Additional file 1: of Genome-wide mapping of 5-hydroxymethyluracil in the eukaryote parasite Leishmania

The datasets supporting the conclusions of this article as well as experimental designs and protocols are included within the article and its additional file. Table S1. Short ODNs used for the LC-MS study. Table S2. Sequences of ODN templates and primers used to synthesize model ODNs by PCR. Figure S1. Chemical pull-down of modified ODNs. Figure S2. DNA nucleobase modification profiles of L. major and L. donovani GR383WT1. Figure S3. Binding specificity of the antibody (ab19735) used for 5hmdU-DIP. Figure S4. Base J chemical pull down. Figure S5. Assessment of experimental biases. Table S3. Libraries prepared in this study. Table S4. DREME motif sequences and additional experimental details for synthesis of oligo DNA models, preparation of DNA models, reaction with oligo DNA models, quantitative PCR analysis to assess enrichment efficacy of chemical pull-down, affinity validation of ab19735 by ELISA, mononucleotide composition analysis, 5hmU-DIP, melting temperature analysis, and total RNA sequencing. (PDF 1440 kb)