Supervision - Ph.D. students

I am currently supervisor or assistant supervisor for:

• Jens Baumann, Uppsala Univ. (Main supervisor)
• Love Nordling, Uppsala Univ. (Co-supervisor)

Finished PhD:

• Swarnadip Chatterjee (Main supervisor)
  Learning from Normality in Computational Cytology: Deep Learning Methods for Rare Abnormal Cell Detection in Monomodal and Multimodal Cytology Images, UU, Uppsala, September 25, 2026.
• Marc Fraile Fabrega (Co-supervisor, main supervisor Prof. Ginevra Castellano)
  Computer Vision and Explainability in Human-Human and Human-Robot Interaction, UU, Uppsala, November 22, 2024.
• Nadezhda Koriakina (Main supervisor)
  Deep Learning and Explainable Artificial Intelligence for Biomedical Applications: Methods for Cytology-based Cancer Detection, UU, Uppsala, October 25, 2024.
• Elisabeth Wetzer (Co-supervisor, main supervisor Prof. Nataša Sladoje)
  Representation Learning and Information Fusion: Applications in Biomedical Image Processing, UU, Uppsala, June 12, 2023.
• Johan Öfverstedt (Co-supervisor, main supervisor Prof. Nataša Sladoje)
  Methods for Reliable Image Registration: Algorithms, Distance Measures, and Representations, UU, Uppsala, February 25, 2022.
• Buda Bajić (Main supervisor together with Prof. Nataša Sladoje)
  Methods for image restoration and segmentation by sparsity promoting energy minimization, UNS, Novi Sad, September 16, 2019.
• Slobodan Dražić (Main supervisor, also partly supervised by Dr Tibor Lukić)
  Shape Based Methods for Quantification of Comparison of Object Properties from Their Digital Image Representations, pdf, UNS, Novi Sad, February 20, 2019.
• Vladimir Ćurić (Co-supervisor, main supervisor Prof. Gunilla Borgefors)
  Distance Functions and Their Use in Adaptive Mathematical Morphology, UU, Uppsala, May 23, 2014.
• Tibor Lukić (Main supervisor together with Prof. Nataša Sladoje)
  Regularized Problems in Image Processing, pdf, UNS, Novi Sad, December 20, 2011.
• Hamid Sarve (Co-supervisor, main supervisor Prof. Gunilla Borgefors)
  Evaluation of Osseointegration using Image Analysis and Visualization of 2D and 3D Image Data, SLU, Uppsala, September 23, 2011.
• Patrick Karlsson Edlund (Co-supervisor, main supervisor Prof. Ewert Bengtsson)
  Methods and models for 2D and 3D image analysis in microscopy, in particular for the study of muscle cells, UU, Uppsala, September 19, 2008.

Finished Licentiate:

• Filip Malmberg (Co-supervisor, main supervisor Prof. Gunilla Borgefors)
  Segmentation and analysis of volume images, with applications, SLU, Uppsala, 2008.

I am also/have been partly supervising:

• Marco Acerbis, Uppsala Univ.
• Wenyi Lian, Uppsala Univ.
• Karl Bengtsson Bernander
  Equivariant Neural Networks for Biomedical Image Analysis, UU, Uppsala, March 1, 2024.
• Gabriele Partel
  Image and Data Analysis for Spatially Resolved Transcriptomics, UU, Uppsala, October 29, 2020.
• Amit Suveer
  Methods for Processing and Analysis of Biomedical TEM Images, UU, Uppsala, June 5, 2019.
• Kristin Norell
  Automatic analysis of log end face images in the sawmill industry, UU, Uppsala, June 4, 2010.

Supervision - Master's thesis projects (past and current)

• Erik Granberg, UU, 2026 (Supervisor)
• Joel Sundin - Cross-Modality Image Translation from Routine Brightfield Slides to Synthetic cPOL Using Deep Learning, UU, 2026 (Reviewer)
• Johan Eliasson - Machine learning classification of cells and cell pairs from spatial isPLA signal patterns, UU, 2026 (Reviewer)
• Dilmi Wijesinghe Muhandiramlage - Self-Supervised Representation Learning for Survival Prediction from Multichannel Microscopy Images of Cancer Tissue, UU, 2026 (Reviewer)
• Junming Ma - 3D Reconstruction of the Tumor Microenvironment from Serial-Section Multiplexed Immunofluorescence Images, UU, 2026 (Reviewer)
• Nora El-Zein - Automatic Multiphase CT Classification Using Machine Learning Methods, UU, 2026 (Reviewer)
• Chufeng Zhang - Multimodal Image Registration using Contrastive Image Representation, UU, 2025 (Reviewer)
• Nora Derner - Evaluating Channel Importance in Deep Learning-based Multimodal Cytopathological Image Classification, UU, 2025 (Reviewer)
• Ida Åkerholm - Automated and Intelligible Oral Cancer Detection by Positive Unlabeled Learning, UU, 2025 (Reviewer)
• Olle Edgren Schüllerqvist - Human-in-the-Loop Deep Learning for Oral Cancer Screening: An Active Learning Approach, UU, 2025 (Supervisor)
• Jacob Henningsson - Active Learning with Continuous Synthetic Data Generation for Industrial Quality Inspection, UU, 2024 (Reviewer)
• Jens Baumann - AI-based Analysis of Multiplex Microscopy Images of Cancer Tissue for Explainable Immunotherapy Response Prediction, UU, 2024 (Reviewer)
• Linus Falk - Multimodal Image Registration by End-to-End Contrastive Representation Learning, UU, 2024 (Reviewer)
• Wenyi Lian - Intermediate Multimodal Information Fusion for Improved AI-based Cancer Detection, UU, 2024 (Reviewer)
• Elias Ekstedt - Evaluation of State-of-the-Art Concept-Based Explainable Artificial Intelligence Methods in Extraction of Meaningful Information from Oral Cancer Data, UU, 2024 (Supervisor)
• Oskar Lernholt - AI-based image matching for high-altitude vehicle navigation, UU, 2024 (Reviewer)
• Laurens Hees - Multimodal Contrastive Representation Learning for Image Registration in 3D, UU, 2024 (Reviewer)
• Duruo Li - Sim2Real: Generating synthetic images from industry CAD models with domain randomization, UU, 2023 (Reviewer)
• Sanna Severinsson - Data driven augmentation for deep learning applications, UU, 2023 (Reviewer)
• Madelene Alanenpää - Ultrasound neural style transfer with domain specific features, UU, 2023 (Reviewer)
• Roman Denkin - Prediction of the gain in classification performance from combining multiple imaging modalities, UU, 2023 (Reviewer)
• Marcello Vendruscolo - Certainty Estimation of Neural Networks for Out-of-Distribution Data in Oral Cancer Screening, UU, 2022 (Supervisor)
• Love Nordling - Contrastive Multimodal Image Representations for Deformable Image Registration, UU, Uppsala, 2022 (Reviewer)
• Davis Nicmanis - Deep Learning Based Focus Interpolation for Whole-Slide Images, UU, Uppsala, 2022 (Supervisor)
• Praveen Swamy - Calving monitoring with vision camera system using deep learning algorithms, UU, Uppsala, 2021 (Reviewer)
• Christopher Rydell - Deep Learning for Whole Slide Image Cytology: A Human-in-the-Loop Approach, UU, Uppsala, 2021 (Supervisor)
• Jiahao Lu - Evaluation of Learning based Methods for Multimodal Biomedical Image Registration, UU, Uppsala, 2020 (Supervisor)
• Tobias Hammarström - Towards Explainable Decision-making Strategies of Deep Convolutional Neural Networks, UU, Uppsala, 2020 (Supervisor)
• Tristan Wright - Implementation and Evaluation of a Variety of Image Stitching Methods, UU, Uppsala, 2020 (Supervisor)
• Jo Gay - Structural representation models for multi-modal image registration in biomedical applications, UU, Uppsala, 2019 (Supervisor)
• Sebastián Bas - Automatic landmark identification in digital images of Drosophila wings for improved morphometric analysis, UU, Uppsala, 2017 (Supervisor)
• Johan Öfverstedt - Similarity of Hybrid Object Representations With Applications in Object Recognition and Classification, UU, Uppsala, 2016 (Reviewer)
• Slobodan Dražić - Computerized analysis of handwritten historical documents, UNS, Novi Sad, 2012 (Supervisor)
• Tibor Lukić - O nekim varijacionim problemima u segmentaciji digitalnih slika, UNS, Novi Sad, 2008 (Supervisor)
• David Forslund - Realtime scene analysis in infrared images from vehicle mounted camera, Uppsala, 2008, CBA Master Thesis #106 (Reviewer)
• Johannes Löwén - Automatic Liquid Chromatography Rack Recognition, Uppsala, 2008 (Reviewer)
• Carl Krusell - Simulering av MR bildartefakter orsakade av inhomogenitet i det statiska magnetfältet B0, Uppsala, 2007 (Reviewer)
• Max Koszela - Measurement of local filler content in paper, Uppsala, 2007 (Reviewer)
• Petter Holmberg - Contour Extraction and Modelling of Horses using Background Subtraction and Active Shape Models, Uppsala, 2006 (Supervisor)
• Patrick Karlsson - Automatic License Plate Detection, Uppsala, 2001 (Supervisor)

Supervision - Bachelor's thesis projects (past and current)

• David Hesselbom - Artificial Video Bokeh Using Stereoscopic Cameras, UU, Uppsala, 2020 (Reviewer)