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    1. Computational and Systems Biology

    CDK9-dependent RNA polymerase II pausing controls transcription initiation

    Saskia Gressel et al.
    CDK9 inhibition in human cells uncovers that Pol II pause duration regulates the frequency of productive transcription initiation.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    An evolutionary recent IFN/IL-6/CEBP axis is linked to monocyte expansion and tuberculosis severity in humans

    Murilo Delgobo et al.
    Mycobacterium tuberculosis exploits an IFN/IL6/CEBP axis linked to monocyte expansion in humans.
    1. Chromosomes and Gene Expression
    2. Cancer Biology

    Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms

    Mary Ann Allen et al.
    The first global analysis of the effects of the transcription factor p53 on RNA synthesis illuminates several novels aspects of the molecular mechanism of action of this potent tumor suppressor.
    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. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Functional evaluation of transposable elements as enhancers in mouse embryonic and trophoblast stem cells

    Christopher D Todd et al.
    Genetic and epigenetic editing experiments establish causal links between transposon-derived enhancers and gene regulation in mouse embryonic and extraembryonic lineages.
    1. Developmental Biology

    The Hox transcription factor Ubx stabilizes lineage commitment by suppressing cellular plasticity in Drosophila

    Katrin Domsch et al.
    The Hox transcription factor Ultrabithorax (Ubx) represses alternative gene programs during lineage development by lineage-specific Polycomb protein complex retention at Ubx-targeted chromatin sites.
    1. Chromosomes and Gene Expression

    Sustained TNF-α stimulation leads to transcriptional memory that greatly enhances signal sensitivity and robustness

    Zuodong Zhao et al.
    Sustained TNF-α induction consolidates transcriptional memory for faster, stronger, and more sensitive subsequent induction in an active DNA demethylation-dependent manner for memory genes including CALCB, a therapeutic target for migraine.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Drivers and sites of diversity in the DNA adenine methylomes of 93 Mycobacterium tuberculosis complex clinical isolates

    Samuel J Modlin et al.
    Fully assembled DNA methylomes from phylogeographically diverse clinical Mycobacterium tuberculosis complex isolates reveals 'intercellular mosaic methylation' as a source of epigenetic diversity.
    1. Chromosomes and Gene Expression
    2. Developmental Biology

    ARID1A loss in adult hepatocytes activates β-catenin-mediated erythropoietin transcription

    Rozenn Riou et al.
    A chromatin remodeling factor cooperates with Wnt signaling pathway to transcribe erythropoietin in the adult liver, inducing its secretion and a dramatic erythropoiesis in the spleen.
    1. Developmental Biology

    A complex regulatory landscape involved in the development of mammalian external genitals

    Ana Rita Amândio et al.
    In vertebrates, large regulatory landscapes sometimes behave as coherent regulatory units, which may explain the lack of effect sometimes observed when single enhancer sequences are deleted in isolation.