OGRE: calculate, visualize, and analyze overlap between genomic input regions and public annotations.

ABSTRACT:

Background

Modern genome sequencing leads to an ever-growing collection of genomic annotations. Combining these elements with a set of input regions (e.g. genes) would yield new insights in genomic associations, such as those involved in gene regulation. The required data are scattered across different databases making a manual approach tiresome, unpractical, and prone to error. Semi-automatic approaches require programming skills in data parsing, processing, overlap calculation, and visualization, which most biomedical researchers lack. Our aim was to develop an automated tool providing all necessary algorithms, benefiting both bioinformaticians and researchers without bioinformatic training.

Results

We developed overlapping annotated genomic regions (OGRE) as a comprehensi

SUBMITTER: Berres S 

PROVIDER: S-EPMC10369718 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature