Publications   2016

Logic programming to infer complex RNA expression patterns from RNA-seq data.
Weirick T, Militello G, Ponomareva Y, John D, Döring C, Dimmeler S, Uchida S.

Brief Bioinform. 2016 Dec 22. pii: bbw117. doi: 10.1093/bib/bbw117

Long Noncoding RNA Meg3 Controls Endothelial Cell Aging and Function: Implications for Regenerative Angiogenesis.
Boon RA, Hofmann P, Michalik KM, Lozano-Vidal N, Berghäuser D, Fischer A, Knau A, Jaé N, Schürmann C, Dimmeler S.

J Am Coll Cardiol. 2016 Dec 13;68(23):2589-2591. doi: 10.1016/j.jacc.2016.09.949. No abstract available.

Titin Forms Circles: Regulation by Heart Failure and the RNA-Binding Protein RBM20.
Jaé N, Dimmeler S.
Circ Res. 2016 Oct 14;119(9):966-968. No abstract available.

RNAEditor: easy detection of RNA editing events and the introduction of editing islands.
John D, Weirick T, Dimmeler S, Uchida S.
Brief Bioinform. 2016 Sep 30. pii: bbw087.

RNA Therapeutics for Treatment of Cardiovascular Diseases: Promises and Challenges.
Lucas T, Dimmeler S.
Circ Res. 2016 Sep 16;119(7):794-7. doi: 10.1161/CIRCRESAHA.116.308730. No abstract available.

Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation.
Stellos K, Gatsiou A, Stamatelopoulos K, Perisic Matic L, John D, Lunella FF, Jaé N, Rossbach O, Amrhein C, Sigala F, Boon RA, Fürtig B, Manavski Y, You X, Uchida S, Keller T, Boeckel JN, Franco-Cereceda A, Maegdefessel L, Chen W, Schwalbe H, Bindereif A, Eriksson P, Hedin U, Zeiher AM,Dimmeler S.
Nat Med. 2016 Oct;22(10):1140-1150. doi: 10.1038/nm.4172.

ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells.
Müller R, Weirick T, John D, Militello G, Chen W, Dimmeler S, Uchida S.
Sci Rep. 2016 Sep 1;6:32475. doi: 10.1038/srep32475.

Novel therapeutic strategies targeting fibroblasts and fibrosis in heart disease.
Gourdie RG, Dimmeler S, Kohl P.
Nat Rev Drug Discov. 2016 Sep;15(9):620-38. doi: 10.1038/nrd.2016.89. Epub 2016 Jun 24.

JMJD8 Regulates Angiogenic Sprouting and Cellular Metabolism by Interacting With Pyruvate Kinase M2 in Endothelial Cells.
Boeckel JN, Derlet A, Glaser SF, Luczak A, Lucas T, Heumüller AW, Krüger M, Zehendner CM, Kaluza D, Doddaballapur A, Ohtani K, Treguer K, Dimmeler S.
Arterioscler Thromb Vasc Biol. 2016 Jul;36(7):1425-33. doi: 10.1161/ATVBAHA.116.307695. Epub 2016 May 19.

Screening and validation of lncRNAs and circRNAs as miRNA sponges.
Militello G, Weirick T, John D, Döring C, Dimmeler S, Uchida S.
Brief Bioinform. 2016 Jul 3. pii: bbw053. [Epub ahead of print]

Roles for long non-coding RNAs in physiology and disease.
Melissari MT, Grote P.
Pflugers Arch. 2016 Jun;468(6):945-58. doi: 10.1007/s00424-016-1804-y. Epub 2016 Mar 5. Review.

Metabolism regulates cellular functions of bone marrow-derived cells used for cardiac therapy.
Derlet A, Rasper T, Roy Choudhury A, Bothur S, Rieger MA, Namgaladze D, Fischer A, Schürmann C, Brandes RP, Tschulena U, Steppan S, Assmus B, Dimmeler S, Zeiher AM, Seeger FH.
Stem Cells. 2016 May 4. doi: 10.1002/stem.2394. [Epub ahead of print]

Inhibition of let-7 augments the recruitment of epicardial cells and improves cardiac function after myocardial infarction.
Seeger T, Xu QF, Muhly-Reinholz M, Fischer A, Kremp EM, Zeiher AM, Dimmeler S.
J Mol Cell Cardiol. 2016 May;94:145-52. doi: 10.1016/j.yjmcc.2016.04.002. Epub 2016 Apr 9.

Long Noncoding RNAs: From Clinical Genetics to Therapeutic Targets?
Boon RA, Jaé N, Holdt L, Dimmeler S.
J Am Coll Cardiol. 2016 Mar 15;67(10):1214-26. doi: 10.1016/j.jacc.2015.12.051. Review.

Computational Detection of Stage-Specific Transcription Factor Clusters during Heart Development.
Zeidler S, Meckbach C, Tacke R, Raad FS, Roa A, Uchida S, Zimmermann WH, Wingender E, Gültas M.
Front Genet. 2016 Mar 23;7:33. doi: 10.3389/fgene.2016.00033. eCollection 2016.

Resolving the problem of multiple accessions of the same transcript deposited across various public databases.
Weirick T, John D, Uchida S.
Brief Bioinform. 2016 Feb 26. pii: bbw017. [Epub ahead of print]

Transcoronary gradients of vascular miRNAs and coronary atherosclerotic plaque characteristics.
Leistner DM, Boeckel JN, Reis SM, Thome CE, De Rosa R, Keller T, Palapies L, Fichtlscherer S, Dimmeler S, Zeiher AM.
Eur Heart J. 2016 Feb 24. pii: ehw047. [Epub ahead of print]

Long noncoding RNA MALAT1-derived mascRNA is involved in cardiovascular innate immunity.
Gast M, Schroen B, Voigt A, Haas J, Kuehl U, Lassner D, Skurk C, Escher F, Wang X, Kratzer A, Michalik K, Papageorgiou A, Peters T, Loebel M, Wilk S, Althof N, Prasanth KV, Katus H, Meder B, Nakagawa S, Scheibenbogen C, Schultheiss HP, Landmesser U, Dimmeler S, Heymans S, Poller W.
J Mol Cell Biol. 2016 Jan 27