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Additional file 1: Figures 1-3, Tables 1-8. Fig 1. Manhattan plots that illustrate the results from genome-wide association analyses for hearing difficulty, hearing aid use, speech-in-noise and tinnitus. Fig 2. Quantile-quantile plots for the results from genome wide association analyses on hearing difficulty, hearing aid use, speech-in-noise and tinnitus. Fig 3. Comparison of results from the current study and the recent GWAS for hearing difficulty. Table 1. Characteristics of UK Biobank participants that were included in GWAS for hearing-related traits. Table 2. Results from the LDSC analyses on hearing loss-related trait GWAS in the UK Biobank. Table 3. Brief description of the literature for genes within genetic loci that were associated with hearing-related traits in the UK Biobank. Table 4. Non-synonymous coding variants that were linked to genetic loci associated with hearing-related traits in the UK Biobank. Table 5. Expression quantitative trait loci (eQTLs) that were found to be linked to genetic loci associated with hearing related traits in the UK Biobank. Table 6. Summary of expression patterns of candidate proteins in other mammals. Table 7. Characteristics of tissue donors. Table 8. Antibodies used for immunohistochemical staining.

Additional file 4: Figure S1-S4.

Description of the 52 investigated SNPs. SNPs in bold are SNPs for which significant associations with DNA methylation were found. *Number in parenthesis = number of individuals with missing genotypes. (DOCX 108 kb)

Chromatin states at the genomic position of the 107 CpGs, in the 11 investigated tissues. AN adipose nuclei, BrainAC brain anterior caudate, BrainAG brain angular gyrus, BrainCG brain cingulate gyrus, BrainHIPPO brain hippocampus, BrainITL brain inferior temporal lobe, BrainSN brain substantia nigra, PBMC peripheral blood mononuclear primary cells, PI pancreatic islets, SM skeletal muscle. (DOCX 36 kb)

eQTLs found in four eQTL databases for each of the significant 28 SNPs. 1Investigated tissues: subcutaneous adipose tissue, aorta artery, tibial artery, esophagus mucosa, esophagus muscularis, heart left ventricle, lung, skeletal muscle, tibial nerve, sun-exposed skin, lower leg, stomach, thyroid, whole blood. 2Investigated tissues/cell lines: lymphoblastoid cell line (LCL), liver, monocytes, fibroblasts, T cells, brain cortex. 3Investigated tissues/cell lines: lymphoblastoid cell line (LCL), liver, brain cerebellum, brain frontal cortex, brain temporal cortex, brain pons. (DOCX 25 kb)

Replication of the 107 SNP-CpG associations found in blood. *Coefficient of the linear model associated with the obesity-associated SNP: positive for increased methylation with presence of risk allele; coefficients are calculated using M values. Coefficients with a hash symbol correspond to associations with raw p value

Description of the 107 associated CpGs found in blood and their annotation. *Coefficient of the linear model associated with the obesity-associated SNP: positive for increased methylation with presence of risk allele; coefficients are calculated using M values. (DOCX 38 kb)

Cell lines and target transcription factors of the ChIA-PET libraries. #Cell types are described in ENCODE project [89]. *Target transcription factors and their corresponding antibodies are described in the ENCODE project [90]. (DOCX 11 kb)