Additional file 1 of DNA methylation patterns associated with konzo in Sub-Saharan Africa

Additional file 1: Table S1. Sample collection information. Sample IDs were relabeled with "Analysis ID" for improved readability on figures. Cohort specific information, location of sample collection, and age are also provided (average age = 13 years old). Table S2. Beta values of all konzo case and control samples. Beta values for individual konzo samples are labeled columns K1–K16; beta values for individual control samples are labeled C1–C16. Averages for both groups are labeled Average_Konzo_Bvalue and Average_Contrl_Bvalue. Mean for each group is labeled Average_Konzo_Bvalue_Total and Average_Contrl_Bvalue_Total. Table S3. DNA Methylation analysis tools, functions and references. Table S4. Output significantly differentially methylated probes from bioinformatic analysis. Threshold for significance: FDR p value < 0.05, log2 fold-change of less than or equal to − 1 or greater than or equal to 1. Column headers include the Illumina ID (IlmnID), Chromosome Number (Chromosome) and location (Coordinate_start or Coordinate_end), positive or negative strand (Strand), gene name (Name), location of probe to CpG (Group), log2 fold-change value (logFC), and FDR adjusted p value (adj.P.Val). Table S5. Output significantly differentially methylated probes from bioinformatic analysis with immune cell fraction analysis. Threshold for significance: FDR p value < 0.05, log2 fold-change of less than or equal to − 1 or greater than or equal to 1. Column headers include the Illumina ID (IlmnID), Chromosome Number (Chromosome) and location (Coordinate_start or Coordinate_end), positive or negative strand (Strand), gene name (Name), location of probe to CpG (Group), log2 fold-change value (logFC), and FDR adjusted p value (adj.P.Val). Table S6. Cell-type fraction means for Konzo cases and controls. Standard deviation (sd) was calculated for each mean. Column headers include: cell type (CellType), cohort specifics (Condition), mean (Mean), standard deviation (sd), and Upper (mean + sd) and Lower (mean-sd) bounds. Table S7. Output significantly enriched GO Terms. Threshold for significance: p value < 0.05. Column headers include the GO ID (ID), GO Term Description (GO Description), absolute log10 p value (abs_log10_pval), log10 p value (log10_pval), p value (pval), and genes associated with GO ID (genes). Table S8. Targeted methylation analysis results. ProbeID: Illumina probe IDs; Genes: Associated genes; Transcripts: Associated transcripts; Chromosome: chromosomal position; Region: Regions in the chromosome that get affected; %MethylationDifference: Difference in methylation percentage; logFC: Difference in log (base 2) fold change; p value: associated p value.