Dissecting the dynamic changes of 5-hydroxymethylcytosine in T-cell development and differentiation von Tsagaratou, Ageliki, Äijö, Tarmo, Lio, Chan-Wang J, Yue, Xiaojing, Huang, Yun, Jacobsen, Steven E, Lähdesmäki, Harri, Rao, Anjana

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Learning gene regulatory networks from gene expression measurements using non-parametric molecular kinetics von Äijö, Tarmo, Lähdesmäki, Harri

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Temporal probabilistic modeling of bacterial compositions derived from 16S rRNA sequencing von Äijö, Tarmo, Müller, Christian L, Bonneau, Richard

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MicroRNA-directed program of cytotoxic CD8⁺ T-cell differentiation von Trifari, Sara, Pipkin, Matthew E., Bandukwala, Hozefa S., Äijö, Tarmo, Bassein, Jed, Chen, Runqiang, Martinez, Gustavo J., Rao, Anjana

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TET proteins regulate T cell and iNKT cell lineage specification in a TET2 catalytic dependent manner von Äijö, Tarmo, Theofilatos, Dimitris, Cheng, Meng, Smith, Matthew D, Xiong, Yue, Baldwin, Albert S, Tsagaratou, Ageliki

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Tumor Tolerance-Promoting Function of Regulatory T Cells Is Optimized by CD28, but Strictly Dependent on Calcineurin von Marangoni, Francesco, Zhang, Ruan, Mani, Vinidhra, Thelen, Martin, Ali Akbar, Noor J, Warner, Ross D, Äijö, Tarmo, Zappulli, Valentina, Martinez, Gustavo J, Turka, Laurence A, Mempel, Thorsten R

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Protocol to isolate mature thymic T cell subsets using fluorescence-activated cell sorting for assessing gene expression by RNA-seq and transcription factor binding across the geno... von Theofilatos, Dimitris, Äijö, Tarmo, Tsagaratou, Ageliki

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Methods for time series analysis of RNA-seq data with application to human Th17 cell differentiation von Äijö, Tarmo, Butty, Vincent, Chen, Zhi, Salo, Verna, Tripathi, Subhash, Burge, Christopher B, Lahesmaa, Riitta, Lähdesmäki, Harri

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Approaches to Detect microRNA Expression in T Cell Subsets and T Cell Differentiation von Monticelli, Silvia, Äijö, Tarmo, Trifari, Sara

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LuxGLM: a probabilistic covariate model for quantification of DNA methylation modifications with complex experimental designs von Äijö, Tarmo, Yue, Xiaojing, Rao, Anjana, Lähdesmäki, Harri

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Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis von Maniatis, Silas, Äijö, Tarmo, Vickovic, Sanja, Braine, Catherine, Kang, Kristy, Mollbrink, Annelie, Fagegaltier, Delphine, Andrusivová, Žaneta, Saarenpää, Sami, Saiz-Castro, Gonzalo, Cuevas, Miguel, Watters, Aaron, Lundeberg, Joakim, Bonneau, Richard, Phatnani, Hemali

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Concomitant loss of TET2 and TET3 results in T cell expansion and genomic instability in mice von Gioulbasani, Marianthi, Äijö, Tarmo, Liu, Siyao, Montgomery, Stephanie A., Montgomery, Nathan D., Corcoran, David, Tsagaratou, Ageliki

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High-definition spatial transcriptomics for in situ tissue profiling von Vickovic, Sanja, Eraslan, Gökcen, Salmén, Fredrik, Klughammer, Johanna, Stenbeck, Linnea, Schapiro, Denis, Äijö, Tarmo, Bonneau, Richard, Bergenstråhle, Ludvig, Navarro, José Fernandéz, Gould, Joshua, Griffin, Gabriel K., Borg, Åke, Ronaghi, Mostafa, Frisén, Jonas, Lundeberg, Joakim, Regev, Aviv, Ståhl, Patrik L.

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Deciphering the TET3 interactome in primary thymic developing T cells von Theofilatos, Dimitris, Ho, Tricia, Waitt, Greg, Äijö, Tarmo, Schiapparelli, Lucio M., Soderblom, Erik J., Tsagaratou, Ageliki

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Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX von Ko, Myunggon, An, Jungeun, Bandukwala, Hozefa S., Chavez, Lukas, Äijö, Tarmo, Pastor, William A., Segal, Matthew F., Li, Huiming, Koh, Kian Peng, Lähdesmäki, Harri, Hogan, Patrick G., Aravind, L., Rao, Anjana

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Sorad: a systems biology approach to predict and modulate dynamic signaling pathway response from phosphoproteome time-course measurements von Äijö, Tarmo, Granberg, Kirsi, Lähdesmäki, Harri

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Control of Foxp3 stability through modulation of TET activity von Yue, Xiaojing, Trifari, Sara, Äijö, Tarmo, Tsagaratou, Ageliki, Pastor, William A, Zepeda-Martínez, Jorge A, Lio, Chan-Wang J, Li, Xiang, Huang, Yun, Vijayanand, Pandurangan, Lähdesmäki, Harri, Rao, Anjana

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The transcription factor NFAT promotes exhaustion of activated CD8⁺ T cells von Martinez, Gustavo J, Pereira, Renata M, Äijö, Tarmo, Kim, Edward Y, Marangoni, Francesco, Pipkin, Matthew E, Togher, Susan, Heissmeyer, Vigo, Zhang, Yi Chen, Crotty, Shane, Lamperti, Edward D, Ansel, K Mark, Mempel, Thorsten R, Lähdesmäki, Harri, Hogan, Patrick G, Rao, Anjana

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Migratory DCs activate TGF-β to precondition naïve CD8⁺ T cells for tissue-resident memory fate von Mani, Vinidhra, Bromley, Shannon K., Äijö, Tarmo, Mora-Buch, Rut, Carrizosa, Esteban, Warner, Ross D., Hamze, Moustafa, Sen, Debattama R., Chasse, Alexandra Y., Lorant, Alina, Griffith, Jason W., Rahimi, Rod A., McEntee, Craig P., Jeffrey, Kate L., Marangoni, Francesco, Travis, Mark A., Lacy-Hulbert, Adam, Luster, Andrew D., Mempel, Thorsten R.

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Genome-wide Analysis of STAT3-Mediated Transcription during Early Human Th17 Cell Differentiation von Tripathi, Subhash K., Chen, Zhi, Larjo, Antti, Kanduri, Kartiek, Nousiainen, Kari, Äijo, Tarmo, Ricaño-Ponce, Isis, Hrdlickova, Barbara, Tuomela, Soile, Laajala, Essi, Salo, Verna, Kumar, Vinod, Wijmenga, Cisca, Lähdesmäki, Harri, Lahesmaa, Riitta

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