Publikation:

Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPAC

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Gruber_2-4vizwhlwnd941.pdf
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Datum

2018

Autor:innen

Schmidt, Ralf
Ghosh, Souvik
Martin, Georges
Gruber, Andreas R.
van Nimwegen, Erik
Zavolan, Mihaela

Herausgeber:innen

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URI (zitierfähiger Link)
http://nbn-resolving.de/urn:nbn:de:bsz:352-2-4vizwhlwnd941
DOI (zitierfähiger Link)
https://doi.org/10.1186/s13059-018-1415-3
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Link zur Lizenz

CC BY 4.0

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Open Access-Veröffentlichung
Open Access Gold

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Biologie: Publikationen
Core Facility der Universität Konstanz

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Titel in einer weiteren Sprache

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Zeitschriftenartikel
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Published

Erschienen in

Genome biology. BioMed Central. 2018, 19(1), 44. ISSN 1465-6906. eISSN 1465-6914. Available under: doi: 10.1186/s13059-018-1415-3

Zusammenfassung

3' Untranslated regions (3' UTRs) length is regulated in relation to cellular state. To uncover key regulators of poly(A) site use in specific conditions, we have developed PAQR, a method for quantifying poly(A) site use from RNA sequencing data and KAPAC, an approach that infers activities of oligomeric sequence motifs on poly(A) site choice. Application of PAQR and KAPAC to RNA sequencing data from normal and tumor tissue samples uncovers 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 poly(A) site choice in glioblastoma.

Zusammenfassung in einer weiteren Sprache

Fachgebiet (DDC)
570 Biowissenschaften, Biologie

Schlagwörter

Cleavage and polyadenylation, APA, CFIm, KAPAC, PAQR, HNRNPC, PTBP1, Prostate adenocarcinoma, Glioblastoma, Colon adenocarcinoma

Konferenz

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ISO 690GRUBER, Andreas J., Ralf SCHMIDT, Souvik GHOSH, Georges MARTIN, Andreas R. GRUBER, Erik VAN NIMWEGEN, Mihaela ZAVOLAN, 2018. Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPAC. In: Genome biology. BioMed Central. 2018, 19(1), 44. ISSN 1465-6906. eISSN 1465-6914. Available under: doi: 10.1186/s13059-018-1415-3
BibTex
@article{Gruber2018Disco-51014,
  year={2018},
  doi={10.1186/s13059-018-1415-3},
  title={Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPAC},
  number={1},
  volume={19},
  issn={1465-6906},
  journal={Genome biology},
  author={Gruber, Andreas J. and Schmidt, Ralf and Ghosh, Souvik and Martin, Georges and Gruber, Andreas R. and van Nimwegen, Erik and Zavolan, Mihaela},
  note={Article Number: 44}
}
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