ArticleMethods in molecular biology (Clifton, N.J.)2027
KAS-Seq Maps Transcriptional Dynamics and Active Enhancers by Examining Single-Stranded DNA Landscapes.
Article in Methods in molecular biology (Clifton, N.J.), 2027. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Genome-wide analysis of transcription activity and its regulation is critical for understanding cell functions. We have recently developed kethoxal-assisted single-stranded DNA sequencing (KAS-seq) and shown that ssDNA in coding regions can serve as a precise readout of transcriptional activity. Compared with ChIP-seq and nascent RNA sequencing, KAS-seq has a simpler procedure that works with low-input materials. KAS-seq reveals transcriptional dynamics with high temporal resolution and maps enhancer activity in the same assay. This chapter describes a detailed protocol for labeling, enriching, and sequencing ssDNA (KAS-seq) to assay transcription and enhancer activities in cultured mammalian cells.
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