Publications

RLFS prediction and validation

• Wongsurawat T, Jenjaroenpun P, Kwoh CK, Kuznetsov VA. Quantitative model of R-loop forming structures reveals a novel level of RNA-DNA interactome complexity. Nucleic Acids Res 40, e16 (2012). click here
• Yeo AJ, Becherel OJ, Luff JE, Cullen JK, Wongsurawat T, Jenjaroenpun P, Kuznetsov VA, McKinnon PJ, Lavin MF. R-Loops in Proliferating Cells but Not in the Brain: Implications for AOA2 and Other Autosomal Recessive Ataxias. PLoS One 9, e90219 (2014). click here
• Jenjaroenpun P, Wongsurawat T, Yenamandra SP, Kuznetsov VA. QmRLFS-finder: a model, web server and stand-alone tool for prediction and analysis of R-loop forming sequences. Nucleic Acids Res. (2015) Jul 1;43(W1):W527-34 click here
• Kuznetsov VA, Jenjaroenpun P, Wongsurawat T, Yenamandra SP. Quantitative Structural Model for Prediction and Analysis of R-loop Forming Sequences in the Genomes. Page 60, Proceeding : Moscow Conference on Computational Molecular Biology (MCCMB'15), Moscow, Russia, July 16-19, 2015, ISBN 978-5-901158-27-2. click here

Genome-wide experimental R-loop detection

• Ginno,P.A., Lim,Y.W., Lott,P.L., Korf,I. and Chedin,F. GC skew at the 5' and 3' ends of human genes links R-loop formation to epigenetic regulation and transcription termination. Genome Res. (2013), 23, 1590-600. click here
• Lim,Y.W., Sanz,L.A., Xu,X., Hartono,S.R. and Chedin,F. Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi-Goutieres syndrome. Elife, (2015), 4. click here
• Nadel,J., Athanasiadou,R., Lemetre,C., Wijetunga,N.A., O Broin,P., Sato,H., Zhang,Z., Jeddeloh,J., Montagna,C., Golden,A., et al. RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships. Epigenetics Chromatin, (2015), 8, 46. click here