The team of Professor Tanja Tarvainen investigates and develops computational methods for optical and ultrasonic inverse problems such as tomographic imaging and therapy in the framework of Bayesian inverse problems. The tomographic methods include purely light based modalities such as diffuse optical tomography and coupled physics imaging such as photoacoustic tomography. In addition, modelling and computational methods for light transport and ultrasound propagation are studied, and prototype instrumentation for the techniques are developed.
Research groups
Research groups
- Computational Physics and Inverse Problems Group
- Biomedical Optical Imaging and Ultrasound Laboratory (OPUS)
- Institute of Photonics
- Visiting Professor, Department of Computer Science, University College London, UK
- Collaborator in CUQI – Computational Uncertainty Quantification for Inverse Problems, DTU Compute, Denmark
Projects
- Quantitative Tomography Using Coupled Physics of Waves (QUANTOM), ERC-CoG project
- Centre of Excellence in Inverse Modelling and Imaging
- PREIN – the Finnish Flagship on Photonics Research and Innovation
- Nanotheranostics based on light, RADDESS Academy Programme
- Quantitative imaging using light and sound, Jane and Aatos Erkko Foundation
Research interests
- ValoMC – a Monte Carlo software and MATLAB toolbox for simulating light transport in biological tissue
- Inverse problems
- Uncertainty quantification
- Optical tomography
- Photoacoustic tomography
- Radiative transfer
Teaching Activities
- Current teaching: Optimization, Tieteellinen viestintä sovelletussa fysiikassa
- Past teaching (lectures): Finite element methods, Modelling II
- Past teaching (exercises): Statistical inverse problems, Mathematical modelling, Finite element methods, Optimization, Estimation theory, Modelling II, Physics A, Physics III
Files
3 itemsPublications
107 items-
A model-based iterative learning approach for diffuse optical tomography
Mozumder, Meghdoot; Hauptmann, Andreas; Nissilä, Ilkka; Arridge, Simon R.; Tarvainen, Tanja. IEEE transactions on medical imaging [Epub ahead of print 4 March 2021]: 1-11. 2022 -
Compensating modeling errors of diffusion approximation in quantitative photoacoustic tomography using a Bayesian approach
Hänninen, Niko; Pulkkinen, Aki; Leino, Aleksi; Tarvainen, Tanja / Proc. SPIE, Opto-Acoustic Methods and Applications in Biophotonics V. 2021. 2021 -
Computationally efficient forward model for photoacoustic tomography
Sahlstrom, Teemu; Pulkkinen, Aki; Leskinen, Jarkko; Tarvainen, Tanja / Proc. SPIE, Opto-Acoustic Methods and Applications in Biophotonics V. 2021. 2021 -
Fourier transform provides computational advantages for time-domain diffuse optical tomography
Mozumder, Meghdoot; Tarvainen, Tanja / Proceedings of SPIE: Diffuse Optical Spectroscopy and Imaging VIII. 2021. 2021 -
On Learned Operator Correction in Inverse Problems
Lunz, Sebastian; Hauptmann, Andreas; Tarvainen, Tanja; Schonlieb, Carola-Bibiane; Arridge, Simon. Siam journal on imaging sciences 14 1: 92-127. 2021 -
Perturbation Monte Carlo in Quantitative Photoacoustic Tomography
Pulkkinen, Aki; Leino, Aleksi; Lunttila, Tuomas; Mozumder, Mehghdoot; Tarvainen, Tanja / Proc. SPIE, Opto-Acoustic Methods and Applications in Biophotonics V. 2021. 2021 -
Computationally Efficient Forward Operator for Photoacoustic Tomography Based on Coordinate Transformations
Sahlstrom, Teemu; Pulkkinen, Aki; Leskinen, Jarkko; Tarvainen, Tanja. IEEE transactions on ultrasonics ferroelectrics and frequency control 68 6: 2172-2182. 2021 -
A truncated Fourier-transform based approach for time-domain diffuse optical tomography
Mozumder, Meghdoot; Tarvainen, Tanja / Proceedings Biophotonics Congress: Biomedical Optics 2020 (Translational, Microscopy, OCT, OTS, BRAIN). 2020. 2020 -
Application of diffusion approximation in quantitative photoacoustic tomography in the presence of low-scattering regions
Hänninen, Niko; Pulkkinen, Aki; Leino, Aleksi; Tarvainen, Tanja. Journal of quantitative spectroscopy and radiative transfer 250: 107065. 2020 -
Perturbation Monte Carlo Method for Quantitative Photoacoustic Tomography
Leino, Aleksi; Lunttila, Tuomas; Mozumder, Meghdoot; Pulkkinen, Aki; Tarvainen, Tanja. IEEE transactions on medical imaging 39 10: 2985-2995. 2020