NCCR RNA & Disease (phase II)
Third-party funded project
Project title NCCR RNA & Disease (phase II)
Principal Investigator(s) Zavolan, Mihaela
Project Members Azevedo Salgado Guimaraes, Joao Carlos
Dimitriades, Beatrice
Schmidt, Ralf
Mittal, Nitish
Gypas, Foivos
Ghosh, Shreemoyee
Kanitz, Alexander
Organisation / Research unit Departement Biozentrum / Bioinformatics (Zavolan)
Project Website https://nccr-rna-and-disease.ch/
Project start 01.05.2018
Probable end 30.04.2022
Status Active
Abstract

In the large collaborative project NCCR RNA&Disease, funded by SNF, we have two main sub-projects. In the first project we explore the function of an isoform of Argonaute 1 protein, which is generated by translation readthough, beyond the canonical stop codon. This isoform is extremely conserved in evolution, and we have indications that it carries out an entirely distinct function relative to other human mammalian Argonautes, promoting proliferation of cancer cells. The second sub-project follows our computational inference that a particular RNA binding protein, the polypyrimidine tract binding protein 1, affects the processing of RNAs in a particular cancer, glioblastoma. In this project we aim to characterize the mechanism and targets of this protein, as well as the contribution of specific targets in glioblastoma development.

Keywords molecular life science, RNA processing, RNA metabolism, noncoding RNA, disease mechanism, translation, ribosome, RNA interference, miRNA, gene regulation, mRNA, tRNA, rRNA, lncRNA, nucleic acid
Financed by Swiss National Science Foundation (SNSF)
University of Basel
Follow-up project of 2750044 NCCR RNA & Disease

Published results ()

  ID Autor(en) Titel ISSN / ISBN Erschienen in Art der Publikation
3975704  Martin, Georges; Schmidt, Ralf; Gruber, Andreas J.; Ghosh, Souvik; Keller, Walter; Zavolan, Mihaela  3' End Sequencing Library Preparation with A-seq2  1940-087X  Journal of Visualized Experiments  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
3567622  Gruber, Andreas J.; Schmidt, Ralf; Gruber, Andreas R.; Martin, Georges; Ghosh, Souvik; Belmadani, Manuel; Keller, Walter; Zavolan, Mihaela  A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation  1088-9051 ; 1549-5469  Genome Research  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
3892473  Mittal, Nitish; Guimaraes, Joao C.; Gross, Thomas; Schmidt, Alexander; Vina-Vilaseca, Arnau; Nedialkova, Danny D.; Aeschimann, Florian; Leidel, Sebastian A.; Spang, Anne; Zavolan, Mihaela  The Gcn4 transcription factor reduces protein synthesis capacity and extends yeast lifespan  2041-1723  Nature Communications  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
4462735  Gruber, Andreas J.; Schmidt, Ralf; Ghosh, Souvik; Martin, Georges; Gruber, Andreas R.; van Nimwegen, Erik; Zavolan, Mihaela  Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPAC  1474-760X  Genome biology  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
4487372  Gruber, Andreas J.; Gypas, Foivos; Riba, Andrea; Schmidt, Ralf; Zavolan, Mihaela  Terminal exon characterization with TECtool reveals an abundance of cell-specific isoforms  1548-7105  Nature methods  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
4515423  Herrmann, Christina J; Schmidt, Ralf; Kanitz, Alexander; Artimo, Panu; Gruber, Andreas J; Zavolan, Mihaela  PolyASite 2.0: a consolidated atlas of polyadenylation sites from 3' end sequencing.  1362-4962  Nucleic acids research  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
4525817  Liko, Dritan; Rzepiela, Andrzej; Vukojevic, Vanja; Zavolan, Mihaela; Hall, Michael N.  Loss of TSC complex enhances gluconeogenesis via upregulation of Dlk1-Dio3 locus miRNAs  0027-8424 ; 1091-6490  Proceedings of the National Academy of Sciences  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
4596341  Guimaraes, Joao C; Mittal, Nitish; Gnann, Alexandra; Jedlinski, Dominik; Riba, Andrea; Buczak, Katarzyna; Schmidt, Alexander; Zavolan, Mihaela  A rare codon-based translational program of cell proliferation.  1474-760X  Genome biology  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 

Cooperations ()

  ID Kreditinhaber Kooperationspartner Institution Laufzeit - von Laufzeit - bis
2354689  Zavolan, Mihaela  Hall, Jonathan  ETH Zürich  01.11.2009  31.10.2022 
2834575  Zavolan, Mihaela  Hall, Mike, Prof  Biozentrum, University of Basel  01.01.2010  31.12.2040 
2834582  Zavolan, Mihaela  Mühlemann, Oliver, Prof  Department of Chemistry and Biochemistry, Universität Bern  01.05.2014  30.12.2022 
3721944  Zavolan, Mihaela  Jeker, Lukas  DBM, University Hospital Basel  01.01.2015  31.12.2025 
   

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