Exploration and analysis of R-loop mapping data with RLBase

Henry E. Miller, Daniel Montemayor, Janet Li, Simon A. Levy, Roshan Pawar, Stella Hartono, Kumar Sharma, Bess Frost, Frederic Chedin, Alexander J.R. Bishop

Resultado de la investigación: Articlerevisión exhaustiva


R-loops are three-stranded nucleic acid structures formed from the hybridization of RNA and DNA. In 2012, Ginno et al. introduced the first R-loop mapping method. Since that time, dozens of R-loop mapping studies have been conducted, yielding hundreds of publicly available datasets. Current R-loop databases provide only limited access to these data. Moreover, no web tools for analyzing user-supplied R-loop datasets have yet been described. In our recent work, we reprocessed 810 R-loop mapping samples, building the largest R-loop data resource to date. We also defined R-loop consensus regions and developed a framework for R-loop data analysis. Now, we introduce RLBase, a user-friendly database that provides the capability to (i) explore hundreds of public R-loop mapping datasets, (ii) explore R-loop consensus regions, (iii) analyze user-supplied data and (iv) download standardized and reprocessed datasets. RLBase is directly accessible via the following URL: https://gccri.bishop-lab.uthscsa.edu/shiny/rlbase/.

Idioma originalEnglish (US)
Páginas (desde-hasta)D1129-D1137
PublicaciónNucleic acids research
EstadoPublished - ene 6 2023
Publicado de forma externa

ASJC Scopus subject areas

  • Genetics


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