Research
Mathematical Imaging, Inverse Problems, Variational Regularisation Methods, Optimisation, Deep Learning, Environmental conservation
Interests
My main research area is mathematical imaging, in the interface of several areas of applied mathematics, like inverse problems, variational methods, calculus of variations, functional analysis, optimisation, optimal control, numerical analysis and deep learning. I have been particularly involved in the design, analysis and application of nonsmooth energy functionals incorporated in variational regularisation methods tailored for image processing. These functionals are at one hand discontinuity-preserving often stemming from their nonsmoothness, that is, they have the ability to preserve sharp edges in the images and on the other hand, they are adaptive to the specific structure of the given data. I am interested in combining these "classical" methods with modern data-driven and deep learning approaches.
I have a second research direction which is the result of my long-term involvement in environmental conservation with special focus on marine turtles, see the corresponding section of my personal website. I consider several applications of animal photo-identification (identification of individual animals via their unique morphological characteristics e.g. patterns/features), and in the same time consider various ways to enhance and automatise this process via modern imaging techniques. I am also looking at mathematical/statistical aspects of citizen science projects related to wildlife conservation.
Publications

Publications of specific relevance to the Centre for Probability, Statistics and Data Science
2025
Exploiting facial side similarities to improve AI-driven sea turtle photo-identification systemsAdam L Papafitsoros K Jean C
Ecological Informatics,
Elsevier vol. 89
01-11-2025
Learning Spatially Adaptive $\ell_1$-Norms Weights for Convolutional Synthesis RegularizationKofler A Calatroni L Kolbitsch C Papafitsoros K
In
Arxiv 22-10-2025
Nested Bregman Iterations for Decomposition ProblemsWolf T Driggs DT Papafitsoros K Resmerita E Schönlieb C-B
Siam Journal on Imaging Sciences,
Society For Industrial & Applied Mathematics (Siam) vol. 18 (3), 1963-2007.
22-09-2025
Overview of LifeCLEF 2025: Challenges on Species Presence Prediction and Identification, and Individual Animal IdentificationPicek L Kahl S Goëau H Adam L Larcher T Leblanc C Servajean M Janoušková K et al.
In
Experimental IR Meets Multilinguality, Multimodality, and Interaction,
Springer Nature 338-362.
03-09-2025
WildlifeReID-10k: Wildlife Re-Identification Dataset with 10k Individual AnimalsAdam L Čermák V Papafitsoros K Picek L
2025 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW). vol. 00, 2090-2100.
12-06-2025
Creation of new flipper scales at a juvenile loggerhead sea turtle: Implications for photo-identificationPapafitsoros K
Medturtle Bulletin vol. 7
15-05-2025
First-Order Conditions for the Optimal Control of Learning-Informed Nonsmooth PDEsDong G Hintermüller M Papafitsoros K
Numerical Functional Analysis and Optimization,
Taylor & Francis vol. 46 (7), 505-539.
23-04-2025
Deep unrolling for learning optimal spatially varying regularisation parameters for Total Generalised VariationVu TT Kofler A Papafitsoros K
In
Arxiv 23-02-2025
LifeCLEF 2025 Teaser: Challenges on Species Presence Prediction and Identification, and Individual Animal IdentificationJoly A Picek L Kahl S Goëau H Adam L Botella C Servajean M Marcos D et al.
In
Advances in Information Retrieval,
Springer Nature 373-381.
01-01-2025
Why do we Regularise in Every Iteration for Imaging Inverse Problems?Papoutsellis E Kereta Z Papafitsoros K
In
Scale Space and Variational Methods in Computer Vision,
Springer Nature 43-55.
01-01-2025
Deep Unrolling for Learning Optimal Spatially Varying Regularisation Parameters for Total Generalised VariationVu TT Kofler A Papafitsoros K
In
Scale Space and Variational Methods in Computer Vision,
Springer Nature 282-294.
01-01-2025
PrefaceBubba TA Gaburro R Gazzola S Papafitsoros K Pereyra M Schönlieb CB
Lecture Notes in Computer Science vol. 15668 LNCS
01-01-2025
Overview of AnimalCLEF 2025: Recognizing Individual Animals in ImagesAdam L Papafitsoros K Kovář R Čermák V Picek L
Ceur Workshop Proceedings. vol. 4038, 2898-2908.
01-01-20252024
Data‐driven methods for quantitative imagingDong G Flaschel M Papafitsoros K Sirotenko C
Gamm-Mitteilungen,
Wiley vol. 48 (1)
06-11-2024
Why do we regularise in every iteration for imaging inverse problems?Papoutsellis E Kereta Z Papafitsoros K
In
Arxiv 01-11-2024
Nested Bregman Iterations for Decomposition ProblemsWolf T Driggs D Papafitsoros K Resmerita E Schönlieb C-B
In
Arxiv 02-09-2024
A Descent Algorithm for the Optimal Control of ReLU Neural Network Informed PDEs Based on Approximate Directional DerivativesDong G Hintermüller M
Siam Journal on Optimization,
Society For Industrial & Applied Mathematics (Siam) vol. 34 (3), 2314-2349.
02-07-2024
WildlifeReID-10k: Wildlife re-identification dataset with 10k individual animalsAdam L Čermák V Papafitsoros K Picek L
In
Arxiv 13-06-2024
Data-driven methods for quantitative imagingDong G Flaschel M Hintermüller M Papafitsoros K Sirotenko C Tabelow K
In
Arxiv 11-04-2024
Machine Learning for Quantitative MR Image ReconstructionKofler A Zimmermann FF Papafitsoros K
In
Arxiv 29-02-2024
WildlifeDatasets: An open-source toolkit for animal re-identificationČermák V Adam L Papafitsoros K
2024 IEEE/CVF Winter Conference on Applications of Computer Vision (WACV 2024).
01-02-20242023
Learning Regularization Parameter-Maps for Variational Image Reconstruction Using Deep Neural Networks and Algorithm UnrollingKofler A Altekrüger F Antarou Ba F Kolbitsch C Papoutsellis E Schote D Sirotenko C
Siam Journal on Imaging Sciences,
Society For Industrial & Applied Mathematics (Siam) vol. 16 (4), 2202-2246.
29-11-2023
WildlifeDatasets: An open-source toolkit for animal re-identificationČermák V Picek L Adam L Papafitsoros K
In
Arxiv 15-11-2023
SeaTurtleID2022: A long-span dataset for reliable sea turtle re-identificationAdam L Čermák V Papafitsoros K Picek L
In
Arxiv 09-11-2023
CNN-based Estimation of Spatio-Temporal Regularization Parameter-Maps for TV-Reconstruction in Dynamic Cardiac MRIKofler A Sirotenko C Zimmermann F Schote D Kolbitsch C Ba F Altekrüger F Papoutsellis E et al.
2023 ISMRM & ISMRT Annual Meeting.
19-05-2023
Unrolled three-operator splitting for parameter-map learning in Low Dose X-ray CT reconstructionKofler A Altekrüger F Ba FA Kolbitsch C Papoutsellis E Schote D Sirotenko C Zimmermann FF et al.
In
Arxiv 17-04-2023
Learning Regularization Parameter-Maps for Variational Image Reconstruction using Deep Neural Networks and Algorithm UnrollingKofler A Altekrüger F Ba FA Kolbitsch C Papoutsellis E Schote D
In
Arxiv 14-01-20232022
A social media-based framework for quantifying temporal changes to wildlife viewing intensityPapafitsoros K Adam L
Ecological Modelling,
Elsevier vol. 476, 110223-110223.
29-11-2022
SeaTurtleID2022: A long-span dataset for reliable sea turtle re-identificationAdam L Adam L Papafitsoros K Picek L
In
Arxiv 18-11-2022
A descent algorithm for the optimal control of ReLU neural network informed PDEs based on approximate directional derivativesDong G Papafitsoros K
In
Arxiv 14-10-2022
Bilevel Training Schemes in Imaging for Total Variation--Type Functionals with Convex IntegrandsPagliari V Papafitsoros K
Siam Journal on Imaging Sciences,
Society For Industrial and Applied Mathematics vol. 15 (4), 1690-1728.
10-10-2022
More aggressive sea turtles win fights over foraging resources independent of body size and years of presenceSchofield G Papafitsoros K Chapman C Shah A Westover L Katselidis KA
Animal Behaviour,
Elsevier vol. 190, 209-219.
10-06-2022
First-order conditions for the optimal control of learning-informed nonsmooth PDEsDong G Hintermüller M Papafitsoros K
In
Arxiv 01-06-2022
Dualization and Automatic Distributed Parameter Selection of Total Generalized Variation via Bilevel OptimizationHintermüller M Rautenberg CN
Numerical Functional Analysis and Optimization,
Taylor and Francis Group vol. 43 (8), 887-932.
05-05-2022
Photo-identification confirms polyandry in loggerhead sea turtlesPapafitsoros K Dimitriadis C Mazaris AD
Marine Ecology,
Wiley 19-01-2022
Optimization with learning-informed differential equation constraints and its applicationsDong G Hintermüller M Papafitsoros K
Esaim: Control, Optimisation and Calculus of Variations,
Edp Sciences vol. 28
11-01-20222021
Bilevel training schemes in imaging for total-variation-type functionals with convex integrandsPagliari V Papafitsoros K
In
Arxiv 20-12-20212020
Variable Step Mollifiers and ApplicationsHintermüller M Papafitsoros K
Integral Equations and Operator Theory,
Springer vol. 92 (6)
30-11-2020
Social media reveals consistently disproportionate tourism pressure on a threatened marine vertebrateSchofield G
Animal Conservation 27-10-2020
Optimization with learning-informed differential equation constraints and its applicationsDong G Hintermueller M
In
Arxiv 25-08-2020
Dualization and Automatic Distributed Parameter Selection of Total Generalized Variation via Bilevel OptimizationHintermüller M Papafitsoros K
In
Arxiv 13-02-2020
Patch-Wise Adaptive Weights Smoothing in RPolzehl J Papafitsoros K Tabelow K
Journal of Statistical Software,
Foundation For Open Access Statistic vol. 95 (6)
01-01-20202019
Analysis and automatic parameter selection of a variational model for mixed Gaussian and salt-and-pepper noise removalCalatroni L
Inverse Problems,
Iop Publishing vol. 35 (11)
23-09-2019
Quantitative Magnetic Resonance Imaging: From Fingerprinting to Integrated Physics-Based ModelsDong G Hintermüller M
In
Arxiv 28-03-2019
Chapter 11 Generating structured nonsmooth priors and associated primal-dual methodsHintermüller M
In
Processing, Analyzing and Learning of Images, Shapes, and Forms: Part 2,
Elsevier 437-502.
01-01-2019
Quantitative Magnetic Resonance Imaging: From Fingerprinting to Integrated Physics-Based ModelsDong G Hintermüller M
Siam Journal on Imaging Sciences,
Society For Industrial & Applied Mathematics (Siam) vol. 12 (2), 927-971.
01-01-20192018
Analysis and optimisation of a variational model for mixed Gaussian and Salt & Pepper noise removalCalatroni L Papafitsoros K
In
Arxiv 24-09-2018
A function space framework for structural total variation regularization with applications in inverse problemsHintermüller M Holler M
Inverse Problems,
Iop Publishing vol. 34 (6)
27-04-2018
Complex movement patterns by foraging loggerhead sea turtles outside the breeding season identified using Argos-linked Fastloc-Global Positioning SystemDujon AM Schofield G Lester RE Papafitsoros K
Marine Ecology vol. 39 (1), e12489-e12489.
01-02-20182017
A function space framework for structural total variation regularization with applications in inverse problemsHintermüller M Holler M
In
Arxiv 04-10-2017
Analytical aspects of spatially adapted total variation regularisationHintermüller M Papafitsoros K Rautenberg CN
Journal of Mathematical Analysis and Applications,
Elsevier vol. 454 (2), 891-935.
01-10-2017
Aerial and underwater surveys reveal temporal variation in cleaning-station use by sea turtles at a temperate breeding areaSchofield G Papafitsoros K Katselidis K
Marine Ecology Progress Series vol. 575, 153-164.
20-07-20172016
Analytical aspects of spatially adapted total variation regularisationHintermüller M Papafitsoros K
05-09-2016
Infimal Convolution Regularisation Functionals of BV and Lp SpacesBurger M Papoutsellis E
Journal of Mathematical Imaging and Vision,
Springer Nature vol. 55 (3), 343-369.
03-02-2016
Infimal Convolution Regularisation Functionals of and Spaces. The CaseBurger M Papafitsoros K Schönlieb C-B
IFIP Advances in Information and Communication Technology. vol. 494, 169-179.
01-01-20162015
Asymptotic behaviour of total generalised variationPapafitsoros K Valkonen T
24-02-2015
Asymptotic Behaviour of Total Generalised VariationPapafitsoros K
Lecture Notes in Computer Science. vol. 9087, 702-714.
01-01-2015
A study of the one dimensional total generalised variation regularisation problemPapafitsoros K
Inverse Problems and Imaging,
American Institute of Mathematical Sciences (Aims) vol. 9 (2), 511-550.
01-01-2015
Analysis and Application of a Nonlocal HessianLellmann J Papafitsoros K Schönlieb C
Siam Journal on Imaging Sciences,
Society For Industrial & Applied Mathematics (Siam) vol. 8 (4), 2161-2202.
01-01-20152014
Analysis and Application of a non-local HessianLellmann J Papafitsoros K Schoenlieb C
31-10-20142013
A study of the one dimensional total generalised variation
regularisation problemPapafitsoros K Bredies K
23-09-2013
A Combined First and Second Order Variational Approach for Image ReconstructionPapafitsoros K Schönlieb CB
Journal of Mathematical Imaging and Vision,
Springer Nature vol. 48 (2), 308-338.
10-05-20132012
A combined first and second order variational approach for image
reconstructionPapafitsoros K Schönlieb C-B
27-02-2012
Machine Learning for Quantitative Magnetic Resonance Image ReconstructionKofler A Papafitsoros K
In
Quantification of Biophysical Parameters in Medical Imaging,
Springer Nature 171-213.
24-02-2012
Exploiting facial side similarities to improve AI-driven sea turtle photo-identification systemsAdam L Papafitsoros K Jean C Rees AF
In
Biorxiv
Sea Turtle Photo Identification: A Practical GuidePapafitsoros K Hoh D Köhnk S Montagna M Witzmann J
Mtsg Manual on Research and Management Techniques For The Conservation of Sea Turtles
Long-term photo-id and satellite tracking reveal sex-biased survival linked to movements in an endangered species.Schofield G Klaassen M Papafitsoros K Lilley MKS Katselidis KA Hays GC
Ecology,
Ecological Society of America, e03027-e03027.
Social media reveals consistently disproportionate tourism pressure on a threatened marine vertebratePapafitsoros K Panagopoulou A
In
Biorxiv
A social media-based framework for quantifying temporal changes to wildlife viewing intensity: Case study of sea turtles before and during COVID-19Papafitsoros K Adam L
In
Biorxiv
Social media mining and photo-identification detects the shift of long-term seasonal foraging habitat for a juvenile loggerhead sea turtlePapafitsoros K
In
Biorxiv
Underreported in-water behaviours of the loggerhead sea turtle: Getting buried in the sandPapafitsoros K
In
Biorxiv
Underreported in-water behaviours of the loggerhead sea turtle: Foraging on sea cucumbersPapafitsoros K
In
Biorxiv
SeaTurtleID2022: A long-span dataset for reliable sea turtle re-identificationAdam L Čermák V Papafitsoros K Picek L
2024 IEEE/CVF Winter Conference on Applications of Computer Vision (WACV 2024).