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    1. Developmental Biology
    2. Chromosomes and Gene Expression

    A global change in RNA polymerase II pausing during the Drosophila midblastula transition

    Kai Chen et al.
    The first zygotic genes are transcribed without RNA polymerase II pausing from a TATA-enriched promoter.
    1. Chromosomes and Gene Expression

    Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells

    Nicolas Descostes et al.
    Genome-wide analysis reveals novel functions for a post-translational modification to the carboxy-terminal domain (CTD) of RNA Polymerase II in mammals.
    1. Chromosomes and Gene Expression

    Reporter-ChIP-nexus reveals strong contribution of the Drosophila initiator sequence to RNA polymerase pausing

    Wanqing Shao et al.
    Reporter-ChIP-nexus captures paused Pol II on transfected plasmids and shows that pausing stability is influenced by core promoter sequences, especially by the initiator with a G at +2 position.
    1. Structural Biology and Molecular Biophysics
    2. Chromosomes and Gene Expression

    A novel SH2 recognition mechanism recruits Spt6 to the doubly phosphorylated RNA polymerase II linker at sites of transcription

    Matthew A Sdano et al.
    The tandem SH2 domains of Spt6 use novel mechanisms to bind unexpected phosphorylated serine and threonine residues in the RNA polymerase II linker to recruit Spt6 to sites of transcription and maintain repressive chromatin.
    1. Biochemistry and Chemical Biology

    JMJD6 cleaves MePCE to release positive transcription elongation factor b (P-TEFb) in higher eukaryotes

    Schuyler Lee et al.
    JMJD6 helps BRD4 to recruit CDK9 to RNA Polymerase II by disrupting 7SK snRNP complex.
    1. Chromosomes and Gene Expression

    A stable mode of bookmarking by TBP recruits RNA polymerase II to mitotic chromosomes

    Sheila S Teves et al.
    The general transcriptional machinery promotes the efficient reactivation of global transcription following mitosis, and thereby enables maintenance of transcriptional memory through the cell cycle.
    1. Chromosomes and Gene Expression

    RNA polymerase II stalling at pre-mRNA splice sites is enforced by ubiquitination of the catalytic subunit

    Laura Milligan et al.
    Ubiquitination close to the active site of RNAPII occurs in response to RNA processing events and is linked to transcriptional pausing, which is released following Bre5-Ubp3 mediated deubiquitination associated with the nascent transcript.
    1. Chromosomes and Gene Expression

    Promoter nucleosome dynamics regulated by signalling through the CTD code

    Philippe Materne et al.
    Phosphorylation of the C-terminal domain (CTD) of RNA Polymerase II controls nucleosomes dynamics at specific promoters to regulate transcription.
    1. Biochemistry and Chemical Biology
    2. Genetics and Genomics

    Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

    Iris Jonkers et al.
    The elongation rate of RNA Polymerase II varies greatly between and along genes, as this enzyme accelerates from stable pausing to rapid elongation within genes, and is influenced by CG-content, exons and chromatin.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    RNAP II CTD tyrosine 1 performs diverse functions in vertebrate cells

    Jing-Ping Hsin et al.
    Phosphorylation of tyrosine 1 in the carboxy-terminal domain (CTD) of the largest subunit of RNA Polymerase (RNAP) II functions to stabilize this domain, and facilitates turnover of upstream antisense RNAs.