RNAProt: an efficient and feature-rich RNA binding protein binding site predictor.

ABSTRACT:

Background

Cross-linking and immunoprecipitation followed by next-generation sequencing (CLIP-seq) is the state-of-the-art technique used to experimentally determine transcriptome-wide binding sites of RNA-binding proteins (RBPs). However, it relies on gene expression, which can be highly variable between conditions and thus cannot provide a complete picture of the RBP binding landscape. This creates a demand for computational methods to predict missing binding sites. Although there exist various methods using traditional machine learning and lately also deep learning, we encountered several problems: many of these are not well documented or maintained, making them difficult to install and use, or are not even available. In addition, there can be efficiency issues, as well as littl

SUBMITTER: Uhl M 

PROVIDER: S-EPMC8372218 | biostudies-literature | 2021 Aug

REPOSITORIES: biostudies-literature