Center for RNA Medicine


Rudolfsen, J. H.; Gluud, L. L.; Grønbæk, H.; Jensen, M. K.; Vyberg, M.; Olsen, J.; Bo Poulsen, P.; Hovelsø, N.; Gregersen, N. T.; Thomsen, A. B.; & Jepsen, P. Societal costs and survival of patients with biopsy-verified non-alcoholic steatohepatitis: Danish nationwide register-based study Annals of hepatology, 29(3), 101285. Advance online publication (2024)


Hansen, H.H.; Pors, S.; Andersen, M.W.; Vyberg, M.; Oró, D.; Madsen, M.R.; Lewinska, M.; Møllerhøj, M.B.; Madsen, A.N.; Feigh, M. Semaglutide reduces tumor burden in the GAN diet-induced obese and biopsy-confirmed mouse model of NASH-HCC with advanced fibrosisSci Rep 13, 23056 (2023).


Hansen, S.N.; Holm, A.; Kauppinen, S.; Klitgaard, H. RNA therapeutics for epilepsy: An emerging modality for drug discovery Epilepsia. 2023; 00: 1–17. 


Zhang, K.; Cheng, Y.; Peng, Y.; Jiang, F.; Zhang, C.; Ng, CSH.; Rosell. R.; Efird, JT.; Lal, A.; Nappi, F.; Weiskirchen, R.; Uchida, S.; Chua, MT.; D’Ambrosi, R. Scope highlights of Annals of Translational Medicine based on a review of the history, definition, and scope of translational medicine Ann Transl Med 2023;11(11):381. 


Sopic, M.; Vilne, B.; Gerdts, E.; Trindade, F.; Uchida, S.; Khatib, S.;  Wettinger, S.B.; Devaux, Y.; Magni, P..
Multiomics tools for improved atherosclerotic cardiovascular disease management
Trends in Molecular Medicine, 2023.

Velissari, R.; Ilieva, M.; Dao, J.; Miller, H.E.; Madsen, J.H.; Gorodkin, J.; Aikawa, M.; Ishii, H.; Uchida, S. Systematic analysis and characterization of long non-coding RNA genes in inflammatory bowel disease Briefings in Functional Genomics, 2023, elad044.


Nordahl, K.M.L.; Fedulov, V.; Holm, A.; Haanes, K.A. Intraocular Adeno-Associated Virus-Mediated Transgene Endothelin-1 Delivery to the Rat Eye Induces Functional Changes Indicative of Retinal Ischemia—A Potential Chronic Glaucoma Model Cells 2023, 12, 1987. 


Sams, A.; Haanes, K.A.; Holm, A.; Kazantzi, S.; Mikkelsen, L.F.; Edvinsson, L.; Brain, S.;  Sheykhzade, M.
Heterogeneous vasomotor responses in segments from Göttingen Minipigs coronary, cerebral, and mesenteric artery: A comparative study Vascular Pharmacology, Volume 153, 2023

Morales, D.R.; Rennie, S.; Uchida, S. Benchmarking RNA Editing Detection Tools BioTech 2023, 12, 56. 


Qian, N.; Distefano, R.; Ilieva, M.; Madsen, J.H.; Rennie, S.; Uchida, S. Systematic Analysis of Long Non-Coding RNAs in Inflammasome Activation in Monocytes/Macrophages Non-Coding RNA 2023, 9, 50.


Nordahl, K.M.L.; Fedulov, V.; Holm, A.; Haanes, K.A. Intraocular Adeno-Associated Virus-Mediated Transgene Endothelin-1 Delivery to the Rat Eye Induces Functional Changes Indicative of Retinal Ischemia—A Potential Chronic Glaucoma Model Cells 2023, 12, 1987


Ilieva, M.; Uchida, S. Methods and Tools in RNA Biology Non-Coding RNA 2023, 9, 46.


Nielsen, S.; Bzorek, M.; Vyberg, M.; Røge, R. Lessons Learned, Challenges Taken, and Actions Made for "Precision" Immunohistochemistry. Analysis and Perspectives From the NordiQC Proficiency Testing Program Applied immunohistochemistry & molecular morphology 2023 Aug 1;31(7):452-458


Jha, P.; Barbeiro, M.; Lupieri, A.; Aikawa, E.; Uchida, S.;  Aikawa, M. Computational methods for functional characterization of lncRNAs in human diseases: A focus on co-expression networks Current Bioinformatics 2023; 18.


Distefano, R.; Mirolyuba, I.; Sarah, R.; Uchida, S. Recommendations for Bioinformatic Tools in LncRNA Research Current Bioinformatics 2023; 18. 


Tang, XL.; Nasr, M.; Zheng; Zobul, T.; Stephan, J.K.; Uchida, S.; Singhal, R.; Khan, A.; Gumpert, A.; Bolli, R.; Wysoczynski, M. Bone Marrow and Wharton’s Jelly Mesenchymal Stromal Cells are Ineffective for Myocardial Repair in an Immunodeficient Rat Model of Chronic Ischemic Cardiomyopathy Stem Cell Rev and Rep (2023).  


Distefano, R.; Ilieva, M.; Madsen, J.H.; Rennie, S.; Uchida, S. DoxoDB: A Database for the Expression Analysis of Doxorubicin-Induced lncRNA Genes Non-Coding RNA 2023, 9, 39. 


Panella, R.; Cotton, C.A.; Maymi, V.A.; Best, S.; Berry, K.E.; Lee, S.; Batalini, F.; Vlachos, I.S.; Clohessy, J.G.; Kauppinen, S.; et al. Targeting of microRNA-22 Suppresses Tumor Spread in a Mouse Model of Triple-Negative Breast Cancer Biomedicines 2023, 11, 1470.


Thomsen, C.; Blok-Husum, L.; Georgsen, J.B.; Steiniche, T.; Vyberg, M. Keratin 5 in Lung Cancer Specimens: Comparison of Four Antibody Clones and KRT5 mRNA-ISH Appl Immunohistochem Mol Morphol. 2023 Jul 1;31(6):347-353, 2023 May 12.


Distefano, R.; Ilieva, M.; Madsen, J.H.; Uchida, S. CrohnDB: A Web Database for Expression Profiling of Protein-Coding and Long Non-Coding RNA Genes Crohn Disease. Computation 2023, 11, 105. 


Ilieva, M.; Kauppinen, S.; Uchida, S. Chapter 7 - The emerging roles of epitranscriptomic marks in cancer
Editor(s): Steven G. Gray, In Translational Epigenetics, Epigenetic Cancer Therapy (Second Edition), Academic Press, 2023, Pages 129-141


Distefano, R.; Ilieva, M.; Madsen, J.H.; Ishii, H.; Aikawa, M.; Rennie, S.; Uchida, S. T2DB: A Web Database for Long Non-Coding RNA Genes in Type II Diabetes Non-Coding RNA 2023, 9, 30. 


Grandt, J.; Jensen, A. S.; Werge, M.; Rashu, E.,; Junker, A.; Hobolth, L.; Mortensen, C.; Kristiansen, M.; Vyberg, M.,;Serizawa, R.; Møller, S.; Gluud, L. L.; Albrechtsen, N. J. W. Postprandial dysfunction in metabolic associated fatty liver disease (MAFLD). Physiol Rep. 2023 Apr;11(8):e15653


Shiu, P.K.T.; Ilieva, M.; Holm, A.; Uchida, S.; DiStefano, J.K.; Bronisz, A.; Yang, L.; Asahi, Y.; Goel, A.; Yang, L.; Nuthanakanti, A.; Serganov, A.; Alahari, S.K.; Lin, C.; Pardini, B.; Naccarati, A.; Jin, J.; Armanios, B.; Zhong, X.-b.; Sideris, N.; Bayraktar, S.; Castellano, L.; Gerber, A.P.; Lin, H.; Conn, S.J.; Sleem, D.M.M.; Timmons, L. The Non-Coding RNA Journal Club: Highlights on Recent Papers—12. Non-Coding RNA 2023, 9, 28. 


Panella, R.; Zanderigo, F.; Morandini, F.; Federico, D.;  Vicentini, E.; Andreetta, F.; Toniolo, A.; Kauppinen, S.. Assessment of immunostimulatory responses to the antimiR-22 oligonucleotide compound RES-010 in human peripheral blood mononuclear cells  Frontiers in Pharmacology, Vol.14, 2023      

Sen, I.; Uchida, S.; Garikipati, V.N.S. Long non-coding RNA lnc-CHAF1B-3 as a new player in fibrosis 
Molecular Therapy - Nucleic Acids, Vol. 31, 2023


Rodriguez-Morales, D.; Ilieva, M.; Rennie, S.; Uchida, S. Potential Usages of A-to-I RNA Editing Patterns as Diagnostic Biomarkers American Journal of Physiology,  27 Feb. 2023

Delpire, E.; Hawke, T.J.; Karthikeyan, M.; Kong, W.; Nyström, A.; Uchida, S.; Schaefer, L.. American Journal of Physiology-Cell Physiology in 2022: at a glance American Journal of Physiology, 16 January 2023


Ilieva, M.; Uchida, S. Potential Involvement of LncRNAs in Cardiometabolic Diseases Genes 2023, 14, 213


Mathiyalagan, P.; Martelotto, L.G.; Ounzain, S.; El-Osta, A.; Uchida, S. Editorial: RNA-chromatin interactions: Biology, mechanism, disease and therapeutics Frontiers in Genetics 13:1069427 (2023)


Roehlen N, Saviano A, El Saghire H, Crouchet E, Nehme Z, Del Zompo F, Jühling F, Oudot MA, Durand SC, Duong FHT, Cherradi S, Gonzalez Motos V, Almeida N, Ponsolles C, Heydmann L, Ostyn T, Lallement A, Pessaux P, Felli E, Cavalli A, Sgrignani J, Thumann C, Koutsopoulos O, Fuchs BC, Hoshida Y, Hofmann M, Vyberg M, Viuff BM, Galsgaard ED, Elson G, Toso A, Meyer M, Iacone R, Schweighoffer T, Teixeira G, Moll S, De Vito C, Roskams T, Davidson I, Heide D, Heikenwälder M, Zeisel MB, Lupberger J, Mailly L, Schuster C, Baumert TF. A monoclonal antibody targeting nonjunctional claudin-1 inhibits fibrosis in patient-derived models by modulating cell plasticity Science translational medicine, 14(676), (2022)


Yip, C.W.; Hon, C.C.; Yasuzawa, K.; …; Kauppinen, S.; Yagi, K.; Okazaki, Y.; Kasukawa, T.; de Hoon, M.; Carninci, P.; Shin, J.W.  Antisense-oligonucleotide-mediated perturbation of long non-coding RNA reveals functional features in stem cells and across cell types Cell reports, 41(13), 111893 (2022)


Løvendorf, M.B.; Holm, A; Petri, A.; Thrue, C.A.; Uchida, S.; Venø, M.T.; Kauppinen, S. Knockdown of Circular RNAs Using LNA-Modified Antisense Oligonucleotides Nucleic Acid Ther. Nov 23., 2022


Ilieva, M.; Uchida, S. Perspectives of LncRNAs for therapy Cell Biol Toxicol (2022) 


Hiromichi, S.; Tomoaki, H.; Shotaro, T.; Kazuki, S.; Shogo, K.; Toru, K.; Yuichiro, D.; Hidetoshi, E.; Kazuhiko, O.; Shizuka, U.; Hideshi, I. Emerging roles of long noncoding and circular RNAs in pancreatic ductal adenocarcinoma Frontiers in Physiology, vol. 13, 2022   


Ilieva, M.; Panella, R.; Uchida, S. MicroRNAs in Cancer and Cardiovascular Disease Cells 2022, 11, 3551. 


Berhane, T.; Holm, A.; Karstensen, K.T.; Petri, A.; Ilieva, M.S.; Krarup, H.; Vyberg, M.; Løvendorf, M.B.; Kauppinen, S. Knockdown of the long noncoding RNA PURPL induces apoptosis and sensitizes liver cancer cells to doxorubicin Scientific Reports 12: 19502, 2022 


Sato, H.; Sasaki, K.; Hara, T.; Tsuji, Y.; Arao, Y.; Otsuka, C.; Hamano, Y.; Ogita, M.; Kobayashi, S.; di Luccio, E.; Hirotsu, T.; Doki, Y.; Eguchi, H.; Satoh, T.; Uchida, S.; Ishii, H. Pancreatic Cancer Research beyond DNA Mutations Biomolecules 2022, 12, 1503. 


Vyberg, M.; Nielsen, S.; Bzorek, M.; Røge, R. NordiQC Assessments of Synaptophysin Immunoassays Appl Immunohistochem Mol Morphol. 2021 Oct 1;29(9):643-647. 


Zhu, C.; Lee, J.Y., Woo, J.Z; Xu, L.; Nguyenla, X.; Yamashiro, L.H.; Ji, F.; Biering, S.B.; Van Dis, E.; Gonzalez, F.; Fox, D., Wehri, E.; Rustagi, A.; Pinsky, B.A.; Schaletzky, J.; Blish, C.A.; Chiu, C.; Harris, E.; Sadreyev, R.I.; Stanley, S.; Kauppinen, S.; Rouskin, S.; Näär, A.M. An intranasal ASO therapeutic targeting SARS-CoV-2. Nature communications 2022, 13(1), 4503. 


Ilieva, M.; Dao, J.; Miller, H.E.; Madsen, J.H.; Bishop, A.J.R.; Kauppinen, S.; Uchida, S. Systematic Analysis of Long Non-Coding RNA Genes in Nonalcoholic Fatty Liver Disease Non-Coding RNA 2022, 8, 56


Ilieva, M;, Tschaikowski, M.; Vandin, A.; Uchida, S. The current status of gene expression profilings in COVID-19 patients Clinical and Translational Discovery 2022, July 17


Uchida, S.; Yu, J.; Goldman, M.; Asmis, R.; Yang, X.; Aikawa, E.; Bourantas, C.; Aikawa, M.; Stahel, H.T. Editorial: Research Reproducibility and Preventing Fraud Frontiers in Cardiovascular Medicine 2022, July 11


Nakayama, M.; Ozato, Y.; Tsuji, Y.; Arao, Y.; Otsuka, C.; Hamano, Y.; Sumi, G.; Ofusa, K.; Uchida, S.; Vecchione, A.; Ishii, H. RNA Modification in Inflammatory Bowel Diseases. Biomedicines 2022, 10, 1695.


Mohammed, R.H.;  Goody, P.R.; Zietzer, A.; Xiang, X.; Niepmann, S.T.; Sedaghat, A.; Tiyerili, V.; Chennupati, R.; Moore IV, J.B.; Boon, R.A.; Uchida, S.; Sinning, J-M.; Zimmer, S.; Latz, E.; Werner, N.; Nickenig, G. and Jansen, F. Circulating MicroRNA-122-5p Is Associated With a Lack of Improvement in Left Ventricular Function After Transcatheter Aortic Valve Replacement and Regulates Viability of Cardiomyocytes Through Extracellular Vesicles Circulation 2022, July 8. 


Ilieva M; Uchida S. Functional roles of epitranscriptomic marks in the cardiovascular system and disease: a narrative review. Annals of Translational Medicine 2022;10(13):753. 


Ilieva, M.; Uchida, S. Long Non-Coding RNAs in Cardiac and Pulmonary Fibroblasts and Fibrosis. Non-Coding RNA 2022, 8, 53. 


Sansbury, B.E., Nystoriak, M.A.; Uchida, S.; Wysoczynski, M. and Moore, J.B. IV: Rigor Me This: What Are the Basic Criteria for a Rigorous, Transparent, and Reproducible Scientific Study? Frontiers in Cardiovascular Medicine 9:913612, 2022. 


Rai, A.K.; Rajan, K.S.; Bisserier, M.; Brojakowska, A.; Sebastian, A.; Evans, A.C.; Coleman. M.A.; Mills, P.J; Arakelyan, A.; Uchida S.; Hadri, L.; Goukassian, D.A.; Garikipati, V.N.S. Spaceflight-Associated Changes of snoRNAs in Peripheral Blood Mononuclear Cells and Plasma Exosomes—A Pilot Study Frontiers in Cardiovascular Medicine, 2022 June 24 


Ilieva, M.; Uchida, S.; Extracellular RNAs as communicators in cardiovascular disease: a narrative review ExRNA 2022


Fulghum, K.L.; Smith, J.B.; Chariker, J.; Garrett, L.F.; Brittian, K.R.; Lorkiewicz, P.; McNally, L.A.; Uchida, S.; Jones, S.P; Hill, B.G.; Collins, H.E.Metabolic Signatures of Pregnancy-Induced Cardiac Growth Am J Physiol Heart Circ Physiol. 2022 May 27. 


Ilieva, M.; Aldana, B.I.; Vinten, K.T.; Hohmann, S.; Woofenden, T.W.; Lukjanska, R.; Petersen, H.S.W.; Michel, T.M.  Proteomic phenotype of cerebral organoids derived from autism spectrum disorder patients reveal disrupted energy metabolism, cellular components, and biological processes Mol Psychiatry (2022), May 2022


Bonnet, H.; Bogard, B.; Hubé, F.; Ilieva, M.; Uchida, S.; Ariza-Mateos, M.A.; Serganov, A.; Pardini, B.; Naccarati, A.; Santulli, G.; Varzideh, F.; Xiao, H.; Shiu, P.K.T. The Non-Coding RNA Journal Club: Highlights on Recent Papers—11 Non-Coding RNA 2022, 8, 31. 


Ilieva, M., Uchida, S. Epitranscriptomics in fibroblasts and fibrosis Am J Physiol Cell Physiol 2022, May 4.


Møllerhøj, M.B.; Veidal, S.S.; Thrane, K.T.; Oró, D.; Overgaard, A.; Salinas, C.G.; Madsen, M.R.; Pfisterer, L.; Vyberg, M.; Simon, E.; Broermann, A.; Vrang, N.; Jelsing, J.; Feigh, M.; Hansen, H.H. Hepatoprotective effects of semaglutide, lanifibranor and dietary intervention in the GAN diet-induced obese and biopsy-confirmed mouse model of NASH Clinical and translational science 2022, May, 15(5), 1167–1186.


Holm, A.; Hansen, S.N.; Klitgaard, H.; Kauppinen, S. Clinical advances of RNA therapeutics for treatment of neurological and neuromuscular diseases RNA Biology (2022) 19: 594-608


Louw, A.;  Panou, V.;  Szejniuk, W.M; Meristoudis, C.;  Chai, S.M; Van Vliet, C.; Lee, Y.C.G;  Dick, I.M.; Firth, T.; Lynggaard, L.A.; Asghari, A.B.; Vyberg, M.; Hansen, J.; Creaney, J.; Røe, O.D. BAP1 loss by immunohistochemistry predicts improved survival to first line platinum/pemetrexed chemotherapy for pleural mesothelioma patients: A validation study Journal of Thoracic Oncology, 2022 Jul;17(7):921-930


Holm, A.; Possovre, M-L.; Bandarabadi, M.; Moseholm, K.F.; Justinussen, J.L; Bozic, I.; Lemcke, R.; Arribat, Y.; Amati, F.; Silahtaroglu, A.; Juventin, M.; Adamantidis, A.; Tafti, M.; Kornum, B.R.The evolutionarily conserved miRNA-137 targets the neuropeptide hypocretin/orexin and modulates the wake to sleep ratio PNAS, April 22, 2022 


Wysoczynski, M.; Stephan, J.; Uchida, S. Glucosamine regulates macrophage function in heart failure Clinical and translational medicine 2022, Vol.12(4)


Møllerhøj, M. B., Veidal, S. S., Thrane, K. T., Oró, D., Overgaard, A., Salinas, C. G., Madsen, M. R., Pfisterer, L., Vyberg, M., Simon, E., Broermann, A., Vrang, N., Jelsing, J., Feigh, M., & Hansen, H. H. Hepatoprotective effects of semaglutide, lanifibranor and dietary intervention in the GAN diet-induced obese and biopsy-confirmed mouse model of NASH. Clinical and Translational Science, Feb. 2022. 


Miller, H.E.; IIlieva, M.; Bishop, A.J.R.; Uchida, S. Current Status of Epitranscriptomic Marks Affecting lncRNA Structures and Functions Non-Coding RNA 2022, 8(2), 23.


Ghazal, S.; Fischer, A.G.; Brittian, K.R.; Elliot, E.;  Nystoriaka, M.A; Uchida, S.; Wysoczynskia, M.; Leask, A.; Jones, S.P.;  Moore IV, J.B. Collagen Type XIX Regulates Cardiac Extracellular Matrix Structure and Ventricular Function Matrix Biology, March 2022.


Ilieva M., Uchida S. Long Non-Coding RNAs in Induced Pluripotent Stem Cells and Their Differentiation Am J Physiol Cell Physiol 2022, Mar. 2.


Ilieva M., Miller H.E., Agarwal A., Paulus G.K., Madsen J.H., Bishop A.J.R, Kauppinen S., Uchida S.,FibroDB: Expression Analysis of Protein-Coding and Long Non-Coding RNA Genes in Fibrosis Non-Coding RNA 2022, 8(1), 13.  


Zelko I.N., Dassanayaka S., Malovichko M.V., Howard C.M., Garrett L.F., Uchida S., Brittian K.R., Conklin D.J., Jones S.P., Srivastava S., Chronic Benzene Exposure Aggravates Pressure Overload-Induced Cardiac Dysfunction Toxicological Sciences, Okt. 2021.


Malkovichko, M.V, Abpanalp, T.W., McFall, S.A., Taylor, S.B., Wickramasinghe, N.S., Sithu, I.S., Zelko, I.N., Uchida, S., Hill, B.G., Sutaria, S.R., Nantz, M.H., Bhatnagar, A., Conklin, D.J., O’Toole, T.E., Srivastava, S. 2021. Subclinical markers of cardiovascular toxicity of benzene inhalation in mice Toxicology and Applied Pharmacology, Vol. 431, 15. Nov. 2021, 115742.


Audam, T.N., Howard, C.M., Garrett, L.F., Zheng, Y.W., Bradley, J.A., Brittian, K.R., Frank, M.W., Fulghum, K.L., Pólos, M., Herczeg, S., Merkely, B., Radovits, T., Uchida, S., Hill, B.G., Dassanayaka, S., Jackowski, S., Jones, S.P. 2021. Cardiac PANK1 Deletion Exacerbates Ventricular Dysfunction During Pressure Overload. American Journal of Physiology-Heart and Circulatory Physiology, 17. Sept. 2021.


Rai AK, Lee B, Hebbard C, Uchida S, Garikipati VNS. 2021. Decoding the complexity of circular RNAs in cardiovascular disease.  Pharmacological Research, Vol. Sept. 2021, 105766.


Holm A, Løvendorf MB, Kauppinen S. 2021. Development of siRNA Therapeutics for the Treatment of Liver Diseases.  Methods Mol Biol. 2282: 57-75.


Vidarsdottir L, Azimi A, Das I, Sigvaldadottir I, Suryo Rahmanto A, Petri A, Kauppinen S, Ingvar C, Jönsson G, Olsson H, Frostvik Stolt M, Tuominen R, Sangfelt O, Pokrovskaja Tamm K, Hansson J, Grandér D, Egyházi Brage S, Johnsson P. 2021. PTENP1-AS contributes to BRAF inhibitor resistance and is associated with adverse clinical outcome in stage III melanomaSci Rep. 11(1):11023. 


Hosen MR, Li Q, Liu Y, Zietzer A, Maus K, Goody P, Uchida S, Latz E, Werner N, Nickenig G, Jansen F. 2021 Coronary Artery Disease Increases the Long Noncoding RNA PUNISHER in Small Extracellular Vesicles and Regulates Endothelial Cell Function via Vesicular ShuttlingMolecular Therapy: Nucleic Acid (2021).


Garikipati, V.N.S and Uchida, S. 2021 Elucidating the Functions of Non-Coding RNAs from the Perspective of RNA Modifications. Non-Coding RNA 2021, 7(2), 31.


Karstensen, K.T., Schein, A., Petri, A., Bøgsted, M., Dybkær, K., Uchida, S. & Kauppinen, S. 2021 Long Non-Coding RNAs in Diffuse Large B-Cell Lymphoma. Non-Coding RNA 2021, 7(1), 1.


Jha P.K, Vijay A., Halu A., Uchida S. and Aikawa M. 2020. Gene expression profiling reveals the shared and distinct transcriptional signatures in human lung epithelial cells infected with SARS-CoV-2, MERS-CoV or SARS-CoV: Potential implications in cardiovascular complications of COVID-19. Front. Cardiovasc. Med.


Wang L, Sinnott-Armstrong N, Wagschal A, Wark AR, Camporez J-P, Perry RJ, Ji F, Sohn Y, Oh J, Wu S, Chery J, Moud BM, Saadat A, Dankel SN, Mellgren G, Tallapragada DSP, Strobel SM, Lee M-J, Tewhey R, Sabeti PC, Schaefer A, Petri A, Kauppinen S, Chung RT, Soukas A, Avruch J, Fried SK, Hauner H, Sadreyev RI, Shulman GI, Claussnitzer M, & Näär A. 2020. A MicroRNA Linking Human Positive Selection and Metabolic Disorders. Cell 183: 684 701.


Dyring-Andersen B, Løvendorf MB, Coscia F, Santos A, Møller LBP, Colaço AR, Niu L, Bzorek M, Doll S, Andersen JL, Clark RA, Skov L, Teunissen MBM and Mann M. 2020. Spatially and cell-type resolved quantitative proteomic atlas of healthy human skin. Nat. Commun.  11: 5587.


Uchida S, and Kauppinen S. 2020. Long non-coding RNAs in liver cancer and nonalcoholic steatohepatitis. Noncoding RNA 6: E34.


Ramilowski JA, Yip CW, Agrawal S, Chang JC, Ciani Y, Kulakovskiy IV, Mendez M, Ooi JLC, Ouyang JF, Parkinson N, Petri A, Roos L, Severin J, Yasuzawa K, Abugessaisa I, Akalin A, Antonov IV, Arner E, Bonetti A, Bono H, Borsari B, Brombacher F, Cameron CJ, Cannistraci CV, Cardenas R, Cardon M, Chang H, Dostie J, Ducoli L, Favorov A, Fort A, Garrido D, Gil N, Gimenez J, Guler R, Handoko L, Harshbarger J, Hasegawa A, Hasegawa Y, Hashimoto K, Hayatsu N, Heutink P, Hirose T, Imada EL, Itoh M, Kaczkowski B, Kanhere A, Kawabata E, Kawaji H, Kawashima T, Kelly ST, Kojima M, Kondo N, Koseki H, Kouno T, Kratz A, Kurowska-Stolarska M, Kwon ATJ, Leek J, Lennartsson A, Lizio M, López-Redondo F, Luginbühl J, Maeda S, Makeev VJ, Marchionni L, Medvedeva YA, Minoda A, Müller F, Muñoz-Aguirre M, Murata M, Nishiyori H, Nitta KR, Noguchi S, Noro Y, Nurtdinov R, Okazaki Y, Orlando V, Paquette D, Parr CJC, Rackham OJL, Rizzu P, Sánchez Martinez DF, Sandelin A, Sanjana P, Semple CAM, Shibayama Y, Sivaraman DM, Suzuki T, Szumowski SC, Tagami M, Taylor MS, Terao C, Thodberg M, Thongjuea S, Tripathi V, Ulitsky I, Verardo R, Vorontsov IE, Yamamoto C, Young RS, Baillie JK, Forrest ARR, Guigó R, Hoffman MM, Hon CC, Kasukawa T, Kauppinen S, Kere J, Lenhard B, Schneider C, Suzuki H, Yagi K, de Hoon MJL, Shin JW, and Carninci P. 2020. Functional annotation of human long noncoding RNAs via molecular phenotyping. Genome Res. 30: 1060-1072.


Papaioannou D, Volinia S, Nicolet D, Świerniak M, Petri A, Mrózek K, Bill M, Pepe F, Walker CJ, Walker AE, Carroll AJ, Kohlschmidt J, Eisfeld AK, Powell BL, Uy GL, Kolitz JE, Wang ES, Kauppinen S, Dorrance A, Stone RM, Byrd JC, Bloomfield CD, Garzon R. 2020. Clinical and functional significance of circular RNAs in cytogenetically normal AML. Blood Adv. 4: 239-251.


Papaioannou D, Petri A, Dovey OM, Terreri S, Wang E, Collins FA, Woodward LA, Walker AE, Nicolet D, Pepe F, Kumchala P, Bill M, Walker CJ, Karunasiri M, Mrózek K, Gardner ML, Camilotto V, Zitzer N, Cooper JL, Cai X, Rong-Mullins X, Kohlschmidt J, Archer KJ, Freitas MA, Zheng Y, Lee RJ, Aifantis I, Vassiliou G, Singh G, Kauppinen S, Bloomfield CD, Dorrance AM, Garzon R. 2019. The long non-coding RNA HOXB-AS3 regulates ribosomal RNA transcription in NPM1-mutated acute myeloid leukemia. Nat Commun. 10: 5351.


Guarnerio J, Zhang Y, Cheloni G, Panella R, Mae Katon J, Simpson M, Matsumoto A, Papa A, Loretelli C, Petri A, Kauppinen S, Garbutt C, Petur Nielsen G, Deshpande V, Castillo-Martin M, Cordon-Cardo C, Dimitrios S, Clohessy JG, Batish M, Pandolfi PP. 2019. Intragenic antagonistic roles of protein and circRNA in tumorigenesis. Cell Res. 8: 628-640.


Chery J , Petri A, Wagschal A, Lim S-Y, Cunningham J, Vasudevan S, Kauppinen S, and Näär AM. 2018. Development of Locked Nucleic Acid Antisense Oligonucleotides Targeting Ebola Viral Proteins and Host Factor Niemann-Pick C1. Nucleic Acid Ther 28: 273-284.


Tsukamoto S, Løvendorf MB, Park J, Salem KZ, Reagan MR, Manier S, Zavidij O, Rahmat M, Huynh D, Takagi S, Kawano Y, Kokubun K, Thrue CA, Nagano K, Petri A, Roccaro AM, Capelletti M, Baron R, Kauppinen S*, and Ghobrial IM*. 2018. Inhibition of microRNA-138 enhances bone formation in multiple myeloma bone marrow niche. Leukemia 32: 1739-1750. *Co-corresponding authors.


Schein A, Zucchelli S, Kauppinen S, Gustincich S, and Carninci P. 2016. Identification of antisense long noncoding RNAs that function as SINEUPs in human cells. Scientific Reports 6: 33605.


Petri A, Dybkær K, Bøgsted M, Thrue CA, Hagedorn PH, Schmitz A, Bødker JS, Johnsen HE, and Kauppinen S. 2015. Long noncoding RNA expression during human B-cell development. PLoS One 10: e0138236.


van Rooij E*, and Kauppinen S*. 2014. Development of microRNA therapeutics is coming of age. EMBO Mol Med. 6: 851-864. *Co-corresponding authors.


Rottiers V, Obad S, Petri A, McGarrah R, Lindholm MW, Black JC, Sinha S, Goody RJ, Lawrence MS, deLemos AS, Hansen HF, Whittaker S, Henry S, Brookes R, Najafi-Shoushtari SH, Chung RT, Whetstine JR, Gerszten RE, Kauppinen S*, and Näär AM*. 2013. Pharmacological inhibition of a microRNA family in non-human primates by a seed-targeting 8-mer antimiR. Science Trans Med 5: 212ra162. *Co-corresponding authors.


Murphy BL, Obad S, Bihannic L, Ayrault O, Zindy F, Kauppinen S, and Roussel MF. 2013. Silencing of the miR-17~92 cluster family inhibits medulloblastoma progression. Cancer Res. 73: 7068-78.


Janssen, HL, Reesink, HW, Lawitz, EJ, Zeuzem, S, Rodriguez-Torres, M, Patel, K, van der Meer, AJ, Patick, AK, Chen, A, Zhou, Y, Persson, R, King, BD, Kauppinen, S, Levin, AA, and Hodges, MR. 2013. Treatment of HCV infection by targeting microRNA. N Engl J Med 368: 1685-94.


Lindow M, and Kauppinen S. 2012. Discovering the first microRNA-targeted drug. J Cell Biol. 199: 407-12.


Zhang Y, Roccaro AM, Rombaoa C, Flores L, Obad S, Fernandes SM, Sacco A, Liu Y, Ngo H, Quang P, Azab AK, Azab F, Maiso P, Reagan M, Brown JR, Thai TH, Kauppinen S, and Ghobrial IM. 2012. LNA-mediated anti-miR-155 silencing in low-grade B-cell lymphomas. Blood 120: 1678-86.


Stenvang J, Petri A, Lindow M, Obad S, and Kauppinen S. 2012. Inhibition of microRNA function by antimiR oligonucleotides. Silence 3:1.


Garchow BG, Encinas OB, Leung YT, Tsao PY, Eisenberg RA, Caricchio R, Obad S, Petri A, Kauppinen S, and Kiriakidou M. 2011. Silencing of microRNA-21 in vivo ameliorates autoimmune splenomegaly in lupus mice. EMBO Mol. Med. 10: 605-15.


Eskildsen T, Taipaleenmäki H, Stenvang J, Abdallah BM, Ditzel N, Nossent AY, Bak M, Kauppinen S, and Kassem M. 2011. MicroRNA-138 regulates osteogenic differentiation of human stromal (mesenchymal) stem cells in vivo. Proc. Natl. Acad. Sci. USA 108: 6139-44.


Obad S, dos Santos CO, Petri A, Heidenblad M, Broom O, Ruse C, Fu C, Lindow M, Stenvang J, Straarup EM, Hansen HF, Koch T, Pappin D, Hannon GJ, and Kauppinen S. 2011. Silencing of microRNA families by seed-targeting tiny LNAs. Nat. Genet. 43: 371-8.


Castoldi M, Vujic Spasic M, Altamura S, Elmén J, Lindow M, Kiss J, Stolte J, Sparla R, D'Alessandro LA, Klingmüller U, Fleming RE, Longerich T, Gröne HJ, Benes V, Kauppinen S, Hentze MW, and Muckenthaler MU. 2011. The liver-specific microRNA miR-122 controls systemic iron homeostasis in mice. J. Clin. Invest. 121: 1386-96.


Patrick DM, Montgomery RL, Qi X, Obad S, Kauppinen S, Hill JA, van Rooij E, and Olson EN. 2010. Stress-dependent cardiac remodeling occurs in the absence of microRNA-21 in mice. J. Clin. Invest. 120: 3912-6.


Liu X, Sempere LF, Ouyang H, Memoli VA, Andrew AS, Luo Y, Demidenko E, Korc M, Shi W, Preis M, Dragnev KH, Li H, Direnzo J, Bak M, Freemantle SJ, Kauppinen S, and Dmitrovsky E. 2010. MicroRNA-31 functions as an oncogenic microRNA in mouse and human lung cancer cells by repressing specific tumor suppressors. J. Clin. Invest. 120: 1298-309.


Lanford RE, Hildebrandt-Eriksen ES, Petri A, Persson R, Lindow M, Munk ME, Kauppinen S, and Ørum H. 2010. Therapeutic silencing of microRNA-122 in primates with chronic hepatitis C virus infection. Science 327: 198-201.


Worm J, Stenvang J, Petri A, Frederiksen KS, Obad S, Elmén J, Hedtjärn M, Straarup EM, Hansen JB, and Kauppinen S. 2009. Silencing of microRNA-155 in mice during acute inflammatory response leads to derepression of c/ebp Beta and down-regulation of G-CSF. Nucleic Acids Res. 37: 5784-92.


Siegel G, Obernosterer G, Fiore R, Oehmen M, Bicker S, Christensen M, Khudayberdiev S, Leuschner PF, Busch CJ, Kane C, Hübel K, Dekker F, Hedberg C, Rengarajan B, Drepper C, Waldmann H, Kauppinen S, Greenberg ME, Draguhn A, Rehmsmeier M, Martinez J, and Schratt GM. 2009. A functional screen implicates microRNA-138-dependent regulation of the depalmitoylation enzyme APT1 in dendritic spine morphogenesis. Nat. Cell Biol. 11: 705-16.


Kocerha J, Faghihi MA, Lopez-Toledano MA, Huang J, Ramsey AJ, Caron MG, Sales N, Willoughby D, Elmen J, Hansen HF, Orum H, Kauppinen S, Kenny PJ, and Wahlestedt C. 2009. MicroRNA-219 modulates NMDA receptor-mediated neurobehavioral dysfunction. Proc. Natl. Acad. Sci. USA 106: 3507-12.


Hébert SS, Horré K, Nicolaï L, Papadopoulou AS, Mandemakers W, Silahtaroglu AN, Kauppinen S, Delacourte A, and De Strooper B. 2008. Loss of microRNA cluster miR-29a/b-1 in sporadic Alzheimer's disease correlates with increased BACE1/beta-secretase expression. Proc. Natl. Acad. Sci. USA 105: 6415-20.


Kauppinen S, and Havelda Z. 2008. Detection of siRNAs and miRNAs. Methods Mol. Biol. 451: 217-27.


Elmén J, Lindow M, Schütz S, Lawrence M, Petri A, Obad S, Lindholm M, Hedtjärn M, Hansen HF, Berger U, Gullans S, Kearney P, Sarnow P, Straarup EM, and Kauppinen S. 2008. LNA-mediated microRNA silencing in non-human primates. Nature 452: 896-9.


Silahtaroglu AN, Nolting D, Dyrskjøt L, Berezikov E, Møller M, Tommerup N, and Kauppinen S. 2007. Detection of microRNAs in frozen tissue sections by fluorescence in situ hybridization using locked nucleic acid probes and tyramide signal amplification. Nat. Protoc. 2: 2520-8.


Kloosterman WP, Wienholds E, de Bruijn E, Kauppinen S, and Plasterk RH. 2006. In situ detection of miRNAs in animal embryos using LNA-modified oligonucleotide probes. Nat. Methods 3: 27-9.


Wienholds E, Kloosterman WP, Miska E, Alvarez-Saavedra E, Berezikov E, de Bruijn E, Horvitz HR, Kauppinen S, and Plasterk RH. 2005. MicroRNA expression in zebrafish embryonic development. Science 309: 310-1.