Moulder R, Bhosale SD, Viiri K, Lahesmaa R. Comparative proteomics analysis of the mouse mini-gut organoid: insights into markers of gluten challenge from celiac disease intestinal biopsies. Front. Mol. Biosci., 28 August 2024 Sec. Cellular Biochemistry Volume 11 – 2024 | https://doi.org/10.3389/fmolb.2024.1446822
Dotsenko V, Tewes B, Hils M, Pasternack R, Isola J, Taavela J, Popp A, Sarin J, Huhtala H, Hiltunen P, Zimmermann T, Mohrbacher R, Greinwald R, Lundin KEA, Schuppan D, Mäki M, Viiri K. Transcriptomic analysis of intestine following administration of a transglutaminase 2 inhibitor to prevent gluten-induced intestinal damage in celiac disease. Nat Immunol. 2024 Jul;25(7):1218-1230. doi: 10.1038/s41590-024-01867-0.
Epub 2024 Jun 24. PubMed PMID: 38914866; PubMed Central PMCID: PMC11224021.
Isola J, Mäki M, Hils M, Pasternack R, Viiri K, Dotsenko V, Montonen T, Zimmermann T, Mohrbacher R, Greinwald R, Schuppan D. The Oral Transglutaminase 2 Inhibitor ZED1227 Accumulates in the Villous Enterocytes in Celiac Disease Patients during Gluten Challenge and Drug Treatment. Int J Mol Sci. 2023 Jun 28;24(13). doi: 10.3390/ijms241310815. PubMed PMID: 37445994; PubMed Central PMCID: PMC10341493.
Dotsenko V, Sioofy-Khojine AB, Hyöty H, Viiri K. Human intestinal organoid models for celiac disease research. Methods Cell Biol. 2023;179:173-193. doi: 10.1016/bs.mcb.2023.01.008. Epub 2023 Feb 24. PubMed PMID: 37625874.
Mattola S, Mäntylä E, Aho V, Salminen S, Leclerc S, Oittinen M, Salokas K, Järvensivu J, Hakanen S, Ihalainen TO, Viiri K, Vihinen-Ranta M. G2/M checkpoint regulation and apoptosis facilitate the nuclear egress of parvoviral capsids. Front Cell Dev Biol. 2022;10:1070599. doi: 10.3389/fcell.2022.1070599. eCollection 2022. PubMed PMID: 36568985; PubMed Central PMCID: PMC9773396.
Tavares M, Khandelwal G, Muter J, Viiri K, Beltran M, Brosens JJ, Jenner RG. JAZF1-SUZ12 dysregulates PRC2 function and gene expression during cell differentiation. Cell Rep. 2022 May 31;39(9):110889. doi: 10.1016/j.celrep.2022.110889. PubMed PMID: 35649353; PubMed Central PMCID: PMC9637993.
Stenvall CA, Tayyab M, Grönroos TJ, Ilomäki MA, Viiri K, Ridge KM, Polari L, Toivola DM. Targeted deletion of keratin 8 in intestinal epithelial cells disrupts tissue integrity and predisposes to tumorigenesis in the colon. Cell Mol Life Sci. 2021 Dec 24;79(1):10. doi: 10.1007/s00018-021-04081-5. PubMed PMID: 34951664; PubMed Central PMCID: PMC8709826.
George JJ, Martin-Diaz L, Ojanen MJT, Gasa R, Pesu M, Viiri K. PRC2 Regulated Atoh8 Is a Regulator of Intestinal Microfold Cell (M Cell) Differentiation. Int J Mol Sci. 2021 Aug 28;22(17). doi: 10.3390/ijms22179355. PubMed PMID: 34502262; PubMed Central PMCID: PMC8431250.
Taavela J, Viiri K, Välimäki A, Sarin J, Salonoja K, Mäki M, Isola J. Apolipoprotein A4 Defines the Villus-Crypt Border in Duodenal Specimens for Celiac Disease Morphometry. Front Immunol. 2021;12:713854. doi: 10.3389/fimmu.2021.713854. eCollection 2021. PubMed PMID: 34394117; PubMed Central PMCID: PMC8358775.
George JJ, Oittinen M, Martin-Diaz L, Zapilko V, Iqbal S, Rintakangas T, Arrojo Martins FT, Niskanen H, Katajisto P, Kaikkonen MU, Viiri K. Polycomb Repressive Complex 2 Regulates Genes Necessary for Intestinal Microfold Cell (M Cell) Development. Cell Mol Gastroenterol Hepatol. 2021;12(3):873-889. doi: 10.1016/j.jcmgh.2021.05.014. Epub 2021 May 28. PubMed PMID: 34058415; PubMed Central PMCID: PMC8346665.
Dotsenko V, Oittinen M, Taavela J, Popp A, Peräaho M, Staff S, Sarin J, Leon F, Isola J, Mäki M, Viiri K. Genome-Wide Transcriptomic Analysis of Intestinal Mucosa in Celiac Disease Patients on a Gluten-Free Diet and Postgluten Challenge. Cell Mol Gastroenterol Hepatol. 2021;11(1):13-32. doi: 10.1016/j.jcmgh.2020.07.010. Epub 2020 Jul 31. PubMed PMID: 32745639; PubMed Central PMCID: PMC7593586.
Cellier C, Bouma G, van Gils T, Khater S, Malamut G, Crespo L, Collin P, Green PHR, Crowe SE, Tsuji W, Butz E, Cerf-Bensussan N, Macintyre E, Parnes JR, Leon F, Hermine O, Mulder CJ. Safety and efficacy of AMG 714 in patients with type 2 refractory coeliac disease: a phase 2a, randomised, double-blind, placebo-controlled, parallel-group study. Lancet Gastroenterol Hepatol. 2019 Dec;4(12):960-970. doi: 10.1016/S2468-1253(19)30265-1. Epub 2019 Sep 4. PubMed PMID: 31494097.
Taavela J, Viiri K, Popp A, Oittinen M, Dotsenko V, Peräaho M, Staff S, Sarin J, Leon F, Mäki M, Isola J. Histological, immunohistochemical and mRNA gene expression responses in coeliac disease patients challenged with gluten using PAXgene fixed paraffin-embedded duodenal biopsies. BMC Gastroenterol. 2019 Nov 15;19(1):189. doi: 10.1186/s12876-019-1089-7. PubMed PMID: 31730447; PubMed Central PMCID: PMC6858741.
Vattulainen M, Ilmarinen T, Koivusalo L, Viiri K, Hongisto H, Skottman H. Modulation of Wnt/BMP pathways during corneal differentiation of hPSC maintains ABCG2-positive LSC population that demonstrates increased regenerative potential. Stem Cell Res Ther. 2019 Aug 5;10(1):236. doi: 10.1186/s13287-019-1354-2. PubMed PMID: 31383008; PubMed Central PMCID: PMC6683518.
Viiri LE, Rantapero T, Kiamehr M, Alexanova A, Oittinen M, Viiri K, Niskanen H, Nykter M, Kaikkonen MU, Aalto-Setälä K. Extensive reprogramming of the nascent transcriptome during iPSC to hepatocyte differentiation. Sci Rep. 2019 Mar 5;9(1):3562. doi: 10.1038/s41598-019-39215-0. PubMed PMID: 30837492; PubMed Central PMCID: PMC6401154.
Kalliokoski S, Piqueras VO, Frías R, Sulic AM, Määttä JA, Kähkönen N, Viiri K, Huhtala H, Pasternack A, Laurila K, Sblattero D, Korponay-Szabó IR, Mäki M, Caja S, Kaukinen K, Lindfors K. Transglutaminase 2-specific coeliac disease autoantibodies induce morphological changes and signs of inflammation in the small-bowel mucosa of mice. Amino Acids. 2017 Mar;49(3):529-540. doi: 10.1007/s00726-016-2306-0. Epub 2016 Aug 9. PubMed PMID: 27503559.
Oittinen M, Popp A, Kurppa K, Lindfors K, Mäki M, Kaikkonen MU, Viiri K. Polycomb Repressive Complex 2 Enacts Wnt Signaling in Intestinal Homeostasis and Contributes to the Instigation of Stemness in Diseases Entailing Epithelial Hyperplasia or Neoplasia. Stem Cells. 2017 Feb;35(2):445-457. doi: 10.1002/stem.2479. Epub 2016 Sep 13. PubMed PMID: 27570105.
Teppo S, Laukkanen S, Liuksiala T, Nordlund J, Oittinen M, Teittinen K, Grönroos T, St-Onge P, Sinnett D, Syvänen AC, Nykter M, Viiri K, Heinäniemi M, Lohi O. Genome-wide repression of eRNA and target gene loci by the ETV6-RUNX1 fusion in acute leukemia. Genome Res. 2016 Nov;26(11):1468-1477. doi: 10.1101/gr.193649.115. Epub 2016 Sep 12. PubMed PMID: 27620872; PubMed Central PMCID: PMC5088590.
Beltran M, Yates CM, Skalska L, Dawson M, Reis FP, Viiri K, Fisher CL, Sibley CR, Foster BM, Bartke T, Ule J, Jenner RG. The interaction of PRC2 with RNA or chromatin is mutually antagonistic. Genome Res. 2016 Jul;26(7):896-907. doi: 10.1101/gr.197632.115. Epub 2016 May 9. PubMed PMID: 27197219; PubMed Central PMCID: PMC4937559.
Mäntylä E, Salokas K, Oittinen M, Aho V, Mäntysaari P, Palmujoki L, Kalliolinna O, Ihalainen TO, Niskanen EA, Timonen J, Viiri K, Vihinen-Ranta M. Promoter-Targeted Histone Acetylation of Chromatinized Parvoviral Genome Is Essential for the Progress of Infection. J Virol. 2016 Apr;90(8):4059-4066. doi: 10.1128/JVI.03160-15. Print 2016 Apr. PubMed PMID: 26842481; PubMed Central PMCID: PMC4810569.
Laitaoja M, Tossavainen H, Pihlajamaa T, Valjakka J, Viiri K, Lohi O, Permi P, Jänis J. Redox-dependent disulfide bond formation in SAP30L corepressor protein: Implications for structure and function. Protein Sci. 2016 Mar;25(3):572-86. doi: 10.1002/pro.2849. Epub 2015 Dec 10. PubMed PMID: 26609676; PubMed Central PMCID: PMC4815409.
Hervonen K, Salmi TT, Ilus T, Paasikivi K, Vornanen M, Laurila K, Lindfors K, Viiri K, Saavalainen P, Collin P, Kaukinen K, Reunala T. Dermatitis Herpetiformis Refractory to Gluten-free Dietary Treatment. Acta Derm Venereol. 2016 Jan;96(1):82-6. doi: 10.2340/00015555-2184. PubMed PMID: 26084552.
Vlachogiannis G, Niederhuth CE, Tuna S, Stathopoulou A, Viiri K, de Rooij DG, Jenner RG, Schmitz RJ, Ooi SKT. The Dnmt3L ADD Domain Controls Cytosine Methylation Establishment during Spermatogenesis. Cell Rep. 2015 May 12;11(6):990. doi: 10.1016/j.celrep.2015.04.041. Epub 2015 May 12. PubMed PMID: 28843284; PubMed Central PMCID: PMC5638939.
Vlachogiannis G, Niederhuth CE, Tuna S, Stathopoulou A, Viiri K, de Rooij DG, Jenner RG, Schmitz RJ, Ooi SKT. The Dnmt3L ADD Domain Controls Cytosine Methylation Establishment during Spermatogenesis. Cell Rep. 2015 Feb 17;10(6):944-956. doi: 10.1016/j.celrep.2015.01.021. Epub 2015 Feb 13. PubMed PMID: 25683717; PubMed Central PMCID: PMC4534369.
Viiri K, Mäki M, Lohi O. Phosphoinositides as regulators of protein-chromatin interactions. Sci Signal. 2012 May 1;5(222):pe19. doi: 10.1126/scisignal.2002917. Review. PubMed PMID: 22550339.
Nadalutti C, Viiri KM, Kaukinen K, Mäki M, Lindfors K. Extracellular transglutaminase 2 has a role in cell adhesion, whereas intracellular transglutaminase 2 is involved in regulation of endothelial cell proliferation and apoptosis. Cell Prolif. 2011 Feb;44(1):49-58. doi: 10.1111/j.1365-2184.2010.00716.x. PubMed PMID: 21199009; PubMed Central PMCID: PMC6496244.
Kanhere A, Viiri K, Araújo CC, Rasaiyaah J, Bouwman RD, Whyte WA, Pereira CF, Brookes E, Walker K, Bell GW, Pombo A, Fisher AG, Young RA, Jenner RG. Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2. Mol Cell. 2010 Jun 11;38(5):675-88. doi: 10.1016/j.molcel.2010.03.019. PubMed PMID: 20542000; PubMed Central PMCID: PMC2886029.
Viiri KM, Heinonen TY, Mäki M, Lohi O. Phylogenetic analysis of the SAP30 family of transcriptional regulators reveals functional divergence in the domain that binds the nuclear matrix. BMC Evol Biol. 2009 Jun 30;9:149. doi: 10.1186/1471-2148-9-149. PubMed PMID: 19566944; PubMed Central PMCID: PMC2711940.
Itäranta P, Viiri K, Kaartinen V, Vainio S. Lumbo-sacral neural crest derivatives fate mapped with the aid of Wnt-1 promoter integrate but are not essential to kidney development. Differentiation. 2009 Feb;77(2):199-208. doi: 10.1016/j.diff.2008.10.007. Epub 2008 Nov 21. PubMed PMID: 19281780.
Viiri KM, Jänis J, Siggers T, Heinonen TY, Valjakka J, Bulyk ML, Mäki M, Lohi O. DNA-binding and -bending activities of SAP30L and SAP30 are mediated by a zinc-dependent module and monophosphoinositides. Mol Cell Biol. 2009 Jan;29(2):342-56. doi: 10.1128/MCB.01213-08. Epub 2008 Nov 17. PubMed PMID: 19015240; PubMed Central PMCID: PMC2612513.
Viiri LE, Viiri KM, Ilveskoski E, Huhtala H, Mäki M, Tienari PJ, Perola M, Lehtimäki T, Karhunen PJ. Interactions of functional apolipoprotein E gene promoter polymorphisms with smoking on aortic atherosclerosis. Circ Cardiovasc Genet. 2008 Dec;1(2):107-16. doi: 10.1161/CIRCGENETICS.108.791764. Epub 2008 Oct 15. PubMed PMID: 20031552.
Koskinen LL, Korponay-Szabo IR, Viiri K, Juuti-Uusitalo K, Kaukinen K, Lindfors K, Mustalahti K, Kurppa K, Adány R, Pocsai Z, Széles G, Einarsdottir E, Wijmenga C, Mäki M, Partanen J, Kere J, Saavalainen P. Myosin IXB gene region and gluten intolerance: linkage to coeliac disease and a putative dermatitis herpetiformis association. J Med Genet. 2008 Apr;45(4):222-7. doi: 10.1136/jmg.2007.053991. Epub 2007 Dec 12. PubMed PMID: 18077767.
Korkeamäki H, Viiri K, Kukkonen MK, Mäki M, Lohi O. Alternative mRNA splicing of SAP30L regulates its transcriptional repression activity. FEBS Lett. 2008 Jan 23;582(2):379-84. doi: 10.1016/j.febslet.2007.11.084. Epub 2007 Dec 10. PubMed PMID: 18070604.
Viiri KM, Korkeamäki H, Kukkonen MK, Nieminen LK, Lindfors K, Peterson P, Mäki M, Kainulainen H, Lohi O. SAP30L interacts with members of the Sin3A corepressor complex and targets Sin3A to the nucleolus. Nucleic Acids Res. 2006;34(11):3288-98. doi: 10.1093/nar/gkl401. Print 2006. PubMed PMID: 16820529; PubMed Central PMCID: PMC1500868.
Lindfors K, Viiri KM, Niittynen M, Heinonen TY, Mäki M, Kainulainen H. TGF-beta induces the expression of SAP30L, a novel nuclear protein. BMC Genomics. 2003 Dec 18;4(1):53. doi: 10.1186/1471-2164-4-53. PubMed PMID: 14680513; PubMed Central PMCID: PMC319701.