R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells

By Kefei Yu, Frédéric Chedin, C. Hsieh, T. E. Wilson, M. Lieber. Nature Immunology, 2003

760 citations recorded by the source corpus.

Subfields: Immunology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/ddd4da7f9e04611f1b97bd47e69504284e9bf691

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Citations in the corpus

Class-switch recombination: interplay of transcription, DNA deamination and DNA repair (2004, background): “More recently, these RNA–DNA hybrids were demonstrated to form R loops, in which the displaced non-template strand exists as single-stranded (ss) DNA, both in vitro”
R loops: from transcription byproducts to threats to genome stability. (2012, background): “S regions can form R loops in artificial bacterial systems (Reaban and Griffin, 1990) and in B cells, in which they can exceed 1 kb as determined by bisulfite mutagenesis (Yu et al., 2003).”
R-loops as cellular regulators and genomic threats (2019, background): “As with many R-loop driven phenotypes, exogenous RNase H treatment is used to ensure this signal depends on an RNA-DNA hybrid (Yu et al., 2003).”
The regulation of IgA class switching (2008, background): “This structure generates R loops in which the displaced non-template strand exists as a G-rich single-stranded DN”
The Mechanism of Double-Strand DNA Break Repair by the Nonhomologous DNA End Joining Pathway (2010, background): “In mammalian CSR, the single strandedness appears to be largely owing to formation of kilobase-length R loops that form at specialized CSR switch sequences because of the extremely (40% to 50%) G-rich RNA transcript that is generated at these specialized recombination zones (144, 145).”
Mechanism and regulation of class switch recombination. (2008, background): “This hybrid formation leaves the top G-rich DNA strand single-stranded over long stretches (190, 191), thereby making the top strand a target Stavnezer et al.”
Genome instability: a mechanistic view of its causes and consequences (2008, background): “As will be discussed below, class-switch recombination (CSR) of Ig genes, a developmentally regulated TAR process, also involves R-loop formatio”
R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters (2012, positive): “Formation of Long, Stable R Loops at the Endogenous Human SNRPN CGI In order to detect R loops at endogenous loci, we used a previously described R loop footprinting method (Yu et al., 2003).”
Inactivation of the SR protein splicing factor ASF/SF2 results in genomic instability. (2005, methodology): “DNA was analyzed by both standard agarose gel electrophoresis (top panel) immunoglobulin class switch recombination (Yu et al., 2003)”