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Cellular Biophysics

Publications

2024

  1. Azzari, L, Vippola, M, Nymark, S, Ihalainen, TO, Mäntylä, E. Iterative Immunostaining and NEDD Denoising for Improved Signal-To-Noise Ratio in ExM-LSCM. Bio Protoc. 2024;14 (18):e5072. doi: 10.21769/BioProtoc.5072. PubMed PMID:39346757 PubMed Central PMC11427331.
  2. Kauppila, M, Vattulainen, M, Ihalainen, TO, Mörö, A, Ilmarinen, T, Skottman, H et al.. Whole mount immunofluorescence analysis of fresh and stored human donor corneas highlights changes in limbal characteristics during storage. Ocul Surf. 2024;34 :50-59. doi: 10.1016/j.jtos.2024.06.004. PubMed PMID:38945477 .

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2023
  1. Tervonen, A, Korpela, S, Nymark, S, Hyttinen, J, Ihalainen, TO. The Effect of Substrate Stiffness on Elastic Force Transmission in the Epithelial Monolayers over Short Timescales. Cell Mol Bioeng. 2023;16 (5-6):475-495. doi: 10.1007/s12195-023-00772-0. PubMed PMID:38099211 PubMed Central PMC10716100.
  2. Terzioglu, M, Veeroja, K, Montonen, T, Ihalainen, TO, Salminen, TS, Bénit, P et al.. Mitochondrial temperature homeostasis resists external metabolic stresses. Elife. 2023;12 :. doi: 10.7554/eLife.89232. PubMed PMID:38079477 PubMed Central PMC10712956.
  3. Peussa, H, Fedele, C, Tran, H, Marttinen, M, Fadjukov, J, Mäntylä, E et al.. Light-Induced Nanoscale Deformation in Azobenzene Thin Film Triggers Rapid Intracellular Ca Increase via Mechanosensitive Cation Channels. Adv Sci (Weinh). 2023;10 (35):e2206190. doi: 10.1002/advs.202206190. PubMed PMID:37946608 PubMed Central PMC10724422.
  4. Belay, B, Mäntylä, E, Maibohm, C, Silvestre, OF, Hyttinen, J, Nieder, JB et al.. Substrate microtopographies induce cellular alignment and affect nuclear force transduction. J Mech Behav Biomed Mater. 2023;146 :106069. doi: 10.1016/j.jmbbm.2023.106069. PubMed PMID:37586175 .
  5. Danielsson, BE, George Abraham, B, Mäntylä, E, Cabe, JI, Mayer, CR, Rekonen, A et al.. Nuclear lamina strain states revealed by intermolecular force biosensor. Nat Commun. 2023;14 (1):3867. doi: 10.1038/s41467-023-39563-6. PubMed PMID:37391402 PubMed Central PMC10313699.
  6. Mäntylä, E, Montonen, T, Azzari, L, Mattola, S, Hannula, M, Vihinen-Ranta, M et al.. Iterative immunostaining combined with expansion microscopy and image processing reveals nanoscopic network organization of nuclear lamina. Mol Biol Cell. 2023;34 (9):br13. doi: 10.1091/mbc.E22-09-0448. PubMed PMID:37342871 PubMed Central PMC10398900.

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2022
  1. Mattola, S, Mäntylä, E, Aho, V, Salminen, S, Leclerc, S, Oittinen, M et al.. 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. PubMed PMID:36568985 PubMed Central PMC9773396.
  2. Azizi, L, Varela, L, Turkki, P, Mykuliak, VV, Korpela, S, Ihalainen, TO et al.. Talin variant P229S compromises integrin activation and associates with multifaceted clinical symptoms. Hum Mol Genet. 2022;31 (24):4159-4172. doi: 10.1093/hmg/ddac163. PubMed PMID:35861643 PubMed Central PMC9759328.
  3. Peussa, H, Kreutzer, J, Mäntylä, E, Mäki, AJ, Nymark, S, Kallio, P et al.. Pneumatic equiaxial compression device for mechanical manipulation of epithelial cell packing and physiology. PLoS One. 2022;17 (6):e0268570. doi: 10.1371/journal.pone.0268570. PubMed PMID:35657824 PubMed Central PMC9165817.
  4. Mattola, S, Salokas, K, Aho, V, Mäntylä, E, Salminen, S, Hakanen, S et al.. Parvovirus nonstructural protein 2 interacts with chromatin-regulating cellular proteins. PLoS Pathog. 2022;18 (4):e1010353. doi: 10.1371/journal.ppat.1010353. PubMed PMID:35395063 PubMed Central PMC9020740.
  5. Fadjukov, J, Wienbar, S, Hakanen, S, Aho, V, Vihinen-Ranta, M, Ihalainen, TO et al.. Gap junctions and connexin hemichannels both contribute to the electrical properties of retinal pigment epithelium. J Gen Physiol. 2022;154 (4):. doi: 10.1085/jgp.202112916. PubMed PMID:35275193 PubMed Central PMC8922333.
  6. Saari, J, Siddique, F, Korpela, S, Mäntylä, E, Ihalainen, TO, Kaukinen, K et al.. Toward Xeno-Free Differentiation of Human Induced Pluripotent Stem Cell-Derived Small Intestinal Epithelial Cells. Int J Mol Sci. 2022;23 (3):. doi: 10.3390/ijms23031312. PubMed PMID:35163236 PubMed Central PMC8835723.

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2021
  1. Mäntylä, E, Ihalainen, TO. Brick Strex: a robust device built of LEGO bricks for mechanical manipulation of cells. Sci Rep. 2021;11 (1):18520. doi: 10.1038/s41598-021-97900-5. PubMed PMID:34531455 PubMed Central PMC8445989.
  2. Mattola, S, Hakanen, S, Salminen, S, Aho, V, Mäntylä, E, Ihalainen, TO et al.. Concepts to Reveal Parvovirus-Nucleus Interactions. Viruses. 2021;13 (7):. doi: 10.3390/v13071306. PubMed PMID:34372512PubMed Central PMC8310053.
  3. Savijoki, K, Myllymäki, H, Luukinen, H, Paulamäki, L, Vanha-Aho, LM, Svorjova, A et al.. Surface-Shaving Proteomics of Mycobacterium marinum Identifies Biofilm Subtype-Specific Changes Affecting Virulence, Tolerance, and Persistence. mSystems. 2021;6 (3):e0050021. doi: 10.1128/mSystems.00500-21. PubMed PMID:34156290 PubMed Central PMC8269238.
  4. Viheriälä, T, Sorvari, J, Ihalainen, TO, Mörö, A, Grönroos, P, Schlie-Wolter, S et al.. Culture surface protein coatings affect the barrier properties and calcium signalling of hESC-RPE. Sci Rep. 2021;11 (1):933. doi: 10.1038/s41598-020-79638-8. PubMed PMID:33441679 PubMed Central PMC7806758.

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2020
  1. Fedele, C, Mäntylä, E, Belardi, B, Hamkins-Indik, T, Cavalli, S, Netti, PA et al.. Azobenzene-based sinusoidal surface topography drives focal adhesion confinement and guides collective migration of epithelial cells. Sci Rep. 2020;10 (1):15329. doi: 10.1038/s41598-020-71567-w. PubMed PMID:32948792 PubMed Central PMC7501301.
  2. Halonen, HT, Ihalainen, TO, Hyväri, L, Miettinen, S, Hyttinen, JAK. Cell adhesion and culture medium dependent changes in the high frequency mechanical vibration induced proliferation, osteogenesis, and intracellular organization of human adipose stem cells. J Mech Behav Biomed Mater. 2020;101 :103419. doi: 10.1016/j.jmbbm.2019.103419. PubMed PMID:31518945 .

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2019
  1. Sorvari, J, Viheriälä, T, Ilmarinen, T, Ihalainen, TO, Nymark, S. Analysis of ATP-Induced Ca2+ Responses at Single Cell Level in Retinal Pigment Epithelium Monolayers. Adv Exp Med Biol. 2019;1185 :525-530. doi: 10.1007/978-3-030-27378-1_86. PubMed PMID:31884665 .
  2. Halonen, HT, Ihalainen, TO, Hyväri, L, Miettinen, S, Hyttinen, JAK. Cell adhesion and culture medium dependent changes in the high frequency mechanical vibration induced proliferation, osteogenesis, and intracellular organization of human adipose stem cells. J Mech Behav Biomed Mater. 2020;101 :103419. doi: 10.1016/j.jmbbm.2019.103419. PubMed PMID:31518945 .
  3. Figueiras, E, Silvestre, OF, Ihalainen, TO, Nieder, JB. Phasor-assisted nanoscopy reveals differences in the spatial organization of major nuclear lamina proteins. Biochim Biophys Acta Mol Cell Res. 2019;1866 (12):118530. doi: 10.1016/j.bbamcr.2019.118530. PubMed PMID:31415840 .
  4. Johansson, JK, Karema-Jokinen, VI, Hakanen, S, Jylhä, A, Uusitalo, H, Vihinen-Ranta, M et al.. Sodium channels enable fast electrical signaling and regulate phagocytosis in the retinal pigment epithelium. BMC Biol. 2019;17 (1):63. doi: 10.1186/s12915-019-0681-1. PubMed PMID:31412898 PubMed Central PMC6694495.
  5. Tervonen, A, Ihalainen, TO, Nymark, S, Hyttinen, J. Structural dynamics of tight junctions modulate the properties of the epithelial barrier. PLoS One. 2019;14 (4):e0214876. doi: 10.1371/journal.pone.0214876. PubMed PMID:30964903PubMed Central PMC6456171.
  6. Vuorinen, EM, Rajala, NK, Ihalainen, TO, Kallioniemi, A. Correction to: Depletion of nuclear import protein karyopherin alpha 7 (KPNA7) induces mitotic defects and deformation of nuclei in cancer cells. BMC Cancer. 2019;19 (1):57. doi: 10.1186/s12885-018-5234-4. PubMed PMID:30642282 PubMed Central PMC6330744.
  7. Karvinen, J, Ihalainen, TO, Calejo, MT, Jönkkäri, I, Kellomäki, M. Characterization of the microstructure of hydrazone crosslinked polysaccharide-based hydrogels through rheological and diffusion studies. Mater Sci Eng C Mater Biol Appl. 2019;94 :1056-1066. doi: 10.1016/j.msec.2018.10.048. PubMed PMID:30423686 .

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2018
  1. Karvinen, J, Ihalainen, TO, Calejo, MT, Jönkkäri, I, Kellomäki, M. Characterization of the microstructure of hydrazone crosslinked polysaccharide-based hydrogels through rheological and diffusion studies. Mater Sci Eng C Mater Biol Appl. 2019;94 :1056-1066. doi: 10.1016/j.msec.2018.10.048. PubMed PMID:30423686 .
  2. Vuorinen, EM, Rajala, NK, Ihalainen, TO, Kallioniemi, A. Depletion of nuclear import protein karyopherin alpha 7 (KPNA7) induces mitotic defects and deformation of nuclei in cancer cells. BMC Cancer. 2018;18 (1):325. doi: 10.1186/s12885-018-4261-5. PubMed PMID:29580221 PubMed Central PMC5870926.

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2017
  1. Turunen, S, Joki, T, Hiltunen, ML, Ihalainen, TO, Narkilahti, S, Kellomäki, M et al.. Direct Laser Writing of Tubular Microtowers for 3D Culture of Human Pluripotent Stem Cell-Derived Neuronal Cells. ACS Appl Mater Interfaces. 2017;9 (31):25717-25730. doi: 10.1021/acsami.7b05536. PubMed PMID:28697300 .
  2. Rahikainen, R, von Essen, M, Schaefer, M, Qi, L, Azizi, L, Kelly, C et al.. Mechanical stability of talin rod controls cell migration and substrate sensing. Sci Rep. 2017;7 (1):3571. doi: 10.1038/s41598-017-03335-2. PubMed PMID:28620171 PubMed Central PMC5472591.
  3. Koivisto, JT, Joki, T, Parraga, JE, Pääkkönen, R, Ylä-Outinen, L, Salonen, L et al.. Bioamine-crosslinked gellan gum hydrogel for neural tissue engineering. Biomed Mater. 2017;12 (2):025014. doi: 10.1088/1748-605X/aa62b0. PubMed PMID:28233757 .

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2016
  1. Anderl, I, Vesala, L, Ihalainen, TO, Vanha-Aho, LM, Andó, I, Rämet, M et al.. Transdifferentiation and Proliferation in Two Distinct Hemocyte Lineages in Drosophila melanogaster Larvae after Wasp Infection. PLoS Pathog. 2016;12 (7):e1005746. doi: 10.1371/journal.ppat.1005746. PubMed PMID:27414410PubMed Central PMC4945071.
  2. Mäntylä, E, Salokas, K, Oittinen, M, Aho, V, Mäntysaari, P, Palmujoki, L et al.. Promoter-Targeted Histone Acetylation of Chromatinized Parvoviral Genome Is Essential for the Progress of Infection. J Virol. 2016;90 (8):4059-4066. doi: 10.1128/JVI.03160-15. PubMed PMID:26842481 PubMed Central PMC4810569.

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2015
  1. Mäntylä, E, Niskanen, EA, Ihalainen, TO, Vihinen-Ranta, M. Reorganization of Nuclear Pore Complexes and the Lamina in Late-Stage Parvovirus Infection. J Virol. 2015;89 (22):11706-10. doi: 10.1128/JVI.01608-15. PubMed PMID:26311881 PubMed Central PMC4645667.
  2. Ihalainen, TO, Aires, L, Herzog, FA, Schwartlander, R, Moeller, J, Vogel, V et al.. Differential basal-to-apical accessibility of lamin A/C epitopes in the nuclear lamina regulated by changes in cytoskeletal tension. Nat Mater. 2015;14 (12):1252-1261. doi: 10.1038/nmat4389. PubMed PMID:26301768 PubMed Central PMC4655446.
  3. Koho, T, Ihalainen, TO, Stark, M, Uusi-Kerttula, H, Wieneke, R, Rahikainen, R et al.. His-tagged norovirus-like particles: A versatile platform for cellular delivery and surface display. Eur J Pharm Biopharm. 2015;96 :22-31. doi: 10.1016/j.ejpb.2015.07.002. PubMed PMID:26170162 .
  4. Karttunen, J, Mäntynen, S, Ihalainen, TO, Bamford, JK, Oksanen, HM. Non-structural proteins P17 and P33 are involved in the assembly of the internal membrane-containing virus PRD1. Virology. 2015;482 :225-33. doi: 10.1016/j.virol.2015.03.049. PubMed PMID:25880114 .
  5. Faia-Torres, AB, Goren, T, Ihalainen, TO, Guimond-Lischer, S, Charnley, M, Rottmar, M et al.. Regulation of human mesenchymal stem cell osteogenesis by specific surface density of fibronectin: a gradient study. ACS Appl Mater Interfaces. 2015;7 (4):2367-75. doi: 10.1021/am506951c. PubMed PMID:25513839 .

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2014
  1. Taskinen, B, Zauner, D, Lehtonen, SI, Koskinen, M, Thomson, C, Kähkönen, N et al.. Switchavidin: reversible biotin-avidin-biotin bridges with high affinity and specificity. Bioconjug Chem. 2014;25 (12):2233-43. doi: 10.1021/bc500462w. PubMed PMID:25405260 .
  2. Karttunen, J, Mäntynen, S, Ihalainen, TO, Lehtivuori, H, Tkachenko, NV, Vihinen-Ranta, M et al.. Subcellular localization of bacteriophage PRD1 proteins in Escherichia coli. Virus Res. 2014;179 :44-52. doi: 10.1016/j.virusres.2013.11.015. PubMed PMID:24291253 .

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2013
  1. Karttunen, J, Mäntynen, S, Ihalainen, TO, Lehtivuori, H, Tkachenko, NV, Vihinen-Ranta, M et al.. Subcellular localization of bacteriophage PRD1 proteins in Escherichia coli. Virus Res. 2014;179 :44-52. doi: 10.1016/j.virusres.2013.11.015. PubMed PMID:24291253 .
  2. Niskanen, EA, Kalliolinna, O, Ihalainen, TO, Häkkinen, M, Vihinen-Ranta, M. Mutations in DNA binding and transactivation domains affect the dynamics of parvovirus NS1 protein. J Virol. 2013;87 (21):11762-74. doi: 10.1128/JVI.01678-13. PubMed PMID:23986577 PubMed Central PMC3807334.

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2012
  1. Ihalainen, TO, Willman, SF, Niskanen, EA, Paloheimo, O, Smolander, H, Laurila, JP et al.. Distribution and dynamics of transcription-associated proteins during parvovirus infection. J Virol. 2012;86 (24):13779-84. doi: 10.1128/JVI.01625-12. PubMed PMID:23035221 PubMed Central PMC3503060.

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