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Efficient and sensitive profiling of RNA-protein interactions using TLC-CLIP

View ORCID ProfileChristina Ernst, Julien Duc, Didier Trono
doi: https://doi.org/10.1101/2022.04.13.488168
Christina Ernst
1Ècole Polytechnique Fédérale de Lausanne (EPFL), School of Life Sciences, Lausanne, Switzerland
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  • ORCID record for Christina Ernst
  • For correspondence: christina.ernst@epfl.ch didier.trono@epfl.ch
Julien Duc
1Ècole Polytechnique Fédérale de Lausanne (EPFL), School of Life Sciences, Lausanne, Switzerland
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Didier Trono
1Ècole Polytechnique Fédérale de Lausanne (EPFL), School of Life Sciences, Lausanne, Switzerland
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  • For correspondence: christina.ernst@epfl.ch didier.trono@epfl.ch
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ABSTRACT

RNA-binding proteins are instrumental for post-transcriptional gene regulation, yet transcriptomewide methods to profile RNA-protein interactions remain technically challenging. We present an improved library preparation strategy for crosslinking and immunoprecipitation (CLIP) that involves tailing and ligation of cDNA molecules (TLC) for increased sensitivity and efficiency. TLC-CLIP eliminates time-consumingpurifications, reduces sample loss and minimises experimental steps, allowing precise profiling of RNA-protein interactions from limited starting material at nucleotide resolution.

Competing Interest Statement

C.E. and D.T. are inventors on a patent application covering specific elements of this method (i.e., construction of sequencing libraries from RNA using tailing and ligation of cDNA (TLC)).

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted April 13, 2022.
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Efficient and sensitive profiling of RNA-protein interactions using TLC-CLIP
Christina Ernst, Julien Duc, Didier Trono
bioRxiv 2022.04.13.488168; doi: https://doi.org/10.1101/2022.04.13.488168
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Efficient and sensitive profiling of RNA-protein interactions using TLC-CLIP
Christina Ernst, Julien Duc, Didier Trono
bioRxiv 2022.04.13.488168; doi: https://doi.org/10.1101/2022.04.13.488168

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