This is of particular relevance, provided our recent observation that tumor suppressor BRCA2 gene is involved in R-loop
prevention/resolution and that, therefore, R-loops
may represent a major potential source of tumorigenesis.
SINGAPORE, May 29, 2015 - (ACN Newswire) - Scientists from A*STAR's Bioinformatics Institute (BII) have developed an analytical model and computational tool to rapidly and accurately predict the occurrence and locations of R-loop Forming Sequences (RLFSs) in any genome or artificial nucleic acid sequences.
Scientists from BII's Genome and Gene Expression Data Analysis Division developed the Quantitative Model of R-loop Forming Sequence finder (QmRLFS-finder), making it freely available to accelerate research in this area.
It is our hope that an increased understanding of R-loop formation and functions will in turn allow us to better predict and treat various diseases.
1] "Quantitative model of R-loop forming structures reveals a novel level of RNA-DNA interactome complexity", Nucleic Acids Res.
The research findings described in this media release can be found in the Nucleic Acids Research, under the title, "QmRLFS-finder: a model, web server and stand-alone tool for prediction and analysis of R-loop forming sequences" by Piroon Jenjaroenpun, Thidathip Wongsurawat, Surya Pavan Yenamandra, and Vladimir A.
R-loops, thought to initiate cellular mutations, genome breaks and diseases, may be identified with an accuracy of between 80-90% at lower costs and effort
While R-loops were first described in 1976 and were for many years associated with only a few specific genes, it is only in recent years that understanding of their critical function and prevalence in the genomes has advanced, revolutionising the field.
This and current non-genome level experimental methods to detect R-loops in a double-helix DNA sequence take a long time, high costs and a high level of expertise found in only a few laboratories worldwide.
The use of the QmRLFS-finder would empower users to conduct research in this field and contribute to growing knowledge of the importance of R-loops to human biology and diseases.
As mutations in several RNA processing factors have been shown to stabilize R-loop
formation, we propose here to investigate the link between R-loops
and co-transcriptional alternative splicing (AS) and to decipher the underlying mechanisms, a hypothesis supported by our preliminary results identifying more than 3000 splice junctions affected by decreased R-loops
upon overexpression of RNase H1.