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bioRxiv · 10.1101/195958

Discovery of global regulators of 3’ untranslated region processing in cancers with KAPAC

Gruber, A. J. J.·Schmidt, R.·Ghosh, S.·Martin, G.·Gruber, A. R.·van Nimwegen, E.·Zavolan, M.
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Abstract

3 UTR length is regulated in relation to cellular state. To uncover key regulators of poly(A) site (PAS) use in specific conditions, we have developed PAQR, a method for quantifying PAS use from RNA sequencing data and KAPAC, an approach that infers activities of oligomeric sequence motifs on PAS choice. Application of PAQR and KAPAC to RNA sequencing data from normal and tumor tissue samples uncovered sequence motifs that can explain changes in cleavage and polyadenylation in specific cancers. In particular, our analysis points to Polypyrimidine tract binding protein 1 as a regulator of PAS choice in glioblastoma.

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Gruber, A. J. J., Schmidt, R., Ghosh, S., Martin, G., Gruber, A. R., van Nimwegen, E., Zavolan, M.. 2017-09-29. Discovery of global regulators of 3’ untranslated region processing in cancers with KAPAC. https://doi.org/10.1101/195958

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