Identification of the human DPR core promoter element using machine learning.

ABSTRACT: The RNA polymerase II (Pol II) core promoter is the strategic site of convergence of the signals that lead to the initiation of DNA transcription^1-5, but the downstream core promoter in humans has been difficult to understand^1-3. Here we analyse the human Pol II core promoter and use machine learning to generate predictive models for the downstream core promoter region (DPR) and the TATA box. We developed a method termed HARPE (high-throughput analysis of randomized promoter elements) to create hundreds of thousands of DPR (or TATA box) variants, each with known transcriptional strength. We then analysed the HARPE data by support vector regression (SVR) to provide comprehensive models for the sequence motifs, and found that the SVR-based approach is more effective tha

SUBMITTER: Vo Ngoc L 

PROVIDER: S-EPMC7501168 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature