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• W2799756421 abstract "Abstract Our genomes encode a wealth of transcription initiation regions (TIRs) that can be identified by their distinctive patterns of actively elongating RNA polymerase. We previously introduced dREG to identify TIRs using PRO-seq data. Here we introduce an efficient new implementation of dREG that uses PRO-seq data to identify both uni- and bidirectionally transcribed TIRs with 70% improvements in accuracy, 3-4-fold higher resolution, and >100-fold increases in computational efficiency. Using a novel strategy to identify TIRs based on their statistical confidence reveals extensive overlap with orthogonal assays, yet also reveals thousands of additional weakly-transcribed TIRs that were not identified by H3K27ac ChIP-seq or DNase-I-hypersensitivity. Novel TIRs discovered by dREG were often associated with RNA polymerase III initiation, bound by pioneer transcription factors, or located in broad domains marked by repressive chromatin modifications. We provide a web interface to dREG that can be used by the scientific community ( http://dREG.DNASequence.org )." @default.
• W2799756421 created "2018-05-17" @default.
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• W2799756421 date "2018-05-14" @default.
• W2799756421 modified "2023-10-15" @default.
• W2799756421 title "Identification of regulatory elements from nascent transcription using dREG" @default.
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• W2799756421 doi "https://doi.org/10.1101/321539" @default.
• W2799756421 hasPublicationYear "2018" @default.
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