Publications
Rinne V, Gröndahl-Yli-Hannuksela K, Fair-Mäkelä R, Salmi M, Rantakari P, Lönnberg T, Alinikula J, Pietikäinen A & Hytönen J: Single-cell transcriptome analysis of the early immune response in the lymph nodes of Borrelia burgdorferi-infected mice.
Microbes Infect. 2024 Sep 19:105424. PMID: 39306236
Bhattacharya D, Theodoropoulos J, Nurmi K, Juutilainen T, Eklund KK, Koivuniemi R, Kelkka T, Mustjoki S & Lönnberg T:
Single-cell characterisation of tissue homing CD4+ and CD8+ T cell clones in immune-mediated refractory arthritis.
BMC Molecular Medicine 2024 30(1):48. PMID: 38594612
Buchacher T, Shetty A, Koskela SA, Smolander J, Kaukonen R, Sousa AGG, Junttila S, Laiho A, Rundquist O, Lönnberg T, Marson A, Rasool O, Elo LL & Lahesmaa R:
PIM kinases regulate early human Th17 cell differentiation.
Cell Reports 2023 42(12):113469. PMID: 38039135
Örd T, Lönnberg T, Nurminen V, Ravindran A, Niskanen H, Kiema M, Öunap K, Maria M, Moreau PR, Mishra PP, Palani S, Virta J, Liljenbäck H, Aavik E, Roivainen A, Ylä-Herttuala S, Laakkonen JP, Lehtimäki T & Kaikkonen MU:
Dissecting the polygenic basis of atherosclerosis via disease-associated cell state signatures.
The American Journal of Human Genetics 2023 110:1-19. PMID: 37060905
Huuhtanen J, Bhattacharya D, Lönnberg T, Kankainen M, Kerr C, Theodoropoulos J, Rajala H, Gurnari C, Kasanen T, Braun T, Teramo A, Zambello R, Herling M, Ishida F, Kawakami T, Salmi M, Loughran T, Maciejewski JP, Lähdesmäki H, Kelkka T, Mustjoki S: Single-cell characterization of leukemic and non-leukemic immune repertoires in CD8 + T-cell large granular lymphocytic leukemia.
Nature Communications 2022 13(1):1981. PMID: 35411050
Örd T, Õunap K, Stolze LK, Aherrahrou R, Nurminen V, Toropainen A, Selvarajan I, Lönnberg T, Aavik E, Ylä-Herttuala S, Civelek M, Romanoski CE, Kaikkonen MU:
Single-Cell Epigenomics and Functional Fine-Mapping of Atherosclerosis GWAS Loci.
Circulation Research 2021 129(2):240-258. PMID: 34024118
Oliva-Olivera W, Castellano-Castillo D, von Meyenn F, Cardona F, Lönnberg T& Tinahones FJ:
Human adipose tissue-derived stem cell paracrine networks vary according metabolic risk and after TNFα-induced death: an analysis at the single-cell level.
Metabolism 2021; 14:154466. PMID: 33333081
Mehtonen J, Teppo S, Lahnalampi M, Kokko A, Kaukonen R, Oksa L, Bouvy-Liivrand M, Malyukova A, Mäkinen A, Laukkanen S, Mäkinen PI, Rounioja S, Ruusuvuori P, Sangfelt O, Lund R, Lönnberg T, Lohi O & Heinäniemi M: Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1-positive pediatric leukemia identifies drug-targetable transcription factor activities.
Genome Medicine 2020; 12(1):99. PMID: 33218352
Kelkka T, Savola P, Bhattacharya D, Huuhtanen J, Lönnberg T, Kankainen M, Paalanen K, Tyster M, Lepistö M, Ellonen P, Smolander J, Eldfors S, Yadav B, Khan S, Koivuniemi R, Sjöwall C, Elo LL, Lähdesmäki H, Maeda Y, Nishikawa H, Leirisalo-Repo M, Sokka-Isler T, & Mustjoki S: Adult-Onset Anti-Citrullinated Peptide Antibody-Negative Destructive Rheumatoid Arthritis Is Characterized by a Disease-Specific CD8+ T Lymphocyte Signature.
Frontiers in Immunology 2020; 11:578848. PMID: 33329548
Depuydt MAC, Prange KHM, Slenders L, Örd T, Elbersen D, Boltjes A, de Jager SCA, Asselbergs FW, de Borst GJ, Aavik E, Lönnberg T, Lutgens E, Glass CK, Kaikkonen MU, Bot I, Slütter B, van der Laan SW, Yla-Herttuala S, Mokry M, Kuiper J, de Winther MPJ & Pasterkamp G: Microanatomy of the human atherosclerotic plaque by single-cell transcriptomics.
Circulation Research 2020; 127(11):1437-1455. PMID: 32981416
Kim D, Park G, Huuhtanen J, Lundgren S, Khajuria RK, Hurtado AM, Muñoz-Calleja C, Cardeñoso L, Gómez-García de Soria V, Chen-Liang TH, Eldfors S, Ellonen P, Hannula S, Bruck O, Kreutzman A, Salmenniemi U, Lönnberg T, Jerez A, Itälä-Remes M, Myllymäki M, Keränen MAI & Mustjoki S: Somatic Gain-of-Function mTOR mutation in Clonally Expanded T-lymphocytes Associated with Chronic Graft-Versus-Host Disease.
Nature communications 2020; 11(1):2246. PMID: 32382059
Takeda A, Hollmén M, Dermadi D, Pan J, Brulois KF, Kaukonen R, Lönnberg T, Boström P, Koskivuo I, Irjala H, Miyasaka M, Salmi M, Butcher EC & Jalkanen S: Single-Cell Survey of Human Lymphatics Unveils Marked Endothelial Cell Heterogeneity and Mechanisms of Homing for Neutrophils.
Immunity 2019; 51(3):561-72. PMID: 31402260
Jäppinen N, Félix I, Lokka E, Tyystjärvi S, Pynttäri A, Lahtela T, Gerke H, Elima K, Rantakari P, Salmi M: Fetal-derived macrophages dominate in adult mammary glands.
Nature Communications 2019; 10(1):281.PMID:30655530
Konki M, Malonzo M, Karlsson IK, Lindgren N, Ghimire B, Smolander J, Scheinin NM, Ollikainen M, Laiho A, Elo LL, Lönnberg T, Röyttä M, Pedersen NL, Kaprio J, Lähdesmäki H, Rinne J & Lund RJ: Peripheral Blood DNA Methylation Differences in Twin Pairs Discordant for Alzheimer’s Disease.
Clinical Epigenetics 2019; 11(1),130. PMID: 31477183
Kallionpää H, Somani J, Tuomela S, Ullah U, de Albuquerque R, Lönnberg T, Komsi E, Siljander H, Honkanen J, Härkönen T, Peet A, Tillmann T, Chandra V, Anagandula MK, Frisk G, Otonkoski T, Rasool O, Lund R, Lähdesmäki H, Knip M & Lahesmaa R: Early detection of peripheral blood cell signature in children developing beta-cell autoimmunity at a young age.
Diabetes 2019; 68(10), 2024-2034. PMID 31311800
Kolodziejczyk AA & Lönnberg T: Global and targeted approaches to single-cell transcriptome characterization.
Briefings in Functional Genomics 2017; PMID:29028866
Haque A, Engel J, Teichmann SA & Lönnberg T:
A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications. Genome Medicine 2017; 9(1):75. PMID:28821273