Understanding the basic mechanisms of transcription regulation is a major challenge in modern biology. Regulation of transcription is a complex process in which transcription factors (TFs) play a key role. Chromatin immunoprecipitation followed by high throughput sequencing is a widely and intensively used experimental technology for the identification of TF binding sites (TFBSs). Nowadays, there are tens or hundreds of ChIP-seq datasets measured for the same transcription factor. Meta-processing of such datasets into an integrated dataset is relevant. We have developed a novel method for creating these integrated datasets of TFBSs. This method consists of a three-stage application of the Rank Aggregation approach. The identified TFBSs can be sorted to further select the most reliable TFBSs. We have found a high saturation of site motifs in the most reliable TFBSs. We have also demonstrated that the most reliable TFBSs prefer to be located in open chromatin regions.