JUSSI TOHKA

Contact info

Keywords

Research groups - UEF

• 
  Biomedical Image Analysis
• 
  Neuro-Innovation

PROJECTS - UEF

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  Enhancing the innovation potential by advancing the know-how on biomedical image analysis - Kuopio Biomedical Image Analysis Center (KUBIAC)

Links

Publications

• Abdollahzadeh, Ali; Belevich, Ilya; Jokitalo, Eija; Sierra, Alejandra; Tohka, Jussi. 2021. DeepACSON automated segmentation of white matter in 3D electron microscopy Communications biology 4 1: 179. 2021
• Marinescu, Razvan V.; Oxtoby, Neil P.; Young, Alexandra L.; Bron, Esther E.; Toga, Arthur W.; Weiner, Michael W.; Barkhof, Frederik; Fox, Nick C.; Eshaghi, Arman; Toni, Tina; Salaterski, Marcin; Lunina, Veronika; Ansart, Manon; Durrleman, Stanley; Lu, Pascal; Iddi, Samuel; Li, Dan; Thompson, Wesley K.; Donohue, Michael C.; Nahon, Aviv et al [incl. Tohka, Jussi; Ciszek, Robert]. 2021. The Alzheimer's Disease Prediction Of Longitudinal Evolution (TADPOLE) Challenge: Results after 1 Year Follow-up Journal of Machine Learning for Biomedical Imaging Published online: 31 December 2021: 1 - 60. 2021
• Valverde, Juan Miguel; Imani, Vandad; Abdollahzadeh, Ali; De Feo, Riccardo; Prakash, Mithilesh; Ciszek, Robert; Tohka, Jussi. 2021. Transfer Learning in Magnetic Resonance Brain Imaging: A Systematic Review Journal of imaging 7 4: 66. 2021
• Tohka, Jussi; van Gils, Mark. 2021. Evaluation of machine learning algorithms for health and wellness applications: A tutorial Computers in biology and medicine 132: 104324. 2021
• Timmins, Kimberley M; van der Schaaf, Irene C; Bennink, Edwin; Ruigrok, Ynte M; An, Xingle; Baumgartner, Michael; Bourdon, Pascal; De Feo, Riccardo; Noto, Tommaso Di; Dubost, Florian; Fava-Sanches, Augusto; Feng, Xue; Giroud, Corentin; Inteneural Group; Hu, Minghui; Jaeger, Paul F; Kaiponen, Juhana; Klimont, Michal; Li, Yuexiang; Li, Hongwei; et al. [incl. Tohka, Jussi]. 2021. Comparing methods of detecting and segmenting unruptured intracranial aneurysms on TOF-MRAS: The ADAM Challenge Neuroimage 238: 118216. 2021
• Prakash, Mithilesh; Abdelaziz, Mahmoud; Zhang, Linda; Strange, Bryan A; Tohka, Jussi; for the Alzheimer's Disease Neuroimaging Initiative. 2021. Quantitative Longitudinal Predictions of Alzheimer's Disease by Multi-Modal Predictive Learning Journal of Alzheimer's disease 79 4: 1533-1546. 2021
• Miocchi, Paolo; Sierra, Alejandra; Maugeri, Laura; Stefanutti, Eleonora; Abdollahzadeh, Ali; Mangini, Fabio; Moraschi, Marta; Bukreeva, Inna; Massimi, Lorenzo; Brun, Francesco; Tohka, Jussi; Gröhn, Olli; Mittone, Alberto; Bravin, Alberto; Nicaise, Charles; Giove, Federico; Cedola, Alessia; Fratini, Michela. 2021. Steerable3D: An ImageJ plugin for neurovascular enhancement in 3-D segmentation Physica medica 81: 197-209. 2021
• Manninen, Eppu; Chary, Karthik; Lapinlampi, Niina; Andrade, Pedro; Paananen, Tomi; Sierra, Alejandra; Tohka, Jussi; Gröhn, Olli; Pitkänen, Asla. 2021. Acute thalamic damage as a prognostic biomarker for post-traumatic epileptogenesis Epilepsia 62 8: 1852-1864. 2021
• Kotila, Aija; Tohka, Jussi; Kauppi, Jukka-Pekka; Gabbatore, Ilaria; Mäkinen, Leena; Hurtig, Tuula M; Ebeling, Hanna E; Korhonen, Vesa; Kiviniemi, Vesa J; Loukusa, Soile. 2021. Neural-level associations of non-verbal pragmatic comprehension in young Finnish autistic adults International journal of circumpolar health 80 1: 1909333. 2021
• Koskuvi, Marja; Lehtonen, Šárka; Trontti, Kalevi; Keuters, Meike; Wu, Ying-Chieh; Koivisto, Hennariikka; Ludwig, Anastasia; Plotnikova, Lidiia; Virtanen, Pekka LJ; Räsänen, Noora; Kaipainen, Satu; Hyötyläinen, Ida; Dhungana, Hiramani; Giniatullina, Raisa; Ojansuu, Ilkka; Vaurio, Olli; Cannon, Tyrone D; Lönnqvist, Jouko; Therman, Sebastian; Suvisaari, Jaana; Kaprio, Jaakko; Lähteenvuo, Markku; Toh. 2021. Contribution of astrocytes to familial risk and clinical manifestation of schizophrenia Glia 2022; 70 4: 650-660. 2021
• Imani, Vandad; Prakash, Mithilesh; Zare, Marzieh; Tohka, Jussi. 2021. Comparison of Single and Multitask Learning for Predicting Cognitive Decline Based on MRI Data IEEE access 9: 154275-154291. 2021
• De Feo, Riccardo; Shatillo, Artem; Sierra, Alejandra; Valverde, Juan Miguel; Gröhn, Olli; Giove, Federico; Tohka, Jussi. 2021. Automated joint skull-stripping and segmentation with Multi-Task U-Net in large mouse brain MRI databases Neuroimage 229: 117734. 2021
• Chary Karthik, Narvaez Omar, Salo Raimo A, San Martín Molina Isabel, Tohka Jussi, Aggarwal Manisha, Gröhn Olli, Sierra Alejandra. 2021. Microstructural Tissue Changes in a Rat Model of Mild Traumatic Brain Injury Frontiers in neuroscience 15: 746214. 2021
• Abdollahzadeh, Ali; Sierra, Alejandra; Tohka, Jussi. 2021. Cylindrical Shape Decomposition for 3D Segmentation of Tubular Objects IEEE access 9: 23979-23995. 2021
• San Martín Molina, Isabel; Salo, Raimo A; Abdollahzadeh, Ali; Tohka, Jussi; Gröhn, Olli; Sierra, Alejandra. 2020. In vivo diffusion tensor imaging in acute and subacute phases of mild traumatic brain injury in rats eNeuro 7 3: ENEURO.0476-19.2020. 2020
• Yakubova, Aliya; Davidyuk, Yuriy; Tohka, Jussi; Khayrutdinova, Olga; Kudryavtsev, Igor; Nurkhametova, Dilyara; Kamshilin, Alexei; Giniatullin, Rashid; Rizvanov, Albert. 2020. Searching for Predictors of Migraine Chronification: a Pilot Study of 1911A>G Polymorphism of TRPV1 Gene in Episodic Versus Chronic Migraine Journal of molecular neuroscience 2021; 71 3: 618-624. 2020
• Vuokila, Niina; Gupta, Shalini Das; Huusko, Riina; Tohka, Jussi; Puhakka, Noora; Pitkänen, Asla. 2020. Elevated acute plasma miR-124-3p level relates to evolution of larger cortical lesion area after traumatic brain injury Neuroscience 433: 21-35. 2020
• Valverde, Juan Miguel; Shatillo, Artem; De Feo, Riccardo; Gröhn, Olli; Sierra, Alejandra; Tohka, Jussi. 2020. RatLesNetv2: A Fully Convolutional Network for Rodent Brain Lesion Segmentation Frontiers in neuroscience 14: 610239. 2020
• Tei, S; Kauppi, JP; Jankowski, KF; Fujino, J; Monti, RP; Tohka, J; Abe, N; Murai, T; Takahashi, H; Hari, R. 2020. Brain and behavioral alterations in subjects with social anxiety dominated by empathic embarrassment Proceedings of the National Academy of Sciences of the United States of America 117 8: 4385-4391. 2020
• Sevilla-Salcedo, Carlos; Gómez-Verdejo, Vanessa; Tohka, Jussi; Alzheimer's Disease Neuroimaging Initiative. 2020. Regularized Bagged Canonical Component Analysis for Multiclass Learning in Brain Imaging Neuroinformatics 18: 641-659. 2020
• Salmi, J; Metwaly, M; Tohka, J; Alho, K; Leppämäki, S; Tani, P; Koski, A; Vanderwal, T; Laine, M. 2020. ADHD desynchronizes brain activity during watching a distracted multi-talker conversation Neuroimage 216: 116352. 2020
• Saarinen, A I L; Huhtaniska, S; Pudas, J; Björnholm, L; Jukuri, T; Tohka, J; Granö, N; Barnett, JH; Kiviniemi, V; Veijola, J; Hintsanen, M; Lieslehto, J. 2020. Structural and functional alterations in the brain gray matter among first-degree relatives of schizophrenia patients: A multimodal meta-analysis of fMRI and VBM studies Schizophrenia research 216: 14-23. 2020
• Rostalski, Hannah; Hietanen, Tomi; Leskelä, Stina; Behánová, Andrea; Abdollahzadeh, Ali; Wittrahm, Rebekka; Mäkinen, Petra; Huber, Nadine; Hoffmann, Dorit; Solje, Eino; Remes, Anne M; Natunen, Teemu; Takalo, Mari; Tohka, Jussi; Hiltunen, Mikko; Haapasalo, Annakaisa. 2020. BV-2 Microglial Cells Overexpressing C9orf72 Hexanucleotide Repeat Expansion Produce DPR Proteins and Show Normal Functionality but No RNA Foci Frontiers in neurology 11: 550140. 2020
• Manninen, Eppu Matias; Chary, Karthik; Lapinlampi, Niina; Andrade, Pedro; Paananen, Tomi; Sierra Lopez, Alejandra; Tohka, Jussi; Gröhn, Olli; Pitkanen, Asla. 2020. Early increase in cortical T2 relaxation is a prognostic biomarker for the evolution of severe cortical damage, but not for epileptogenesis, after experimental traumatic brain injury Journal of neurotrauma 37 23: 2580-2594. 2020
• Kärkkäinen, Mikko; Prakash, Mithilesh; Zare, Marzieh; Tohka, Jussi. 2020. Structural Brain Imaging Phenotypes of Mild Cognitive Impairment (MCI) and Alzheimer's Disease (AD) Found by Hierarchical Clustering International journal of alzheimers disease 2020: 2142854. 2020
• Fratini, Michela; Abdollahzadeh, Ali; DiNuzzo, Mauro; Salo, Raimo; Maugeri, Laura; Cedola, Alessia; Giove, Federico; Gröhn, Olli; Tohka, Jussi; Sierra, Alejandra. 2020. Multiscale Imaging Approach for Studying the Central Nervous System: Methodology and Perspective Frontiers in neuroscience 14: 72. 2020
• Tiihonen, J; Koskuvi, M; Storvik, M; Hyötyläinen, I; Gao, Y; Puttonen, KA; Giniatullina, R; Poguzhelskaya, E; Ojansuu, I; Vaurio, O; Cannon, TD; Lönnqvist, J; Therman, S; Suvisaari, J; Kaprio, J; Cheng, L; Hill, AF; Lähteenvuo, M; Tohka, J; Giniatullin, R; et al.. 2019. Sex-specific transcriptional and proteomic signatures in schizophrenia Nature communications 10 1: 3933. 2019
• Predicting Intelligence Based on Cortical WM/GM Contrast, Cortical Thickness and Volumetry. Valverde, JM; Imani, V; Lewis, JD; Tohka, J / Adolescent Brain Cognitive Development Neurocognitive Prediction. ABCD-NP 2019. 2019. 2019
• Lipponen, A; Natunen, T; Hujo, M; Ciszek, R; Hämäläinen, E; Tohka, J; Hiltunen, M; Paananen, J; Poulsen, D; Kansanen, E; Ekolle Ndode-Ekane, X; Levonen, AL; Pitkänen, A. 2019. In Vitro and In Vivo Pipeline for Validation of Disease-Modifying Effects of Systems Biology-Derived Network Treatments for Traumatic Brain Injury - Lessons Learned International journal of molecular sciences 20 21: 5395. 2019
• Lewis, JD; Fonov, VS; Collins, DL; Evans, AC; Tohka, J. 2019. Cortical and subcortical T1 white/gray contrast, chronological age, and cognitive performance Neuroimage 196: 276-288. 2019
• Hassan, Syeda Sakira; Huttunen, Heikki; Niemi, Jari; Tohka, Jussi. 2019. Bayesian receiver operating characteristic metric for linear classifiers Pattern recognition letters 128: 52-59. 2019
• Gómez-Verdejo, V; Parrado-Hernández, E; Tohka, J. 2019. Sign-Consistency Based Variable Importance for Machine Learning in Brain Imaging Neuroinformatics 17: 593-609. 2019
• Casillas-Espinosa, PM; Andrade, P; Santana-Gomez, C; Paananen, T; Smith, G; Ali, I; Ciszek, R; Ndode-Ekane, XE; Brady, RD; Tohka, J; Hudson, MR; Perucca, P; Braine, EL; Immonen, R; Puhakka, N; Shultz, SR; Jones, NC; Staba, RJ; Pitkänen, A; O'Brien, TJ. 2019. Harmonization of the pipeline for seizure detection to phenotype post-traumatic epilepsy in a preclinical multicenter study on post-traumatic epileptogenesis Epilepsy research 156: 106131. 2019
• Automatic Rodent Brain MRI Lesion Segmentation with Fully Convolutional Networks. Valverde, JM; Shatillo, A; De Feo, R; Gröhn, O; Sierra, A; Tohka, J / Machine Learning in Medical Imaging. MLMI 2019. 2019. 2019
• Abdollahzadeh, A; Belevich, I; Jokitalo, E; Tohka, J; Sierra, A. 2019. Automated 3D Axonal Morphometry of White Matter Scientific reports 9 1: 6084. 2019
• Ciszek, R; Ndode-Ekane, XE; Gomez, CS; Casillas-Espinosa, PM; Ali, I; Smith, G; Puhakka, N; Lapinlampi, N; Andrade, P; Kamnaksh, A; Immonen, R; Paananen, T; Hudson, MR; Brady, RD; Shultz, SR; O'Brien, TJ; Staba, RJ; Tohka, J; Pitkänen, A. 2018. Informatics tools to assess the success of procedural harmonization in preclinical multicenter biomarker discovery study on post-traumatic epileptogenesis EPILEPSY RESEARCH 2019; 150: 17-26. 2018
• Gómez-Sancho, Marta; Tohka, Jussi; Gómez-Verdejo, Vanessa. 2018. Comparison of feature representations in MRI-based MCI-to-AD conversion prediction Magnetic resonance imaging 50: 84-95. 2018
• Huhtaniska, S; Korkala, I; Heikka, T; Björnholm, L; Lehtiniemi, H; Hulkko, AP; Moilanen, J; Tohka, J; Manjón, J; Coupé, P; Kiviniemi, V; Isohanni, M; Koponen, H; Murray, GK; Miettunen, J; Jääskeläinen, E. 2018. Antipsychotic and benzodiazepine use and brain morphology in schizophrenia and affective psychoses - Systematic reviews and birth cohort study PSYCHIATRY RESEARCH: NEUROIMAGING 281: 43-52. 2018
• Lewis, John D; Evans, Alan C; Tohka, Jussi. 2018. T1 white/gray contrast as a predictor of chronological age, and an index of cognitive performance Neuroimage 173: 341-350. 2018
• Huhtaniska S, Jääskeläinen E, Heikka T. Moilanen JS, Lehtiniemi H, Tohka J, Manjón JV, Coupé P, Björnholm L, Koponen H, Veijola J, Isohanni M, Kiviniemi V, Murray GK, Miettunen J. 2017. Long-term antipsychotic and benzodiazepine use and brain volume changes in schizophrenia: The Northern Finland Birth Cohort 1966 study. PSYCHIATRY RESEARCH: NEUROIMAGING 266: 73-82. 2017
• Kauppi JP, Pajula J, Niemi J, Hari R, Tohka J. 2017. Functional brain segmentation using inter-subject correlation in fMRI. HUMAN BRAIN MAPPING 38 5: 2643-2665. 2017
• Moradi, Elaheh; Khundrakpam, Budhachandra; Lewis, John D; Evans, Alan C; Tohka, Jussi. 2017. Predicting symptom severity in autism spectrum disorder based on cortical thickness measures in agglomerative data Neuroimage 144 Part A: 128-141. 2017
• Moradi E, Hallikainen I, Hänninen T, Tohka J. 2016. Rey's Auditory Verbal Learning Test scores can be predicted from whole brain MRI in Alzheimer's disease. NEUROIMAGE: CLINICAL 2017; 13: 415-427. 2016