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bioRxiv · 10.64898/2026.07.24.740649

Locus-Scale Massively Parallel Reporter Assays

McGee, A. V.·Biar, C. G.·Martin, B. K.·Li, T.·Lalanne, J.-B.·Kim, H.·Shendure, J.
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Abstract

Interactions among cis-regulatory elements (CREs) are central to mammalian gene regulation. Long @$$ massively parallel reporter assays (LAMPRAs) integrate combinatorial cloning, molecular barcoding and long- and short-read sequencing, to scalably measure how CRE identities, numbers, spacings, orders, orientations, and interactions shape regulatory output at multi-kilobase length scales. As a proof-of-concept, we assay 36,000 x 5-kb synthetic cis-regulatory loci (sCRLs), each a 5 x 1-kb random combination of enhancers, insulators and spacers, to model how locus composition drives gene expression.

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McGee, A. V., Biar, C. G., Martin, B. K., Li, T., Lalanne, J.-B., Kim, H., Shendure, J.. 2026-07-25. Locus-Scale Massively Parallel Reporter Assays. https://doi.org/10.64898/2026.07.24.740649

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