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    1. Computational and Systems Biology
    2. Chromosomes and Gene Expression

    An experimentally validated network of nine haematopoietic transcription factors reveals mechanisms of cell state stability

    Judith Schütte, Huange Wang ... Berthold Göttgens
    A computer model built on insights gained from comprehensive experimental analysis reveals mechanisms of blood stem cell regulation.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Requirements for RNA polymerase II preinitiation complex formation in vivo

    Natalia Petrenko, Yi Jin ... Kevin Struhl
    The requirements for preinitiation complex formation/stability and transcription by RNA polymerase II in yeast cells are different from those in vitro, thereby altering the current view of basal transcription.
    1. Developmental Biology
    2. Genetics and Genomics

    Nuclear receptor Ftz-f1 promotes follicle maturation and ovulation partly via bHLH/PAS transcription factor Sim

    Elizabeth M Knapp, Wei Li ... Jianjun Sun
    Genetic analyses illustrate the novel requirement of Ftz-f1 and Sim in adult Drosophila ovaries for regulating follicle cell differentiation and ovulation that is likely conserved in mammals.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Mouse B2 SINE elements function as IFN-inducible enhancers

    Isabella Horton, Conor J Kelly ... Edward B Chuong
    An epigenomic analysis in mouse macrophages reveals that a highly abundant transposable element exhibits activity as an immune inducible regulatory element.
    1. Computational and Systems Biology

    Synthetic and genomic regulatory elements reveal aspects of cis-regulatory grammar in mouse embryonic stem cells

    Dana M King, Clarice Kit Yee Hong ... Barak A Cohen
    The independent effects of transcription factor binding sites are large regardless of sequence context, but the interactions between sites are context dependent.
    1. Developmental Biology
    2. Neuroscience

    Neuroblast-specific open chromatin allows the temporal transcription factor, Hunchback, to bind neuroblast-specific loci

    Sonia Q Sen, Sachin Chanchani ... Chris Q Doe
    Spatial factors generate neuroblast-specific open chromatin, thereby biasing the subsequent binding of transcription factors to produce neuroblast-specific neurons.
    1. Developmental Biology

    Klf5 regulates muscle differentiation by directly targeting muscle-specific genes in cooperation with MyoD in mice

    Shinichiro Hayashi, Ichiro Manabe ... Yumiko Oishi
    The regulatory programs governing skeletal muscle regeneration that are controlled by Klf5 in cooperation with MyoD and Mef2 provide a potential avenue for intervention into muscle regeneration through modulation of Klf5.
    1. Genetics and Genomics

    Regulatory polymorphisms modulate the expression of HLA class II molecules and promote autoimmunity

    Prithvi Raj, Ekta Rai ... Edward K Wakeland
    Genetic variations that underlie common autoimmune disease genes are predominantly regulatory and modify the expression of multiple genes within the HLA gene complex and throughout the immune system.
    1. Cancer Biology
    2. Computational and Systems Biology

    Dissecting transcriptional amplification by MYC

    Zuqin Nie, Chunhua Guo ... David Levens
    Synthetic biology experiments show that MYC is a general transcription amplifier acting at two or more sites in the transcription-cycle and that MYC-turnover contributes to its activity.