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Results: 1 to 20 of 83

1.

Global 3' UTR shortening has a limited effect on protein abundance in proliferating T cells.

Gruber AR, Martin G, Müller P, Schmidt A, Gruber AJ, Gumienny R, Mittal N, Jayachandran R, Pieters J, Keller W, van Nimwegen E, Zavolan M.

Nat Commun. 2014 Nov 21;5:5465. doi: 10.1038/ncomms6465.

PMID:
25413384
[PubMed - in process]
2.

Reconstitution of CPSF active in polyadenylation: recognition of the polyadenylation signal by WDR33.

Schönemann L, Kühn U, Martin G, Schäfer P, Gruber AR, Keller W, Zavolan M, Wahle E.

Genes Dev. 2014 Nov 1;28(21):2381-93. doi: 10.1101/gad.250985.114. Epub 2014 Oct 9.

PMID:
25301781
[PubMed - in process]
3.

Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways.

Gruber AJ, Grandy WA, Balwierz PJ, Dimitrova YA, Pachkov M, Ciaudo C, Nimwegen Ev, Zavolan M.

Nucleic Acids Res. 2014;42(14):9313-26. doi: 10.1093/nar/gku544. Epub 2014 Jul 16.

PMID:
25030899
[PubMed - indexed for MEDLINE]
Free Article
4.

Identification and consequences of miRNA-target interactions--beyond repression of gene expression.

Hausser J, Zavolan M.

Nat Rev Genet. 2014 Sep;15(9):599-612. doi: 10.1038/nrg3765. Epub 2014 Jul 15. Review. Erratum in: Nat Rev Genet. 2014 Oct;15(10):702.

PMID:
25022902
[PubMed - indexed for MEDLINE]
5.

Structural and functional implications of the QUA2 domain on RNA recognition by GLD-1.

Daubner GM, Brümmer A, Tocchini C, Gerhardy S, Ciosk R, Zavolan M, Allain FH.

Nucleic Acids Res. 2014;42(12):8092-105. doi: 10.1093/nar/gku445. Epub 2014 May 16.

PMID:
24838563
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.

Stockinger H, Altenhoff AM, Arnold K, Bairoch A, Bastian F, Bergmann S, Bougueleret L, Bucher P, Delorenzi M, Lane L, Le Mercier P, Lisacek F, Michielin O, Palagi PM, Rougemont J, Schwede T, von Mering C, van Nimwegen E, Walther D, Xenarios I, Zavolan M, Zdobnov EM, Zoete V, Appel RD.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W436-41. doi: 10.1093/nar/gku380. Epub 2014 May 3.

PMID:
24792157
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

MicroRNA-7a regulates pancreatic β cell function.

Latreille M, Hausser J, Stützer I, Zhang Q, Hastoy B, Gargani S, Kerr-Conte J, Pattou F, Zavolan M, Esguerra JL, Eliasson L, Rülicke T, Rorsman P, Stoffel M.

J Clin Invest. 2014 Jun 2;124(6):2722-35. doi: 10.1172/JCI73066. Epub 2014 May 1.

PMID:
24789908
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Widespread context dependency of microRNA-mediated regulation.

Erhard F, Haas J, Lieber D, Malterer G, Jaskiewicz L, Zavolan M, Dölken L, Zimmer R.

Genome Res. 2014 Jun;24(6):906-19. doi: 10.1101/gr.166702.113. Epub 2014 Mar 25.

PMID:
24668909
[PubMed - in process]
9.

PAR-CLIP (Photoactivatable Ribonucleoside-Enhanced Crosslinking and Immunoprecipitation): a step-by-step protocol to the transcriptome-wide identification of binding sites of RNA-binding proteins.

Spitzer J, Hafner M, Landthaler M, Ascano M, Farazi T, Wardle G, Nusbaum J, Khorshid M, Burger L, Zavolan M, Tuschl T.

Methods Enzymol. 2014;539:113-61. doi: 10.1016/B978-0-12-420120-0.00008-6.

PMID:
24581442
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs.

Balwierz PJ, Pachkov M, Arnold P, Gruber AJ, Zavolan M, van Nimwegen E.

Genome Res. 2014 May;24(5):869-84. doi: 10.1101/gr.169508.113. Epub 2014 Feb 10.

PMID:
24515121
[PubMed - in process]
Free PMC Article
11.

Seq and CLIP through the miRNA world.

Mittal N, Zavolan M.

Genome Biol. 2014 Jan 25;15(1):202. doi: 10.1186/gb4151.

PMID:
24460822
[PubMed - in process]
12.

TSSer: an automated method to identify transcription start sites in prokaryotic genomes from differential RNA sequencing data.

Jorjani H, Zavolan M.

Bioinformatics. 2014 Apr 1;30(7):971-4. doi: 10.1093/bioinformatics/btt752. Epub 2013 Dec 25.

PMID:
24371151
[PubMed - indexed for MEDLINE]
13.

Argonaute2 mediates compensatory expansion of the pancreatic β cell.

Tattikota SG, Rathjen T, McAnulty SJ, Wessels HH, Akerman I, van de Bunt M, Hausser J, Esguerra JL, Musahl A, Pandey AK, You X, Chen W, Herrera PL, Johnson PR, O'Carroll D, Eliasson L, Zavolan M, Gloyn AL, Ferrer J, Shalom-Feuerstein R, Aberdam D, Poy MN.

Cell Metab. 2014 Jan 7;19(1):122-34. doi: 10.1016/j.cmet.2013.11.015. Epub 2013 Dec 19.

PMID:
24361012
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Timescales and bottlenecks in miRNA-dependent gene regulation.

Hausser J, Syed AP, Selevsek N, van Nimwegen E, Jaskiewicz L, Aebersold R, Zavolan M.

Mol Syst Biol. 2013 Dec 3;9:711. doi: 10.1038/msb.2013.68.

PMID:
24301800
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Modulation of epigenetic regulators and cell fate decisions by miRNAs.

Gruber AJ, Zavolan M.

Epigenomics. 2013 Dec;5(6):671-83. doi: 10.2217/epi.13.65. Review.

PMID:
24283881
[PubMed - indexed for MEDLINE]
Free Article
16.

Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors.

Gruber AR, Martin G, Keller W, Zavolan M.

Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):183-96. doi: 10.1002/wrna.1206. Epub 2013 Nov 14. Review.

PMID:
24243805
[PubMed - indexed for MEDLINE]
Free Article
17.

3'-UTR poly(T/U) tract deletions and altered expression of EWSR1 are a hallmark of mismatch repair-deficient cancers.

Kishore S, Piscuoglio S, Kovac MB, Gylling A, Wenzel F, Trapani F, Altermatt HJ, Mele V, Marra G, Peltomäki P, Terracciano L, Zavolan M, Heinimann K.

Cancer Res. 2014 Jan 1;74(1):224-34. doi: 10.1158/0008-5472.CAN-13-2100. Epub 2013 Oct 24.

PMID:
24158095
[PubMed - indexed for MEDLINE]
18.

Modeling the binding specificity of the RNA-binding protein GLD-1 suggests a function of coding region-located sites in translational repression.

Brümmer A, Kishore S, Subasic D, Hengartner M, Zavolan M.

RNA. 2013 Oct;19(10):1317-26. doi: 10.1261/rna.037531.112. Epub 2013 Aug 23.

PMID:
23974436
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Translation-dependent displacement of UPF1 from coding sequences causes its enrichment in 3' UTRs.

Zünd D, Gruber AR, Zavolan M, Mühlemann O.

Nat Struct Mol Biol. 2013 Aug;20(8):936-43. doi: 10.1038/nsmb.2635. Epub 2013 Jul 7.

PMID:
23832275
[PubMed - indexed for MEDLINE]
20.

Insights into snoRNA biogenesis and processing from PAR-CLIP of snoRNA core proteins and small RNA sequencing.

Kishore S, Gruber AR, Jedlinski DJ, Syed AP, Jorjani H, Zavolan M.

Genome Biol. 2013 May 26;14(5):R45. doi: 10.1186/gb-2013-14-5-r45.

PMID:
23706177
[PubMed - in process]
Free PMC Article

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