GWAS summary statistics used in this study is available from the followings; BMI: http://portals.broadinstitute.org/collaboration/giant/index.php/GIANT_consortium_data_files, CD: ftp.sanger.ac.uk/pub/consortia/ibdgenetics/, SCZ: http://www.med.unc.edu/pgc/results-and-downloads.
