non-coding RNAs



Prof. Dr. Shizuka Uchida is a Professor (WSR) in Bioinformatics and RNA Computational Biology and Co-Director at the Center for RNA Medicine, Department of Clinical Medicine, Aalborg University.


Prof. Uchida’s lab (Cardiovascular Bioinformatics: is interested in elucidating the functions of lncRNAs and epitranscriptomics enzymes using dry (bioinformatics) and wet (biology) lab techniques. He and his team have built a number of bioinformatics tools to help analyze high-throughput data (e.g., microarrays, RNA-seq). With extensive experience in biochemistry, developmental biology, and molecular biology, Prof. Uchida utilizes knockout and transgenic mice to understand the effects of lncRNAs and epitranscriptomics to cardiovascular system and development.

My research focuses on non-coding RNAs (i.e., lncRNAs, microRNAs) and epitranscriptomics (i.e., A-to-I RNA editing) in cardiovascular system and disease using both dry (bioinformatics) and wet (biology: biochemistry, developmental biology, molecular biology) lab techniques.

[1] 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. Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation. Nat Med. 2016 Oct;22(10):1140-1150. doi: 10.1038/nm.4172. PMID: 27595325


[2] John D, Weirick T, Dimmeler S, Uchida S. RNAEditor: easy detection of RNA editing events and the introduction of editing islands. Brief Bioinform. 2017 Nov 1;18(6):993-1001. doi: 10.1093/bib/bbw087. PMID: 27694136


[3] Weirick T, Trainor P, Rouchka E, DeFilippis A, Uchida S. DRETools: A tool-suite for differential RNA editing detection. F1000Research 2018, 7:1366 (


[4]  Uchida S, Jones SP. RNA Editing: Unexplored Opportunities in the Cardiovascular System. Circ Res. 2018 Feb 2;122(3):399-401. doi: 10.1161/CIRCRESAHA.117.312512. PMID: 29420208 


[5] Weirick T, Militello G, Hosen MR, John D, Moore Iv JB, Uchida S. Investigation of RNA Editing Sites within Bound Regions of RNA-Binding Proteins. High Throughput. 2019 Nov 29;8(4):19. doi: 10.3390/ht8040019. PMID: 31795425


[6] Moore JB 4th, Sadri G, Fischer AG, Weirick T, Militello G, Wysoczynski M, Gumpert AM, Braun T, Uchida S. The A-to-I RNA Editing Enzyme Adar1 Is Essential for Normal Embryonic Cardiac Growth and Development. Circ Res. 2020 Jul 31;127(4):550-552. doi: 10.1161/CIRCRESAHA.120.316932. PMID: 32362246


[7] Garikipati VNS, Uchida S. Elucidating the Functions of Non-Coding RNAs from the Perspective of RNA Modifications. Noncoding RNA. 2021 May 11;7(2):31. doi: 10.3390/ncrna7020031. PMID: 34065036 


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