Comparative Analysis of the Rna-Chromatin Interactome Data

Two types of experiments are used to study RNA-chromatin interactions: a search for the interactome of individual RNAs ("one-to-all" or OTA) and a genome-wide search for contacts of all RNAs ("all-to-all" or ATA). The article presents a comparative analysis of these data. The concept of "chromatin potential" is introduced, which shows the overrepresentation of contacts in ATA data compared to the expected value obtained from RNA sequencing data. It is shown that the use of this characteristic allows one to select RNAs that interact with chromatin more specifically. The consistency of the replicas is studied, and data from experiments of different types are compared. As a result of the analysis, estimates of the completeness and specificity of the contacts found are obtained.