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    1. Cell Biology
    2. Chromosomes and Gene Expression

    Methylated cis-regulatory elements mediate KLF4-dependent gene transactivation and cell migration

    Jun Wan et al.
    A new paradigm of DNA methylation mediated gene activation and chromatin remodeling provides a general framework to dissect the biological functions of DNA methylation readers and effectors.
    1. Biochemistry and Chemical Biology
    2. Chromosomes and Gene Expression

    ATP-dependent chromatin assembly is functionally distinct from chromatin remodeling

    Sharon E Torigoe et al.
    The Chd1 motor protein performs two functionally distinct ATP-dependent activities, nucleosome assembly and chromatin remodeling, to generate periodic arrays of nucleosomes.
    1. Genetics and Genomics
    2. Neuroscience

    Epigenomic landscapes of retinal rods and cones

    Alisa Mo et al.
    Genome-wide analysis of DNA methylation and accessible chromatin shows that retinal rods and cones have distinct epigenomic features that reflect differences in their development and function.
    1. Chromosomes and Gene Expression

    Two roles for the yeast transcription coactivator SAGA and a set of genes redundantly regulated by TFIID and SAGA

    Rafal Donczew et al.
    The transcription coactivators SAGA and TFIID have redundant function at a subset of yeast genes while SAGA also contributes to transcription of all genes through regulation of chromatin modifications.
    1. Biochemistry and Chemical Biology

    A new class of disordered elements controls DNA replication through initiator self-assembly

    Matthew W Parker et al.
    DNA replication initiation proteins contain a disordered domain that impacts each stage of their function, from chromatin recruitment and initiator co-assembly to the subsequent displacement of the factors from chromatin.
    1. Chromosomes and Gene Expression
    2. Plant Biology

    POWERDRESS interacts with HISTONE DEACETYLASE 9 to promote aging in Arabidopsis

    Xiangsong Chen et al.
    Genetic and biochemical studies reveal how a histone deacetylase acts together with other chromatin regulators to promote the onset of plant aging.
    1. Chromosomes and Gene Expression

    Chromatin-associated RNA sequencing (ChAR-seq) maps genome-wide RNA-to-DNA contacts

    Jason C Bell et al.
    ChAR-seq is a massively parallelized de novo RNA mapping assay, which is capable of generating hundreds to thousands of RNA-binding maps with no a priori knowledge of target RNAs.
    1. Microbiology and Infectious Disease

    Chromatin mapping identifies BasR, a key regulator of bacteria-triggered production of fungal secondary metabolites

    Juliane Fischer et al.
    Genome-wide chromatin mapping during bacterial-fungal cocultivation identifies the Myb-like transcription factor BasR as the major regulatory node of bacteria-triggered production of fungal secondary metabolites.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates

    Hannah K Long et al.
    Islands of non-methylated DNA are shown to perform a similar epigenetic role in many different vertebrate species.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver

    Bryan J Matthews, David J Waxman
    Certain types of 3D chromatin loops are easy to predict from existing or easily obtainable 2D information, which benefits gene expression studies in tissues/cells/organisms without extensive pre-existing 3D information.