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  1. No Access

    Article

    Chromatin run-on and sequencing maps the transcriptional regulatory landscape of glioblastoma multiforme

    The human genome encodes a variety of poorly understood RNA species that remain challenging to identify using existing genomic tools. We developed chromatin run-on and sequencing (ChRO-seq) to map the location...

    Tinyi Chu, Edward J. Rice, Gregory T. Booth, H. Hans Salamanca… in Nature Genetics (2018)

  2. No Access

    Article

    Base-pair-resolution genome-wide map** of active RNA polymerases using precision nuclear run-on (PRO-seq)

    Mahat et al. describe how to map the genome-wide positions of active RNA polymerases using a modified nuclear run-on approach called PRO-seq. Details for PRO-cap, a modification that identifies transcription star...

    Dig Bijay Mahat, Hojoong Kwak, Gregory T Booth, Iris H Jonkers… in Nature Protocols (2016)

  3. No Access

    Article

    Identification of active transcriptional regulatory elements from GRO-seq data

    Using data from global run-on and sequencing (GRO-seq) or related methods, the dREG software identifies a new class of transcriptional regulatory elements with strong evidence for directing active transcription.

    Charles G Danko, Stephanie L Hyland, Leighton J Core, Andre L Martins… in Nature Methods (2015)

  4. No Access

    Article

    Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers

    John Lis, Adam Siepel and colleagues map transcription start sites across the genome in two human cell lines using a nuclear run-on protocol called GRO-cap. They find a common architecture of initiation at bot...

    Leighton J Core, André L Martins, Charles G Danko, Colin T Waters… in Nature Genetics (2014)

  5. No Access

    Article

    Nuclear stability and transcriptional directionality separate functionally distinct RNA species

    Mammalian genomes are pervasively transcribed, yielding a complex transcriptome with high variability in composition and cellular abundance. Although recent efforts have identified thousands of new long non-co...

    Robin Andersson, Peter Refsing Andersen, Eivind Valen… in Nature Communications (2014)

  6. No Access

    Article

    X chromosome dosage compensation via enhanced transcriptional elongation in Drosophila

    Different organisms use a variety of mechanisms to compensate for X chromosome dosage imbalance between the sexes. In Drosophila, the MSL (Male-specific lethal) complex increases transcription on the single X chr...

    Erica Larschan, Eric P. Bishop, Peter V. Kharchenko, Leighton J. Core… in Nature (2011)

  7. No Access

    Article

    Breaking barriers to transcription elongation

  8. Many RNA polymerase II (Pol II)-transcribed genes are regulated at the level of transcription elongation, which has three main stages: promoter escape, promote...

    9. Abbie Saunders, Leighton J. Core, John T. Lis in Nature Reviews Molecular Cell Biology (2006)