5,482 results found
    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

    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. Cell Biology

    Akt1-Inhibitor of DNA binding2 is essential for growth cone formation and axon growth and promotes central nervous system axon regeneration

    Hyo Rim Ko et al.
    Akt mediated S14 phosphorylation of Id2 augments its protein stability and growth cone localization, promoting growth cone formation and axon growth in the developing neuron and contributing to axon regeneration in the damaged hippocampus slice.
    1. Cancer Biology
    2. Developmental Biology

    Loss of Dnmt3a and Dnmt3b does not affect epidermal homeostasis but promotes squamous transformation through PPAR-γ

    Lorenzo Rinaldi et al.
    Dnmt3a and Dnmt3b are dispensable for epidermal homeostasis but act as potent tumor suppressors regarding skin squamous tumorigenesis.
    1. Developmental Biology

    Zfp281 is essential for mouse epiblast maturation through transcriptional and epigenetic control of Nodal signaling

    Xin Huang et al.
    Post-implantation epiblast maturation and patterning of anterior-posterior axis in mouse embryonic development are mediated by pluripotency transcription factor Zfp281 through transcriptional and epigenetic control of Nodal signaling.
    1. Cancer Biology
    2. Cell Biology

    The mTORC1-mediated activation of ATF4 promotes protein and glutathione synthesis downstream of growth signals

    Margaret E Torrence et al.
    ATF4 is a metabolic effector of mTORC1 signaling, co-opted to induce gene targets involved in amino acid synthesis, uptake, and tRNA charging, contributing to mTORC1-driven protein and glutathione synthesis.
    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

    Transcription-coupled genetic instability marks acute lymphoblastic leukemia structural variation hotspots

    Merja Heinäniemi et al.
    Convergent transcription and stalling of transcription are enriched at DNA breakpoints found in acute lymphoblastic leukemia and associate with DNA structures and sequences that mediate genetic instability.
    1. Physics of Living Systems

    Deciphering the regulatory genome of Escherichia coli, one hundred promoters at a time

    William T Ireland et al.
    A combination of massively parallel reporter assays and mass spectrometry uncovers the regulation of previously unexplored promoters across the Escherichia coli genome.
    1. Chromosomes and Gene Expression

    Conserved noncoding transcription and core promoter regulatory code in early Drosophila development

    Philippe J Batut, Thomas R Gingeras
    Gene expression timing during Drosophila development is specified by multiple classes of RNA polymerase II core promoters, and the embryonic transcriptome includes thousands of evolutionarily conserved long noncoding RNAs.

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