Resolving systematic errors in widely-used enhancer activity assays in human cells

@inproceedings{Muerdter2018ResolvingSE,
  title={Resolving systematic errors in widely-used enhancer activity assays in human cells},
  author={Felix Muerdter and Łukasz M. Boryń and Ashley R. Woodfin and Christoph Neumayr and Martina Rath and Muhammad Munim Ahmad Zabidi and Michaela Pagani and Vanja Haberle and Tomas Kazmar and Rui R Catarino and Katharina Schernhuber and Cosmas D. Arnold and Alexander Stark},
  booktitle={Nature Methods},
  year={2018}
}
The identification of transcriptional enhancers in the human genome is a prime goal in biology. Enhancers are typically predicted via chromatin marks, yet their function is primarily assessed with plasmid-based reporter assays. Here, we show that such assays are rendered unreliable by two previously reported phenomena relating to plasmid transfection into human cells: (i) the bacterial plasmid origin of replication (ORI) functions as a conflicting core promoter and (ii) a type I interferon (IFN… CONTINUE READING
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