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Items: 1 to 20 of 93

1.

Roquin recognizes a non-canonical hexaloop structure in the 3'-UTR of Ox40.

Janowski R, Heinz GA, Schlundt A, Wommelsdorf N, Brenner S, Gruber AR, Blank M, Buch T, Buhmann R, Zavolan M, Niessing D, Heissmeyer V, Sattler M.

Nat Commun. 2016 Mar 24;7:11032. doi: 10.1038/ncomms11032.

PMID:
27010430
2.

Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G.

Gumienny R, Zavolan M.

Nucleic Acids Res. 2015 Oct 15;43(18):9095. doi: 10.1093/nar/gkv924. Epub 2015 Sep 13. No abstract available.

3.

Cooperative target mRNA destabilization and translation inhibition by miR-58 microRNA family in C. elegans.

Subasic D, Brümmer A, Wu Y, Pinto SM, Imig J, Keller M, Jovanovic M, Lightfoot HL, Nasso S, Goetze S, Brunner E, Hall J, Aebersold R, Zavolan M, Hengartner MO.

Genome Res. 2015 Nov;25(11):1680-91. doi: 10.1101/gr.183160.114. Epub 2015 Jul 31.

4.

Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data.

Kanitz A, Gypas F, Gruber AJ, Gruber AR, Martin G, Zavolan M.

Genome Biol. 2015 Jul 23;16:150. doi: 10.1186/s13059-015-0702-5.

5.

Inferring gene expression regulatory networks from high-throughput measurements.

Zavolan M.

Methods. 2015 Sep 1;85:1-2. doi: 10.1016/j.ymeth.2015.07.006. Epub 2015 Jul 15. No abstract available.

PMID:
26188125
6.

miR-184 Regulates Pancreatic β-Cell Function According to Glucose Metabolism.

Tattikota SG, Rathjen T, Hausser J, Khedkar A, Kabra UD, Pandey V, Sury M, Wessels HH, Mollet IG, Eliasson L, Selbach M, Zinzen RP, Zavolan M, Kadener S, Tschöp MH, Jastroch M, Friedländer MR, Poy MN.

J Biol Chem. 2015 Aug 14;290(33):20284-94. doi: 10.1074/jbc.M115.658625. Epub 2015 Jul 7.

PMID:
26152724
7.

Quantifying the strength of miRNA-target interactions.

Breda J, Rzepiela AJ, Gumienny R, van Nimwegen E, Zavolan M.

Methods. 2015 Sep 1;85:90-9. doi: 10.1016/j.ymeth.2015.04.012. Epub 2015 Apr 16.

8.

Reflections on the RNA world.

Zavolan M, Keller W.

RNA. 2015 Apr;21(4):531-3. doi: 10.1261/rna.049999.115. No abstract available.

9.

Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G.

Gumienny R, Zavolan M.

Nucleic Acids Res. 2015 Feb 18;43(3):1380-91. doi: 10.1093/nar/gkv050. Epub 2015 Jan 27. Erratum in: Nucleic Acids Res. 2015 Oct 15;43(18):9095.

10.

miR-CLIP capture of a miRNA targetome uncovers a lincRNA H19-miR-106a interaction.

Imig J, Brunschweiger A, Brümmer A, Guennewig B, Mittal N, Kishore S, Tsikrika P, Gerber AP, Zavolan M, Hall J.

Nat Chem Biol. 2015 Feb;11(2):107-14. doi: 10.1038/nchembio.1713. Epub 2014 Dec 22.

PMID:
25531890
11.

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
12.

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.

13.

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

14.

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
15.

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

16.

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.

17.

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;124(6):2722-35. doi: 10.1172/JCI73066. Epub 2014 May 1.

18.

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.

19.

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.

20.

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.

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