EDBT 2026 Demo / reviewers in the wild / expert
Erik J. Bekkers
dblp:43/5596 · also Erik Johannes Bekkers
· DBLP profile ↗
30ranked-venue papers
6as first author
19since 2021 · last 2025
0000-0003-4418-2160ORCID · verified
Domains — the database's venue-derived domains; a paper can count in several
Artificial intelligence and machine learning · 22 · 3 first-author · 16 since 2021Applied, interdisciplinary, general and emerging computing · 6 · 2 first-author · 2 since 2021Graphics, computer vision, multimedia, augmented reality and games · 5 · 2 first-author · 1 since 2021Theory of computation · 1 · 1 since 2021
| Year | Publication | Venue | Position |
|---|---|---|---|
| 2025 | HyperSteiner: Computing Heuristic Hyperbolic Steiner Minimal TreesabstractWe propose HyperSteiner – an efficient heuristic algorithm for computing Steiner minimal trees in the hyperbolic space. HyperSteiner extends the Euclidean Smith-Lee-Liebman algorithm, which is grounded in a divide-and-conquer approach involving the Delaunay triangulation. The central idea is rephrasing Steiner tree problems with three terminals as a system of equations in the Klein-Beltrami model. Motivated by the fact that hyperbolic geometry is well-suited for representing hierarchies, we explore applications to hierarchy discovery in data. Results show that HyperSteiner infers more realistic hierarchies than the Minimum Spanning Tree and is more scalable to large datasets than Neighbor Joining. Alejandro García-Castellanos, Aniss Aiman Medbouhi, Giovanni Luca Marchetti, Erik J. Bekkers, Danica Kragic |
ALENEX | 4 |
| 2025 | Grounding Continuous Representations in Geometry: Equivariant Neural FieldsabstractConditional Neural Fields (CNFs) are increasingly being leveraged as continuous signal representations, by associating each data-sample with a latent variable that conditions a shared backbone Neural Field (NeF) to reconstruct the sample. However, existing CNF architectures face limitations when using this latent downstream in tasks requiring fine-grained geometric reasoning, such as classification and segmentation. We posit that this results from lack of explicit modelling of geometric information (e.g. locality in the signal or the orientation of a feature) in the latent space of CNFs. As such, we propose Equivariant Neural Fields (ENFs), a novel CNF architecture which uses a geometry-informed cross-attention to condition the NeF on a geometric variable—a latent point cloud of features—that enables an equivariant decoding from latent to field. We show that this approach induces a steerability property by which both field and latent are grounded in geometry and amenable to transformation laws: if the field transforms, the latent representation transforms accordingly—and vice versa. Crucially, this equivariance relation ensures that the latent is capable of (1) representing geometric patterns faitfhully, allowing for geometric reasoning in latent space, (2) weight-sharing over similar local patterns, allowing for efficient learning of datasets of fields. We validate these main properties in a range of tasks including classification, segmentation, forecasting, reconstruction and generative modelling, showing clear improvement over baselines with a geometry-free latent space. David R. Wessels, David M. Knigge, Riccardo Valperga, Samuele Papa, Sharvaree Vadgama, Efstratios Gavves, Erik J. Bekkers |
ICLR | 7 |
| 2025 | On the Importance of Embedding Norms in Self-Supervised LearningabstractSelf-supervised learning (SSL) allows training data representations without a supervised signal and has become an important paradigm in machine learning. Most SSL methods employ the cosine similarity between embedding vectors and hence effectively embed data on a hypersphere. While this seemingly implies that embedding norms cannot play any role in SSL, a few recent works have suggested that embedding norms have properties related to network convergence and confidence. In this paper, we resolve this apparent contradiction and systematically establish the embedding norm's role in SSL training. Using theoretical analysis, simulations, and experiments, we show that embedding norms (i) govern SSL convergence rates and (ii) encode network confidence, with smaller norms corresponding to unexpected samples. Additionally, we show that manipulating embedding norms can have large effects on convergence speed.
Our findings demonstrate that SSL embedding norms are integral to understanding and optimizing network behavior. Andrew Draganov, Sharvaree Vadgama, Sebastian Damrich, Jan Niklas Böhm, Lucas Maes, Dmitry Kobak, Erik J. Bekkers |
ICML | 7 |
| 2025 | Controlled Generation with Equivariant Variational Flow MatchingabstractWe derive a controlled generation objective within the framework of Variational Flow Matching (VFM),
which casts flow matching as a variational inference problem.
We demonstrate that controlled generation can be implemented two ways: (1) by way of end-to-end training of conditional generative models, or (2) as a Bayesian inference problem, enabling post hoc control of unconditional models without retraining.
Furthermore, we establish the conditions required for equivariant generation and provide an equivariant formulation of VFM tailored for molecular generation, ensuring invariance to rotations, translations, and permutations.
We evaluate our approach on both uncontrolled and controlled molecular generation, achieving state-of-the-art performance on uncontrolled generation and outperforming state-of-the-art models in controlled generation, both with end-to-end training and in the Bayesian inference setting.
This work strengthens the connection between flow-based generative modeling and Bayesian inference, offering a scalable and principled framework for constraint-driven and symmetry-aware generation. Floor Eijkelboom, Heiko Zimmermann, Sharvaree Vadgama, Erik J. Bekkers, Max Welling, Christian A. Naesseth, Jan-Willem van de Meent |
ICML | 4 |
| 2025 | Equivariant Eikonal Neural Networks: Grid-Free, Scalable Travel-Time Prediction on Homogeneous SpacesabstractWe introduce Equivariant Neural Eikonal Solvers, a novel framework that integrates Equivariant Neural Fields (ENFs) with Neural Eikonal Solvers. Our approach employs a single neural field where a unified shared backbone is conditioned on signal-specific latent variables – represented as point clouds in a Lie group – to model diverse Eikonal solutions. The ENF integration ensures equivariant mapping from these latent representations to the solution field, delivering three key benefits: enhanced representation efficiency through weight-sharing, robust geometric grounding, and solution steerability. This steerability allows transformations applied to the latent point cloud to induce predictable, geometrically meaningful modifications in the resulting Eikonal solution. By coupling these steerable representations with Physics-Informed Neural Networks (PINNs), our framework accurately models Eikonal travel-time solutions while generalizing to arbitrary Riemannian manifolds with regular group actions. This includes homogeneous spaces such as Euclidean, position–orientation, spherical, and hyperbolic manifolds. We validate our approach through applications in seismic travel-time modeling of 2D, 3D, and spherical benchmark datasets. Experimental results demonstrate superior performance, scalability, adaptability, and user controllability compared to existing Neural Operator-based Eikonal solver methods. Alejandro García-Castellanos, David R. Wessels, Nicky J. van den Berg, Remco Duits, Daniël M. Pelt, Erik J. Bekkers |
NeurIPS | 6 |
| 2025 | Probing Equivariance and Symmetry Breaking in Convolutional NetworksabstractIn this work, we explore the trade-offs of explicit structural priors, particularly group-equivariance. We address this through theoretical analysis and a comprehensive empirical study focusing on point clouds. To enable controlled and fair comparisons, we introduce \texttt{Rapidash}, a unified group convolutional architecture that allows for different variants of equivariant and non-equivariant models. Our results suggest that more constrained equivariant models outperform less constrained alternatives when aligned with the geometry of the task, and increasing representation capacity does not fully eliminate performance gaps. We see improved performance of models with equivariance and symmetry-breaking through tasks like segmentation, regression, and generation across diverse datasets. Explicit \textit{symmetry breaking} via geometric reference frames consistently improves performance, while \textit{breaking equivariance} through geometric input features can be helpful when aligned with task geometry. Our results provide task-specific performance trends that offer a more nuanced way for model selection.
Code available at [github.com/Sharvaree/EquivarianceStudy](https://github.com/Sharvaree/EquivarianceStudy) Sharvaree Vadgama, Mohammad Mohaiminul Islam, Domas Buracas, Christian Shewmake, Artem Moskalev, Erik J. Bekkers |
NeurIPS | 6 |
| 2025 | CP2: Leveraging Geometry for Conformal Prediction via CanonicalizationabstractWe study the problem of *conformal prediction* (CP) under geometric data shifts, where data samples are susceptible to transformations such as rotations or flips. While CP endows prediction models with *post-hoc* uncertainty quantification and formal coverage guarantees, their practicality breaks under distribution shifts that deteriorate model performance. To address this issue, we propose integrating geometric information-such as geometric pose-into the conformal procedure to reinstate its guarantees and ensure robustness under geometric shifts. In particular, we explore recent advancements on pose *canonicalization* as a suitable information extractor for this purpose. Evaluating the combined approach across discrete and continuous shifts and against equivariant and augmentation-based baselines, we find that integrating geometric information with CP yields a principled way to address geometric shifts while maintaining broad applicability to black-box predictors. Putri A. van der Linden, Alexander Timans, Erik J. Bekkers |
UAI | 3 |
| 2024 | Fast, Expressive SE(n) Equivariant Networks through Weight-Sharing in Position-Orientation Space
Erik J. Bekkers, Sharvaree Vadgama, Rob Hesselink, Putri A. van der Linden, David W. Romero |
ICLR | 1 |
| 2024 | Space-Time Continuous PDE Forecasting using Equivariant Neural FieldsabstractRecently, Conditional Neural Fields (NeFs) have emerged as a powerful modelling paradigm for PDEs, by learning solutions as flows in the latent space of the Conditional NeF. Although benefiting from favourable properties of NeFs such as grid-agnosticity and space-time-continuous dynamics modelling, this approach limits the ability to impose known constraints of the PDE on the solutions -- such as symmetries or boundary conditions -- in favour of modelling flexibility. Instead, we propose a space-time continuous NeF-based solving framework that - by preserving geometric information in the latent space of the Conditional NeF - preserves known symmetries of the PDE. We show that modelling solutions as flows of pointclouds over the group of interest $G$ improves generalization and data-efficiency. Furthermore, we validate that our framework readily generalizes to unseen spatial and temporal locations, as well as geometric transformations of the initial conditions - where other NeF-based PDE forecasting methods fail -, and improve over baselines in a number of challenging geometries. David M. Knigge, David R. Wessels, Riccardo Valperga, Samuele Papa, Jan-Jakob Sonke, Erik J. Bekkers, Efstratios Gavves |
NeurIPS | 6 |
| 2024 | Learning symmetries via weight-sharing with doubly stochastic tensorsabstractGroup equivariance has emerged as a valuable inductive bias in deep learning, enhancing generalization, data efficiency, and robustness. Classically, group equivariant methods require the groups of interest to be known beforehand, which may not be realistic for real-world data. Additionally, baking in fixed group equivariance may impose overly restrictive constraints on model architecture. This highlights the need for methods that can dynamically discover and apply symmetries as soft constraints. For neural network architectures, equivariance is commonly achieved through group transformations of a canonical weight tensor, resulting in weight sharing over a given group $G$. In this work, we propose to *learn* such a weight-sharing scheme by defining a collection of learnable doubly stochastic matrices that act as soft permutation matrices on canonical weight tensors, which can take regular group representations as a special case. This yields learnable kernel transformations that are jointly optimized with downstream tasks. We show that when the dataset exhibits strong symmetries, the permutation matrices will converge to regular group representations and our weight-sharing networks effectively become regular group convolutions. Additionally, the flexibility of the method enables it to effectively pick up on partial symmetries. Putri A. van der Linden, Alejandro García-Castellanos, Sharvaree Vadgama, Thijs P. Kuipers, Erik J. Bekkers |
NeurIPS | 5 |
| 2023 | Modelling Long Range Dependencies in $N$D: From Task-Specific to a General Purpose CNN
David M. Knigge, David W. Romero, Albert Gu, Efstratios Gavves, Erik J. Bekkers, Jakub M. Tomczak, Mark Hoogendoorn, Jan-Jakob Sonke |
ICLR | 5 |
| 2023 | E(n) Equivariant Message Passing Simplicial NetworksabstractThis paper presents $\mathrm{E}(n)$ Equivariant Message Passing Simplicial Networks (EMPSNs), a novel approach to learning on geometric graphs and point clouds that is equivariant to rotations, translations, and reflections. EMPSNs can learn high-dimensional simplex features in graphs (e.g. triangles), and use the increase of geometric information of higher-dimensional simplices in an $\mathrm{E}(n)$ equivariant fashion. EMPSNs simultaneously generalize $\mathrm{E}(n)$ Equivariant Graph Neural Networks to a topologically more elaborate counterpart and provide an approach for including geometric information in Message Passing Simplicial Networks, thereby serving as a proof of concept for combining geometric and topological information in graph learning. The results indicate that EMPSNs can leverage the benefits of both approaches, leading to a general increase in performance when compared to either method individually, being on par with state-of-the-art approaches for learning on geometric graphs. Moreover, the results suggest that incorporating geometric information serves as an effective measure against over-smoothing in message passing networks, especially when operating on high-dimensional simplicial structures. Floor Eijkelboom, Rob Hesselink, Erik J. Bekkers |
ICML | 3 |
| 2023 | Regular SE(3) Group Convolutions for Volumetric Medical Image Analysis
Thijs P. Kuipers, Erik J. Bekkers |
MICCAI (3) | 2 |
| 2023 | Latent Field Discovery in Interacting Dynamical Systems with Neural FieldsabstractSystems of interacting objects often evolve under the influence of underlying field effects that govern their dynamics, yet previous works have abstracted away from such effects, and assume that systems evolve in a vacuum. In this work, we focus on discovering these fields, and infer them from the observed dynamics alone, without directly observing them. We theorize the presence of latent force fields, and propose neural fields to learn them. Since the observed dynamics constitute the net effect of local object interactions and global field effects, recently popularized equivariant networks are inapplicable, as they fail to capture global information. To address this, we propose to disentangle local object interactions --which are SE(3) equivariant and depend on relative states-- from external global field effects --which depend on absolute states. We model the interactions with equivariant graph networks, and combine them with neural fields in a novel graph network that integrates field forces. Our experiments show that we can accurately discover the underlying fields in charged particles settings, traffic scenes, and gravitational n-body problems, and effectively use them to learn the system and forecast future trajectories. Miltiadis Kofinas, Erik J. Bekkers, Naveen Shankar Nagaraja, Efstratios Gavves |
NeurIPS | 2 |
| 2022 | Geometric and Physical Quantities improve E(3) Equivariant Message Passing
Johannes Brandstetter, Rob Hesselink, Elise van der Pol, Erik J. Bekkers, Max Welling |
ICLR | 4 |
| 2022 | FlexConv: Continuous Kernel Convolutions With Differentiable Kernel Sizes
David W. Romero, Robert-Jan Bruintjes, Jakub M. Tomczak, Erik J. Bekkers, Mark Hoogendoorn, Jan C. van Gemert |
ICLR | 4 |
| 2022 | CKConv: Continuous Kernel Convolution For Sequential Data
David W. Romero, Anna Kuzina, Erik J. Bekkers, Jakub M. Tomczak, Mark Hoogendoorn |
ICLR | 3 |
| 2022 | Exploiting Redundancy: Separable Group Convolutional Networks on Lie GroupsabstractGroup convolutional neural networks (G-CNNs) have been shown to increase parameter efficiency and model accuracy by incorporating geometric inductive biases. In this work, we investigate the properties of representations learned by regular G-CNNs, and show considerable parameter redundancy in group convolution kernels. This finding motivates further weight-tying by sharing convolution kernels over subgroups. To this end, we introduce convolution kernels that are separable over the subgroup and channel dimensions. In order to obtain equivariance to arbitrary affine Lie groups we provide a continuous parameterisation of separable convolution kernels. We evaluate our approach across several vision datasets, and show that our weight sharing leads to improved performance and computational efficiency. In many settings, separable G-CNNs outperform their non-separable counterpart, while only using a fraction of their training time. In addition, thanks to the increase in computational efficiency, we are able to implement G-CNNs equivariant to the $\mathrm{Sim(2)}$ group; the group of dilations, rotations and translations of the plane. $\mathrm{Sim(2)}$-equivariance further improves performance on all tasks considered, and achieves state-of-the-art performance on rotated MNIST. David M. Knigge, David W. Romero, Erik J. Bekkers |
ICML | 3 |
| 2021 | Roto-translation equivariant convolutional networks: Application to histopathology image analysis
Maxime W. Lafarge, Erik J. Bekkers, Josien P. W. Pluim, Remco Duits, Mitko Veta |
Medical Image Anal. | 2 |
| 2020 | B-Spline CNNs on Lie groups
Erik J. Bekkers |
ICLR | 1 |
| 2020 | Attentive Group Equivariant Convolutional NetworksabstractAlthough group convolutional networks are able to learn powerful representations based on symmetry patterns, they lack explicit means to learn meaningful relationships among them (e.g., relative positions and poses). In this paper, we present attentive group equivariant convolutions, a generalization of the group convolution, in which attention is applied during the course of convolution to accentuate meaningful symmetry combinations and suppress non-plausible, misleading ones. We indicate that prior work on visual attention can be described as special cases of our proposed framework and show empirically that our attentive group equivariant convolutional networks consistently outperform conventional group convolutional networks on benchmark image datasets. Simultaneously, we provide interpretability to the learned concepts through the visualization of equivariant attention maps. David W. Romero, Erik J. Bekkers, Jakub M. Tomczak, Mark Hoogendoorn |
ICML | 2 |
| 2018 | Roto-Translation Covariant Convolutional Networks for Medical Image Analysis
Erik J. Bekkers, Maxime W. Lafarge, Mitko Veta, Koen A. J. Eppenhof, Josien P. W. Pluim, Remco Duits |
MICCAI (1) | 1 |
| 2018 | Template Matching via Densities on the Roto-Translation GroupabstractWe propose a template matching method for the detection of 2D image objects that are characterized by orientation patterns. Our method is based on data representations via orientation scores, which are functions on the space of positions and orientations, and which are obtained via a wavelet-type transform. This new representation allows us to detect orientation patterns in an intuitive and direct way, namely via cross-correlations. Additionally, we propose a generalized linear regression framework for the construction of suitable templates using smoothing splines. Here, it is important to recognize a curved geometry on the position-orientation domain, which we identify with the Lie group SE(2): the roto-translation group. Templates are then optimized in a B-spline basis, and smoothness is defined with respect to the curved geometry. We achieve state-of-the-art results on three different applications: detection of the optic nerve head in the retina (99.83 percent success rate on 1,737 images), of the fovea in the retina (99.32 percent success rate on 1,616 images), and of the pupil in regular camera images (95.86 percent on 1,521 images). The high performance is due to inclusion of both intensity and orientation features with effective geometric priors in the template matching. Moreover, our method is fast due to a cross-correlation based matching approach. Erik J. Bekkers, Marco Loog, Bart M. ter Haar Romeny, Remco Duits |
IEEE Trans. Pattern Anal. Mach. Intell. | 1 |
| 2017 | Retinal vessel delineation using a brain-inspired wavelet transform and random forest
Jiong Zhang 0004, Erik J. Bekkers, Behdad Dashtbozorg, Bart M. ter Haar Romeny |
Pattern Recognit. | 3 |
| 2016 | Brain-inspired algorithms for retinal image analysisabstractRetinal image analysis is a challenging problem due to the precise quantification required and the huge numbers of images produced in screening programs. This paper describes a series of innovative brain-inspired algorithms for automated retinal image analysis, recently developed for the RetinaCheck project, a large-scale screening program for diabetic retinopathy and other retinal diseases in Northeast China. The paper discusses the theory of orientation scores, inspired by cortical multi-orientation pinwheel structures, and presents applications for automated quality assessment, optic nerve head detection, crossing-preserving enhancement and segmentation of retinal vasculature, arterio-venous ratio, fractal dimension, and vessel tortuosity and bifurcations. Many of these algorithms outperform state-of-the-art techniques. The methods are currently validated in collaborating hospitals, with a rich accompanying base of metadata, to phenotype and validate the quantitative algorithms for optimal classification power. Bart M. ter Haar Romeny, Erik J. Bekkers, Jiong Zhang 0004, Samaneh Abbasi-Sureshjani, Remco Duits, Behdad Dashtbozorg, Tos Berendschot, Iris Smit-Ockeloen, Koen A. J. Eppenhof, Jinghan Feng, Julius Hannink, Jan Schouten, Mengmeng Tong, Hanhui Wu, Han J. W. van Triest, Dali Chen, Ping Han |
Mach. Vis. Appl. | 2 |
| 2016 | Robust Retinal Vessel Segmentation via Locally Adaptive Derivative Frames in Orientation ScoresabstractThis paper presents a robust and fully automatic filter-based approach for retinal vessel segmentation. We propose new filters based on 3D rotating frames in so-called orientation scores, which are functions on the Lie-group domain of positions and orientations [Formula: see text]. By means of a wavelet-type transform, a 2D image is lifted to a 3D orientation score, where elongated structures are disentangled into their corresponding orientation planes. In the lifted domain [Formula: see text], vessels are enhanced by means of multi-scale second-order Gaussian derivatives perpendicular to the line structures. More precisely, we use a left-invariant rotating derivative (LID) frame, and a locally adaptive derivative (LAD) frame. The LAD is adaptive to the local line structures and is found by eigensystem analysis of the left-invariant Hessian matrix (computed with the LID). After multi-scale filtering via the LID or LAD in the orientation score domain, the results are projected back to the 2D image plane giving us the enhanced vessels. Then a binary segmentation is obtained through thresholding. The proposed methods are validated on six retinal image datasets with different image types, on which competitive segmentation performances are achieved. In particular, the proposed algorithm of applying the LAD filter on orientation scores (LAD-OS) outperforms most of the state-of-the-art methods. The LAD-OS is capable of dealing with typically difficult cases like crossings, central arterial reflex, closely parallel and tiny vessels. The high computational speed of the proposed methods allows processing of large datasets in a screening setting. Jiong Zhang 0004, Behdad Dashtbozorg, Erik J. Bekkers, Josien P. W. Pluim, Remco Duits, Bart M. ter Haar Romeny |
IEEE Trans. Medical Imaging | 3 |
| 2015 | Sub-Riemannian Fast Marching in SE(2)
Gonzalo Sanguinetti, Erik J. Bekkers, Remco Duits, Michiel Janssen, Alexey Mashtakov, Jean-Marie Mirebeau |
CIARP | 2 |
| 2015 | A PDE Approach to Data-Driven Sub-Riemannian Geodesics in SE(2)abstractWe present a new flexible wavefront propagation algorithm for the boundary value problem for sub-Riemannian (SR) geodesics in the roto-translation group $SE(2) = \mathbb{R}^2 \rtimes S^1$ with a metric tensor depending on a smooth external cost $\mathcal{C}:SE(2) \to [\delta,1]$, $\delta>0$, computed from image data. The method consists of a first step where an SR-distance map is computed as a viscosity solution of a Hamilton--Jacobi--Bellman system derived via Pontryagin's maximum principle (PMP). Subsequent backward integration, again relying on PMP, gives the SR-geodesics. For $\mathcal{C}=1$ we show that our method produces the global minimizers. Comparison with exact solutions shows a remarkable accuracy of the SR-spheres and the SR-geodesics. We present numerical computations of Maxwell points and cusp points, which we again verify for the uniform cost case $\mathcal{C}=1$. Regarding image analysis applications, trackings of elongated structures in retinal and synthetic images show that our line tracking generically deals with crossings. We show the benefits of including the SR-geometry. Erik J. Bekkers, Remco Duits, Alexey Mashtakov, Gonzalo Sanguinetti |
SIAM J. Imaging Sci. | 1 |
| 2014 | Crossing-Preserving Multi-scale Vesselness
Julius Hannink, Remco Duits, Erik J. Bekkers |
MICCAI (2) | 3 |
| 2008 | Multiscale Vascular Surface Model Generation From Medical Imaging Data Using Hierarchical FeaturesabstractComputational fluid dynamics (CFD) modeling of blood flow from image-based patient specific models can provide useful physiologic information for guiding clinical decision making. A novel method for the generation of image-based, 3-D, multiscale vascular surface models for CFD is presented. The method generates multiscale surfaces based on either a linear triangulated or a globally smooth nonuniform rational B-spline (NURB) representation. A robust local curvature analysis is combined with a novel global feature analysis to set mesh element size. The method is particularly useful for CFD modeling of complex vascular geometries that have a wide range of vasculature size scales, in conditions where 1) initial surface mesh density is an important consideration for balancing surface accuracy with manageable size volumetric meshes, 2) adaptive mesh refinement based on flow features makes an underlying explicit smooth surface representation desirable, and 3) semi-automated detection and trimming of a large number of inlet and outlet vessels expedites model construction. Erik J. Bekkers, Charles A. Taylor |
IEEE Trans. Medical Imaging | 1 |