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bioRxiv · 10.1101/2020.09.30.321323

TransMPRA: A framework for assaying the role of many trans-acting factors at many enhancers

Calderon, D.·Ellis, A.·Daza, R.·Martin, B.·Tome, J.·Chen, W.·Chardon, F.·Leith, A.·Lee, C.·Trapnell, C.·Shendure, J.
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Abstract

Gene regulation occurs through trans-acting factors (e.g. transcription factors) acting on cis-regulatory elements (e.g. enhancers). Massively parallel reporter assays (MPRAs) functionally survey large numbers of cis-regulatory elements for regulatory potential, but do not identify the trans-acting factors that mediate any observed effects. Here we describe transMPRA -- a reporter assay that efficiently combines multiplex CRISPR-mediated perturbation and MPRAs to identify trans-acting factors that modulate the regulatory activity of specific enhancers.

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Calderon, D., Ellis, A., Daza, R., Martin, B., Tome, J., Chen, W., Chardon, F., Leith, A., Lee, C., Trapnell, C., Shendure, J.. 2020-10-01. TransMPRA: A framework for assaying the role of many trans-acting factors at many enhancers. https://doi.org/10.1101/2020.09.30.321323

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