{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T21:59:18Z","timestamp":1789077558026,"version":"build-2803163510"},"reference-count":55,"publisher":"American Association for the Advancement of Science (AAAS)","issue":"48","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Sci. Adv."],"published-print":{"date-parts":[[2022,12,2]]},"abstract":"<jats:p>R-loops affect transcription and genome stability. Dysregulation of R-loops is related to human diseases. Genome-wide R-loop mapping typically uses the S9.6 antibody or inactive ribonuclease H, both requiring a large number of cells with varying results observed depending on the approach applied. Here, we present strand-specific kethoxal-assisted single-stranded DNA (ssDNA) sequencing (spKAS-seq) to map R-loops by taking advantage of the presence of a ssDNA in the triplex structure. We show that spKAS-seq detects R-loops and their dynamics at coding sequences, enhancers, and other intergenic regions with as few as 50,000 cells. A joint analysis of R-loops and chromatin-bound RNA binding proteins (RBPs) suggested that R-loops can be RBP binding hotspots on the chromatin.<\/jats:p>","DOI":"10.1126\/sciadv.abq2166","type":"journal-article","created":{"date-parts":[[2022,11,30]],"date-time":"2022-11-30T13:59:08Z","timestamp":1669816748000},"source":"Crossref","is-referenced-by-count":29,"title":["spKAS-seq reveals R-loop dynamics using low-input materials by detecting single-stranded DNA with strand specificity"],"prefix":"10.1126","volume":"8","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9968-9909","authenticated-orcid":true,"given":"Tong","family":"Wu","sequence":"first","affiliation":[{"name":"Department of Chemistry, University of Chicago, Chicago, IL, USA."},{"name":"Howard Hughes Medical Institute, University of Chicago, Chicago, IL, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ruitu","family":"Lyu","sequence":"additional","affiliation":[{"name":"Department of Chemistry, 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