DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila

By W. Fisher, Jingyi Jessica Li, Ann Hammonds, James B. Brown, B. Pfeiffer, R. Weiszmann, Stewart MacArthur, Sean Thomas, John A. Stamatoyannopoulos, Michael B. Eisen and 3 more. 2012

150 citations recorded by the source corpus.

Subfields: Molecular Biology, Plant Science

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Citations in the corpus

Iterative random forests to discover predictive and stable high-order interactions (2017, methodology): “(mean decrease in Gini impurity) of the p features as v (1) =”
Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo (2015, background): “Because active cis-regulatory regions are correlated with chromatin accessibility (Fisher et al. 2012), we focused our analysis on the high-confidence open regions.”
Transcriptional enhancers: from properties to genome-wide predictions (2014, background): “…to the sites detected by ChIP–seq can usually be confirmed (for example, by ChIP followed by quantitative PCR (ChIP–qPCR)), many of them do not correspond to functional enhancers 42–44 , which suggests that transcription factor binding can occur without affecting the transcription of any gene.”
Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition (2014, background): “To generate a larger set of likely enhancers, we took advantage of the strong correlation between the binding of transcription factors known to regulate blastoderm expression and enhancer activity (Fisher et al., 2012; MacArthur et al., 2009).”
Impacts of the ubiquitous factor Zelda on Bicoid-dependent DNA binding and transcription in Drosophila (2014, background): “The genome-wide binding profile of most factors is best represented as a continuum of individual binding events of different strengths (Biggin 2011), and there is evidence of a positive correlation between binding strength and function (i.e., enhancer activity) (Fisher et al. 2012).”