Research Interests
Bayesian modeling, segmentation, structural MRI
Contact Details
Affiliations
DTU Elektro
Employments
| 2016 – Present |
Postdoc, DRCMR and Technical University of Denmark |
| 2012 – 2016 |
PhD student at Technical University of Denmark |
| 2013 – 2013 |
Visiting Researcher, Aalto University Department of Information and Computer Science, Espoo, Finland |
| 2012 – 2012 |
Visiting Researcher, Althinoula A. Martinos Center for Biomedical Imaging, Boston, USA |
| 2010 – 2012 |
Research Assistant, Aalto University Department of Information and Computer Science, Espoo, Finland |
| 2009 – 2009 |
Research Assistant, Brain Research Unit, Espoo, Finland |
Education
| 2016 |
PhD in Informatics, Technical University of Denmark |
| 2012 |
MSc in Theoretical Physics, University of Helsinki |
| 2011 |
BSc in Theoretical Physics, University of Helsinki |
Publications
Soleimani G, Alekseichuk I, Aurup C, Bergmann TO, Bestmann S, Beynel L, Evans C, Frohlich F, Ghobadi-Azbari P, Hanlon CA, Kasten F, Konofagou EE, Lueckel M, Márquez-Ruiz J, Mencarelli L, Mosayebi-Samani M, Neige C, Opitz A, Peterchev A, Puonti O, Sackeim HA, Sánchez-Garrido Campos G, Siebner HR, Thielscher A, Vlachos A, Voroslakos M, Nitsche MA, Lisanby SH, Bikson M, Ekhtiari H (2026), unknown publication e94f11b9-b6b5-4242-a167-bfd11f1b657d
Nielsen JD, Gopinath K, Hoopes A, Dalca A, Magdamo C, Arnold S, Das S, Thielscher A, Iglesias JE, Puonti O (2026), unknown publication d99ffd1e-0910-4c98-ae58-69192177f5c4
Huertas-Penen S, Piastra MC, Puonti O, Schwab BC (2026), 'Variable E-field properties of dual-site tACS with phase lags', Imaging Neuroscience, 4
Casamitjana A, Mancini M, Robinson E, Peter L, Annunziata R, Althonayan J, Crampsie S, Blackburn E, Billot B, Atzeni A, Puonti O, Balbastre Y, Schmidt P, Hughes J, Augustinack JC, Edlow BL, Zöllei L, Thomas DL, Kliemann D, Bocchetta M, Strand C, Holton JL, Jaunmuktane Z, Iglesias JE (2024), 'A probabilistic histological atlas of the human brain for MRI segmentation', Nature, 648(8094):678-685
Hu X, Zeng X, Puonti O, Iglesias JE, Fischl B, Balbastre Y (2025), unknown publication 3ede8321-f6bc-47ab-b0c8-58beee57181f
Puonti O, Nolan J, Dicamillo R, Balbastre Y, Casamitjana A, Mancini M, Robinson E, Peter L, Annunziata R, Althonayan J, Crampsie S, Blackburn E, Billot B, Atzeni A, Schmidt P, Hughes J, Augustinack J, Edlow B, Zöllei L, Thomas DL, Kliemann D, Bocchetta M, Strand C, Holton J, Jaunmuktane Z, Iglesias JE (2025), unknown publication c7a7b423-e9de-4383-bb35-4415b04955e4
Wiltgen T, McGinnis J, Berg R, Voon CC, Puonti O, Giglhuber K, Ganter C, Zimmer C, Hemmer B, Wiestler B, Kirschke J, Preibisch C, Mühlau M (2025), 'Towards quantitative intensity analysis of conventional T1-weighted images in multiple sclerosis', NeuroImage, 318
Diedrichsen M, Merhout J, Nielsen JD, Greve DN, Thielscher A, Puonti O (2025), unknown publication 8a977e15-b295-4520-91cb-f69ebdd8481a
Gopinath K, Greve DN, Magdamo C, Arnold S, Das S, Puonti O, Iglesias JE (2025), '“Recon-all-clinical”', Medical Image Analysis, 103
Cao F, Madsen KH, Worbs T, Puonti O, Siebner HR, Schmitgen A, Kunz P, Thielscher A (2025), 'Fast FEM-based electric field calculations for transcranial magnetic stimulation', Journal of Neural Engineering, 22(3)
Hu X, Gopinath K, Liu P, Van Leemput K, Puonti O, Iglesias JE (2025), unknown publication b3f747dd-f6f7-42ac-853c-f5d25ee2c62b
Mauri C, Cerri S, Puonti O, Mühlau M, Van Leemput K (2024), 'A lightweight generative model for interpretable subject-level prediction', Medical Image Analysis, 101
Thielscher A, Puonti O, Hanson L, Duemose Nielsen J, Cunha TM, Worbs T, Madsen KH, Gregersen F (2025), unknown publication a0065543-6192-403e-9b6a-02fa5fefad1e
Zadeh AK, Puonti O, Sigurðsson B, Thielscher A, Monchi O, Pichardo S (2025), 'Enhancing transcranial ultrasound stimulation planning with MRI-derived skull masks', Journal of Neural Engineering, 22(1)
Van Hoornweder S, Cappozzo V, de Herde L, Puonti O, Siebner HR, Meesen R, Thielscher A (2024), 'Head and shoulders—The impact of an extended head model on the simulation and optimization of transcranial electric stimulation', Imaging Neuroscience, 2:1-11
Liu P, Puonti O, Hu X, Alexander DC, Iglesias JE (2024), unknown publication 7e8ed6a8-66bb-4ea2-a3cb-57eb81c396bf
Gopinath K, Hoopes A, Alexander DC, Arnold SE, Billot B, Casamitjana A, Cheng Y, Chua RYZ, Edlow BL, Fischl B, Gazula H, Keene CD, Kim S, Kimberly WT, Laguna S, Larson KE, Leemput KV, Puonti O, Rodrigues L, Rosen M, Tregidgo HFJ, Varadarajan D, Young SI, Dalca AV, Iglesias JE (2024), 'Synthetic data in generalizable, learning-based neuroimaging', Imaging Neuroscience, 2:1-22
Gopinath K, Hu X, Hoffmann M, Puonti O, Iglesias JE (2024), unknown publication 1eca3a2c-67fb-4734-beb1-37110b215bf5
Hu X, Sorby-Adams A, Barkhof F, Kimberly WT, Puonti O, Iglesias JE (2024), unknown publication c1d85fa5-7135-4183-8087-2e28f52aea4c
Liu P, Puonti O, Sorby-Adams A, Kimberly WT, Iglesias JE (2024), unknown publication 6b84f33f-a8c4-485e-bc7b-8e5156656d13
Zeng X, Puonti O, Sayeed A, Herisse R, Mora J, Evancic K, Varadarajan D, Balbastre Y, Costantini I, Scardigli M, Ramazzotti J, DiMeo D, Mazzamuto G, Pesce L, Brady N, Cheli F, Saverio Pavone F, Hof PR, Frost R, Augustinack J, van der Kouwe A, Eugenio Iglesias J, Fischl B (2024), 'Segmentation of supragranular and infragranular layers in ultra-high-resolution 7T ex vivo MRI of the human cerebral cortex', Cerebral Cortex, 34(9):1-13
Gurr C, Splittgerber M, Puonti O, Siemann J, Luckhardt C, Pereira HC, Amaral J, Crisóstomo J, Sayal A, Ribeiro M, Sousa D, Dempfle A, Krauel K, Borzikowsky C, Brauer H, Prehn-Kristensen A, Breitling-Ziegler C, Castelo-Branco M, Salvador R, Damiani G, Ruffini G, Siniatchkin M, Thielscher A, Freitag CM, Moliadze V, Ecker C (2024), 'Neuroanatomical Predictors of Transcranial Direct Current Stimulation (tDCS)-Induced Modifications in Neurocognitive Task Performance in Typically Developing Individuals', The Journal of Neuroscience, 44(22):1-12
Laso P, Cerri S, Sorby-Adams A, Guo J, Mateen F, Goebl P, Wu J, Liu P, Li H, Young SI, Billot B, Puonti O, Sze G, Payabavash S, DeHavenon A, Sheth K, Rosen M, Kirsch J, Strisciuglio N, Wolterink JM, Eshaghi A, Barkhof F, Kimberly WT, Iglesias JE (2024), unknown publication 3cc10030-55d5-48b9-8a58-80b79860dc74
Fuglsang SA, Madsen KH, Puonti O, Siebner HR, Hjortkjær J (2024), 'Exploring an EM-algorithm for banded regression in computational neuroscience', Imaging Neuroscience, 2:1-19
Gregersen F, Eroğlu HH, Göksu C, Puonti O, Zuo Z, Thielscher A, Hanson L (2024), 'MR imaging of the magnetic fields induced by injected currents can guide improvements of individualized head volume conductor models', Imaging Neuroscience, 2:1-15
Mantell KE, Perera ND, Shirinpour S, Puonti O, Xu T, Zimmermann J, Falchier A, Heilbronner SR, Thielscher A, Opitz A (2023), 'Anatomical details affect electric field predictions for non-invasive brain stimulation in non-human primates', NeuroImage, 279:1-12
Hosseini S, Puonti O, Treeby B, Hanson LG, Thielscher A (2023), 'A Head Template for Computational Dose Modelling for Transcranial Focused Ultrasound Stimulation', NeuroImage, 277:1-14
Nielsen JD, Puonti O, Xue R, Thielscher A, Madsen KH (2023), 'Evaluating the Influence of Anatomical Accuracy and Electrode Positions on EEG Forward Solutions', NeuroImage, 277:1-20
Madsen MAJ, Wiggermann V, Christiansen L, Povazan M, Lundell H, Puonti O, Christensen JR, Sellebjerg FT, Siebner HR (2023), unknown publication 1efe3bb5-00fc-4adf-950b-e688a90ede93
Thielscher A, Puonti O, Gregersen F, Madsen KH, Hanson L (2023), unknown publication 4de761e2-6664-4b16-a624-837b943ba478
Madsen MAJ, Wiggermann V, Marques MFM, Lundell H, Cerri S, Puonti O, Blinkenberg M, Christensen JR, Sellebjerg F, Siebner HR (2022), 'Linking lesions in sensorimotor cortex to contralateral hand function in multiple sclerosis', Brain, 145(10):3522-3535
Mauri C, Cerri S, Puonti O, Mühlau M, Van Leemput K (2022), unknown publication 82b7d4ee-5281-46e1-b10b-d500c9abdc52
Nandi T, Puonti O, Clarke WT, Nettekoven C, Barron HC, Kolasinski J, Hanayik T, Hinson EL, Berrington A, Bachtiar V, Johnstone A, Winkler AM, Thielscher A, Johansen-Berg H, Stagg CJ (2022), 'tDCS induced GABA change is associated with the simulated electric field in M1, an effect mediated by grey matter volume in the MRS voxel', Brain Stimulation, 15(5):1153-1162
Fuglsang SA, Madsen KH, Puonti O, Hjortkjær J, Siebner HR (2021), 'Mapping cortico-subcortical sensitivity to 4 Hz amplitude modulation depth in human auditory system with functional MRI', NeuroImage, 246:1-12
Hosseini S, Puonti O, Treeby B, Hanson L, Thielscher A (2022), unknown publication c8a48d2d-94c1-4217-9d9b-ce7d26f0764a
Gregersen F, Eroğlu HH, Puonti O, Göksu C, Siebner HR, Hanson L, Thielscher A (2022), unknown publication a7b73fd4-361d-41ba-876a-7b706bb03259
Splittgerber M, Borzikowsky C, Salvador R, Puonti O, Papadimitriou K, Merschformann C, Biagi MC, Stenner T, Brauer H, Breitling-Ziegler C, Prehn-Kristensen A, Krauel K, Ruffini G, Pedersen A, Nees F, Thielscher A, Dempfle A, Siniatchkin M, Moliadze V (2021), 'Multichannel anodal tDCS over the left dorsolateral prefrontal cortex in a paediatric population', Scientific Reports, 11(1):1-15
Shirinpour S, Mantell K, Li X, Puonti O, Madsen K, Haigh Z, Casillo EC, Alekseichuk I, Hendrickson T, Xu T (2021), 'New tools for computational modeling of non-invasive brain stimulation in SimNIBS', Brain Stimulation: Basic, Translational, and Clinical Research in Neuromodulation, 14(6):1644
Eroğlu HH, Puonti O, Göksu C, Gregersen F, Siebner HR, Hanson LG, Thielscher A (2021), 'On the reconstruction of magnetic resonance current density images of the human brain', NeuroImage, 243:1-15
Antonenko D, Grittner U, Puonti O, Flöel A, Thielscher A (2021), 'Estimation of individually induced e-field strength during transcranial electric stimulation using the head circumference', Brain Stimulation, 14(5):1055-1058
Madsen MAJ, Wiggermann V, Mateus Marques MF, Lundell H, Cerri S, Puonti O, Blinkenberg M, Christensen JR, Sellebjerg F, Siebner HR (2021), unknown publication 257e8360-a032-4d63-bd06-9b0437a86672
Cerri S, Puonti O, Meier DS, Wuerfel J, Mühlau M, Siebner HR, Leemput KV (2020), 'A Contrast-Adaptive Method for Simultaneous Whole-Brain and Lesion Segmentation in Multiple Sclerosis', NeuroImage, 225:1-17
Nandi T, Puonti O, Clarke WT, Nettekoven C, Barron HC, Kolasinski J, Hanayik T, Hinson EL, Berrington A, Bachtiar V (2021), unknown publication 0de49122-7587-4679-b4d6-6100f48a19a0
Pedersen JO, Boer VO, Petersen ET, Puonti O, Zwanenburg JJM, Petersen ET (2021), unknown publication 7df25e41-8fba-44bd-961b-9074dde94b18
Madsen MAJ, Wiggermann V, Mateus Marques MF, Lundell H, Cerri S, Puonti O, Blinkenberg M, Christensen JR, Sellebjerg F, Siebner HR (2021), unknown publication f131ff9e-a3df-4ff0-9c76-846f99923b56
Eroğlu HH, Puonti O, Göksu C, Gregersen F, Siebner HR, Hanson L, Thielscher A (2021), unknown publication c1bff9ed-cdbe-408e-8b2b-bc108b34277f
Madsen MAJ, Wiggermann V, Mateus Marques MF, Lundell H, Cerri S, Puonti O, Blinkenberg M, Christensen JR, Sellebjerg F, Siebner HR (2021), unknown publication 0a33b1a9-1d00-43b5-ae32-13531dc61efd
Madsen MAJ, Wiggermann V, Lundell H, Puonti O, Blinkenberg M, Christensen JR, Sellebjerg F, Siebner HR (2021), unknown publication 897623d5-338b-41e4-83df-88d42c8fcec5
Puonti O, Van Leemput K, Saturnino GB, Siebner HR, Madsen KH, Thielscher A (2020), 'Accurate and robust whole-head segmentation from magnetic resonance images for individualized head modeling', NeuroImage, 219:1-17
Puonti O, Saturnino GB, Madsen KH, Thielscher A (2019), 'Value and limitations of intracranial recordings for validating electric field modeling for transcranial brain stimulation', NeuroImage, 208:1-14
Hougaard A, Nielsen SH, Gaist D, Puonti O, Garde E, Reislev NL, Iversen P, Madsen CG, Blaabjerg M, Nielsen HH, Krøigård T, Østergaard K, Kyvik KO, Madsen KH, Siebner HR, Ashina M (2020), 'Migraine with aura in women is not associated with structural thalamic abnormalities', NeuroImage: Clinical, 28
Opheim G, Puonti O, Pedersen JO, Boer VO, Kloster A, Prener M, Simonsen HJ, Paulson OB, Pinborg LH, Ganz M (2020), unknown publication 46afb1a9-c226-4154-80c6-d9774c2c6f8d
Salvador R, Biagi MC, Puonti O, Splittgerber M, Moliadze V, Siniatchkin M, Thielscher A, Ruffini G (2020), unknown publication 94fdb946-4b4b-4a52-98c8-a4ad3ad7a43b
Andreasen SH, Andersen KW, Conde V, Dyrby TB, Puonti O, Kammersgaard LP, Madsen CG, Madsen KH, Poulsen I, Siebner HR (2020), 'Two Coarse Spatial Patterns of Altered Brain Microstructure Predict Post-traumatic Amnesia in the Subacute Stage of Severe Traumatic Brain Injury', Frontiers in Neurology, 11:1-14
Agn M, Munck Af Rosenschöld P, Puonti O, Lundemann MJ, Mancini L, Papadaki A, Thust S, Ashburner J, Law I, Van Leemput K (2019), 'A modality-adaptive method for segmenting brain tumors and organs-at-risk in radiation therapy planning', Medical Image Analysis, 54:220-237
Farcito S, Puonti O, Montanaro H, Saturnino GB, Nielsen JD, Madsen CG, Siebner HR, Neufeld E, Kuster N, Lloyd BA, Thielscher A (2019), unknown publication 2feb9c9f-a5e4-485d-802f-a010cbfa4f9e
Puonti O, Van Leemput K, Saturnino GB, Duemose Nielsen J, Siebner HR, Madsen KH, Thielscher A (2019), unknown publication 4669bdf0-48b4-44fd-92c8-e30e2717418e
Saturnino GB, Puonti O, Nielsen JD, Antonenko D, Madsen KH, Thielscher A (2019), unknown publication 1c41e689-ec5e-49e8-8b86-e031e888595b
Boayue NM, Csifcsák G, Puonti O, Thielscher A, Mittner M (2018), 'Head models of healthy and depressed adults for simulating the electric fields of non-invasive electric brain stimulation', F1000Research, 7:704
Nielsen JD, Madsen KH, Puonti O, Siebner HR, Bauer C, Madsen CG, Saturnino GB, Thielscher A (2018), 'Automatic skull segmentation from MR images for realistic volume conductor models of the head: Assessment of the state-of-the-art', NeuroImage, 174:587-598
Csifcsák G, Boayue NM, Puonti O, Thielscher A, Mittner M (2018), 'Effects of transcranial direct current stimulation for treating depression', Journal of Affective Disorders, 234:164-173
Puonti O, Van Leemput K, Duemose Nielsen J, Bauer C, Siebner HR, Madsen KH, Thielscher A (2018), unknown publication 44fdac7c-3f35-43d5-9d97-139de3b5293d
Cid YD, Puonti O, Platon A, Van Leemput K, Müller H, Poletti PA (2018), unknown publication ff703b89-0d9c-4e34-9255-c7d6a752acb9
Puonti O, Van Leemput K, Nielsen JD, Bauer C, Siebner HR, Madsen KH, Thielscher A (2018), unknown publication 0241e401-b1ca-410e-8d99-70a2a0d51499
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