CTCF-motif directionality controls CTCF-mediated chromatin interactions and correlates with topological domain structure

R scripts and data files containing analysis worklofs and results

R scripts:

topological_domains.R

contains the data analysis workflow used in the report. E.g creation of naively created loops and loops under constraints like motive directionality and length. Furthermore, a workflow to check if particular ctcf loop types cross topological domain borders.

within_loop_analysis.R

workflow to check for enrichment of particular tfs within ctcf mediated loops. ANOVA and Tukeyhsk

utility_functions.R

mainly a function like bedtools shuffle but for GRanges objects.

R data:

ctcf_bs_motif_orientation.R

contains object containing the ctcf chip-seq bs but with motif and motif orentation.

simulated_loops.Rdata

object containing simulated loops.

simulated_loops_motif_matched.Rdata

object containing simulated ctcf loops but under constraints like loop length, motif and motif direcrtionality.