metagene Profiles Analyses Reveal Regulatory Element’s Factor-Specific Recruitment Patterns
Fig 2
Impact of noise removal and description of the pseudometrics.
Metagene plots of the BCL11A transcription factor (A) with noise removal using the NCIS algorithm and (B) without noise removal. The x-axis is centered on enhancers and promoters ±1000bp. The y-axis represents the mean occupancy normalized in reads per million (RPM). Each line represents the mean occupancy of the BCL11A replicates. Groups of transcriptional activity of enhancers or promoters are identified by different colors (red = no CAGE signal; green = low CAGE signal; blue = moderate CAGE signal; purple = high CAGE signal; see S1 Text). Ribbons represent the 95% confidence interval of the mean calculated using 1000 bootstraps. (C) Description of some of the pseudometrics implemented in the similaRpeak packages.