RT Journal
A1 Wang, Isabel X.
A1 Grunseich, Christopher
A1 Fox, Jennifer
A1 Burdick, Joshua
A1 Zhu, Zhengwei
A1 Ravazian, Niema
A1 Hafner, Markus
A1 Cheung, Vivian G.
T1 Human proteins that interact with RNA/DNA hybrids
JF Genome Research 
JO Genome Research 
YR 2018 
FD September 01 
VO 28 
IS 9 
SP 1405 
OP 1414 
DO 10.1101/gr.237362.118 
UL http://genome.cshlp.org/content/28/9/1405.abstract 
AB RNA/DNA hybrids form when RNA hybridizes with its template DNA generating a three-stranded structure known as the R-loop. Knowledge of how they form and resolve, as well as their functional roles, is limited. Here, by pull-down assays followed by mass spectrometry, we identified 803 proteins that bind to RNA/DNA hybrids. Because these proteins were identified using in vitro assays, we confirmed that they bind to R-loops in vivo. They include proteins that are involved in a variety of functions, including most steps of RNA processing. The proteins are enriched for K homology (KH) and helicase domains. Among them, more than 300 proteins preferred binding to hybrids than double-stranded DNA. These proteins serve as starting points for mechanistic studies to elucidate what RNA/DNA hybrids regulate and how they are regulated.