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    1. Chromosomes and Gene Expression

    Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity

    Jeffrey M Alexander et al.
    Sox2 transcription is not correlated with spatial proximity of its essential regulatory enhancer in embryonic stem cells, suggesting gene transcription is not limited to periods of direct enhancer-promoter contact.
    1. Chromosomes and Gene Expression
    2. Developmental Biology

    Multi-enhancer transcriptional hubs confer phenotypic robustness

    Albert Tsai et al.
    Multiple enhancers in physical proximity can reinforce shared transcriptional 'hubs' to preserve their transcriptional output, providing a buffer during environmental stresses and genetic perturbations to preserve phenotypic robustness.
    1. Developmental Biology

    Arid3a regulates nephric tubule regeneration via evolutionarily conserved regeneration signal-response enhancers

    Nanoka Suzuki et al.
    Arid3a, a component of H3K9 me3 demethylases, regulates regeneration of the proximal nephric tubule through the evolutionarily conserved regeneration signal-response enhancer.
    1. Cancer Biology
    2. Genetics and Genomics

    Mismatch repair-signature mutations activate gene enhancers across human colorectal cancer epigenomes

    Stevephen Hung et al.
    Non-coding mutations in microsatellite-instable (MSI) colorectal tumors are prevalent and activate cancer-specific enhancers, thereby disrupting gene expression control.
    1. Cell Biology
    2. Chromosomes and Gene Expression

    H3K4 mono- and di-methyltransferase MLL4 is required for enhancer activation during cell differentiation

    Ji-Eun Lee et al.
    MLL4 (KMT2D) is a major mammalian H3K4 mono- and di-methyltransferase that is essential for enhancer activation, cell-type-specific gene expression, and cell differentiation.
    1. Computational and Systems Biology

    Quantitative perturbation-based analysis of gene expression predicts enhancer activity in early Drosophila embryo

    Rupinder Sayal et al.
    Mathematical modeling of mutagenesis data for a suite of enhancers uncovers new relationships between the binding sites of transcription factors that help in genome-wide prediction of enhancers.
    1. Developmental Biology
    2. Chromosomes and Gene Expression

    Fibroblast growth factors (FGFs) prime the limb specific Shh enhancer for chromatin changes that balance histone acetylation mediated by E26 transformation-specific (ETS) factors

    Silvia Peluso et al.
    FGF signalling is responsible for priming the developmental enhancer ZRS across the distal limb mesenchyme during development, allowing ETS factors to modulate its activity through balancing histone acetylation.
    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. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Transcription-factor-dependent enhancer transcription defines a gene regulatory network for cardiac rhythm

    Xinan H Yang et al.
    Transcription-factor-dependent noncoding RNA transcription illuminates components of a transcription-factor-dependent gene regulatory network that includes enhancer-associated long noncoding RNAs and is necessary for cardiac rhythm.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Dissecting the sharp response of a canonical developmental enhancer reveals multiple sources of cooperativity

    Jeehae Park et al.
    The sharp expression pattern driven by a classic, simple animal enhancer is determined by multiple molecular mechanisms, not only cooperative binding of the activating transcription factor as was previously thought.