RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo

By J. Zeitlinger, Alexander Stark, Manolis Kellis, Joung-Woo Hong, S. Nechaev, K. Adelman, M. Levine, Richard A. Young. Nature Genetics, 2007

809 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/3a7536f9c63af6456d5f757ca755f8234c10ba5c

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Citations in the corpus

Nucleosome positioning and gene regulation: advances through genomics (2009, background): “Indeed, a large fraction of metazoan genes have an initiated, but paused, Pol II immediately upstream of, and in contact with, the +1 nucleosom”
Pol III binding in six mammalian genomes shows high conservation among amino acid isotypes, despite divergence in tRNA gene usage (2011, neutral): “RNA polymerase II (pol II), which is responsible for protein-coding mRNA synthesis, has been well-characterized to bind in vivo to many regions not actively transcribed due to stalled polymerase activity 19,20 , alternate transcription start sites 21 , and regulated alternative splicing 22 .”
A double take on bivalent promoters. (2013, background): “PHF1 (PCL1), MTF2 (PCL2), and PHF19 (PCL3), orthologs of Drosophila Polycomb-like (PCL), also interact with PRC2 and have been implicated in its recruitment (Margueron and Reinberg 2011; Simon and Kingston 2013).”
Dynamic regulation of nucleosome positioning in the human genome. (2008, methodology): “896 Cell 132, 887–898, March 7, 2008 ª2008 Elsevier Inc. Polymerase II Stalling Analysis To classify genes as containing stalled or elongating polymerase II (Pol II), we utilized a stalling index similar to that employed in Zeitlinger et al. (2007).”
Defining mechanisms that regulate RNA polymerase II transcription in vivo (2009, neutral): “Zeitlinger, J. et al. RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nature Genet. 39, 1512–1516 (2007). This paper examines the genome-wide distribution of Pol II in Drosophila embryos and suggests that promoter-proximal stalling/pausing occurs at many”
Molecular maps of the reorganization of genome – nuclear lamina interactions during differentiation (2010, background): “The unlocking mechanism is distinct from ‘‘polymerase poising’’ (Core et al., 2008; Muse et al., 2007; Zeitlinger et al., 2007), because the silent genes that become detached from the NL in NPCs lack detectable amounts of RNA Pol II at their promoters (Figures S5A and S5B).”
The RNA polymerase II CTD coordinates transcription and RNA processing. (2012, background): “Pausing is thought to constitute a mechanism to obtain rapid and coordinated transcription during development and in response to external stimuli (Muse et al. 2007; Zeitlinger et al. 2007).”