arXiv subjects

Thomas Lampert

Publications and source records attributed to Thomas Lampert.

14 recordsLinked to original sources

arXiv2026

Introducing the Privacy-HSD Trade-off: Hate Speech Detection, but not at the Cost of Privacy

Hate speech is a real and timely threat that affects a large portion of online users, especially youth and minority groups. While building reliable and robust automatic hate speech detection (HSD) systems is paramount, we argue that this must also be balanced with the individual right to privacy. Exploring the intersection of HSD and privacy, we demonstrate that HSD systems might unintentionally achieve performance at the cost of encoding authorship, posing a threat to privacy. Building on these findings, we establish the notion of a privacy-HSD trade-off, which demands a careful balance. We benchmark a series of text privatization methods, as well as our newly proposed domain-specific AgnoSpeech technique, showing that balancing privacy and HSD is difficult but feasible. The findings make a strong case for more research on the trade-offs between privacy and HSD, both of which have tangible implications for the safeguarding of online participation.

cs.CL↗

arXiv2026

Pulmonary Embolism Risk Stratification from CTPA and Medical Records: Vascular Graphs Are Not All You Need

Risk stratification for pulmonary embolism (PE) is critical for clinical decision-making. Stratification guidelines are based on patient medical records, parameters measured from computed tomography pulmonary angiography (CTPA), and blood tests. However, blood tests are often missing in routine practice. This work studies whether state-of-the-art models can accurately classify risk stratification from only medical records and biomarkers extracted from CTPA images. We benchmark different approaches to combine medical records and cardiac biomarkers with rich pulmonary vascular information; we add vascular biomarkers to tabular models and apply graph neural networks (GNNs) on the vascular tree's intrinsic graph representation. We use a private dataset (n=353) with uniquely complete data for PE risk stratification. Our results show that, among global features, medical records and cardiac biomarkers are the most significant predictors, while vascular biomarkers do not further improve stratification. Even more surprising, even GNNs on vascular graphs fail to outperform strong tabular baseline on global features. We consider hypotheses, on both models and data, that could explain this suboptimal performance. Our investigation suggests that, counter-intuitively, vascular graphs might hold no discriminative information for PE risk stratification. Code is available from https://github.com/creatis-myriad/GENESIS.

cs.CV↗

arXiv2026

Adaptive Patching Is Harder Than It Looks For Time-Series Forecasting

Adaptive patching is a recent and compelling proposal for time-series Transformers: allocate finer patches where the sequence looks locally informative. This paper asks under what conditions a content-adaptive patching operator should outperform a tuned uniform one. Local heterogeneity alone is not enough: under pointwise forecasting losses, a complex-looking region is not automatically one where finer patching reduces the loss. We model patching as a budgeted bitrate allocation and derive an explicit threshold that a dynamic patching rule must satisfy to beat a well-tuned uniform baseline, then bound the achievable improvement both locally (a quadratic surrogate) and globally (a strong-convexity bound under the model's assumptions). Two structural results follow: without a coupling constraint, scalar local complexity cannot produce a non-uniform optimum under a common loss landscape; and once the backbone is trained to its representation-aware optimum, the alignment gain collapses around a well-tuned uniform patch size. To test these predictions, we run a controlled isolation study on three representative architectures, replacing each adaptive mechanism with a uniform patch-size sweep while keeping the backbone, data, and training protocol fixed. On standard long-horizon forecasting benchmarks, the validation-selected uniform baseline is competitive with the dynamic counterpart, with per-setting effects concentrated near zero and no consistent directional advantage once results are aggregated by dataset. The larger gains we do observe are method- and dataset-specific. Adaptive patching should therefore be evaluated against a tuned uniform baseline; its value depends on whether a cheap and reliable routing signal can identify where finer patches actually reduce forecasting loss.

cs.LG↗

arXiv2026

DSA-CycleGAN: A Domain Shift Aware CycleGAN for Robust Multi-Stain Glomeruli Segmentation

A key challenge in segmentation in digital histopathology is inter- and intra-stain variations as it reduces model performance. Labelling each stain is expensive and time-consuming so methods using stain transfer via CycleGAN, have been developed for training multi-stain segmentation models using labels from a single stain. Nevertheless, CycleGAN tends to introduce noise during translation because of the one-to-many nature of some stain pairs, which conflicts with its cycle consistency loss. To address this, we propose the Domain Shift Aware CycleGAN, which reduces the presence of such noise. Furthermore, we evaluate several advances from the field of machine learning aimed at resolving similar problems and compare their effectiveness against DSA-CycleGAN in the context of multi-stain glomeruli segmentation. Experiments demonstrate that DSA-CycleGAN not only improves segmentation performance in glomeruli segmentation but also outperforms other methods in reducing noise. This is particularly evident when translating between biologically distinct stains. The code is publicly available at https://github.com/zeeshannisar/DSA-CycleGAN.

cs.CV↗

arXiv2025

PRISM: Lightweight Multivariate Time-Series Classification through Symmetric Multi-Resolution Convolutional Layers

Multivariate time series classification supports applications from wearable sensing to biomedical monitoring and demands models that can capture both short-term patterns and multi-scale temporal dependencies. Despite recent advances, Transformer and CNN models often remain computationally heavy and rely on many parameters. This work presents PRISM(Per-channel Resolution Informed Symmetric Module), a lightweight fully convolutional classifier. Operating in a channel-independent manner, in its early stage it applies a set of multi-resolution symmetric convolutional filters. This symmetry enforces structural constraints inspired by linear-phase FIR filters from classical signal processing, effectively halving the number of learnable parameters within the initial layers while preserving the full receptive field. Across the diverse UEA multivariate time-series archive as well as specific benchmarks in human activity recognition, sleep staging, and biomedical signals, PRISM matches or outperforms state-of-the-art CNN and Transformer models while using significantly fewer parameters and markedly lower computational cost. By bringing a principled signal processing prior into a modern neural architecture, PRISM offers an effective and computationally economical solution for multivariate time series classification. Code and data are available at https://github.com/fedezuc/PRISM

cs.LG↗

arXiv2025

HIEGNet: A Heterogenous Graph Neural Network Including the Immune Environment in Glomeruli Classification

Graph Neural Networks (GNNs) have recently been found to excel in histopathology. However, an important histopathological task, where GNNs have not been extensively explored, is the classification of glomeruli health as an important indicator in nephropathology. This task presents unique difficulties, particularly for the graph construction, i.e., the identification of nodes, edges, and informative features. In this work, we propose a pipeline composed of different traditional and machine learning-based computer vision techniques to identify nodes, edges, and their corresponding features to form a heterogeneous graph. We then proceed to propose a novel heterogeneous GNN architecture for glomeruli classification, called HIEGNet, that integrates both glomeruli and their surrounding immune cells. Hence, HIEGNet is able to consider the immune environment of each glomerulus in its classification. Our HIEGNet was trained and tested on a dataset of Whole Slide Images from kidney transplant patients. Experimental results demonstrate that HIEGNet outperforms several baseline models and generalises best between patients among all baseline models. Our implementation is publicly available at https://github.com/nklsKrmnn/HIEGNet.git.

cs.LG↗

arXiv2024

Resource Efficient Multi-stain Kidney Glomeruli Segmentation via Self-supervision

Semantic segmentation under domain shift remains a fundamental challenge in computer vision, particularly when labelled training data is scarce. This challenge is particularly exemplified in histopathology image analysis, where the same tissue structures must be segmented across images captured under different imaging conditions (stains), each representing a distinct visual domain. Traditional deep learning methods like UNet require extensive labels, which is both costly and time-consuming, particularly when dealing with multiple domains (or stains). To mitigate this, various unsupervised domain adaptation based methods such as UDAGAN have been proposed, which reduce the need for labels by requiring only one (source) stain to be labelled. Nonetheless, obtaining source stain labels can still be challenging. This article shows that through self-supervised pre-training -- including SimCLR, BYOL, and a novel approach, HR-CS-CO -- the performance of these segmentation methods (UNet, and UDAGAN) can be retained even with 95% fewer labels. Notably, with self-supervised pre-training and using only 5% labels, the performance drops are minimal: 5.9% for UNet and 6.2% for UDAGAN, averaged over all stains, compared to their respective fully supervised counterparts (without pre-training, using 100% labels). Furthermore, these findings are shown to generalise beyond their training distribution to public benchmark datasets. Implementations and pre-trained models are publicly available \href{https://github.com/zeeshannisar/resource-effecient-multi-stain-kidney-glomeruli-segmentation.git}{online}.

cs.CV↗

arXiv2022

HistoStarGAN: A Unified Approach to Stain Normalisation, Stain Transfer and Stain Invariant Segmentation in Renal Histopathology

Virtual stain transfer is a promising area of research in Computational Pathology, which has a great potential to alleviate important limitations when applying deeplearningbased solutions such as lack of annotations and sensitivity to a domain shift. However, in the literature, the majority of virtual staining approaches are trained for a specific staining or stain combination, and their extension to unseen stainings requires the acquisition of additional data and training. In this paper, we propose HistoStarGAN, a unified framework that performs stain transfer between multiple stainings, stain normalisation and stain invariant segmentation, all in one inference of the model. We demonstrate the generalisation abilities of the proposed solution to perform diverse stain transfer and accurate stain invariant segmentation over numerous unseen stainings, which is the first such demonstration in the field. Moreover, the pre-trained HistoStar-GAN model can serve as a synthetic data generator, which paves the way for the use of fully annotated synthetic image data to improve the training of deep learning-based algorithms. To illustrate the capabilities of our approach, as well as the potential risks in the microscopy domain, inspired by applications in natural images, we generated KidneyArtPathology, a fully annotated artificial image dataset for renal pathology.

cs.CV↗

arXiv2022

Towards Measuring Domain Shift in Histopathological Stain Translation in an Unsupervised Manner

Domain shift in digital histopathology can occur when different stains or scanners are used, during stain translation, etc. A deep neural network trained on source data may not generalise well to data that has undergone some domain shift. An important step towards being robust to domain shift is the ability to detect and measure it. This article demonstrates that the PixelCNN and domain shift metric can be used to detect and quantify domain shift in digital histopathology, and they demonstrate a strong correlation with generalisation performance. These findings pave the way for a mechanism to infer the average performance of a model (trained on source data) on unseen and unlabelled target data.

eess.IV↗

arXiv2021

An automatic framework for fusing information from differently stained consecutive digital whole slide images: A case study in renal histology

Objective: This article presents an automatic image processing framework to extract quantitative high-level information describing the micro-environment of glomeruli in consecutive whole slide images (WSIs) processed with different staining modalities of patients with chronic kidney rejection after kidney transplantation. Methods: This four-step framework consists of: 1) approximate rigid registration, 2) cell and anatomical structure segmentation 3) fusion of information from different stainings using a newly developed registration algorithm 4) feature extraction. Results: Each step of the framework is validated independently both quantitatively and qualitatively by pathologists. An illustration of the different types of features that can be extracted is presented. Conclusion: The proposed generic framework allows for the analysis of the micro-environment surrounding large structures that can be segmented (either manually or automatically). It is independent of the segmentation approach and is therefore applicable to a variety of biomedical research questions. Significance: Chronic tissue remodelling processes after kidney transplantation can result in interstitial fibrosis and tubular atrophy (IFTA) and glomerulosclerosis. This pipeline provides tools to quantitatively analyse, in the same spatial context, information from different consecutive WSIs and help researchers understand the complex underlying mechanisms leading to IFTA and glomerulosclerosis.

cs.CV↗

arXiv2021

Self adversarial attack as an augmentation method for immunohistochemical stainings

It has been shown that unpaired image-to-image translation methods constrained by cycle-consistency hide the information necessary for accurate input reconstruction as imperceptible noise. We demonstrate that, when applied to histopathology data, this hidden noise appears to be related to stain specific features and show that this is the case with two immunohistochemical stainings during translation to Periodic acid- Schiff (PAS), a histochemical staining method commonly applied in renal pathology. Moreover, by perturbing this hidden information, the translation models produce different, plausible outputs. We demonstrate that this property can be used as an augmentation method which, in a case of supervised glomeruli segmentation, leads to improved performance.

cs.CV↗

arXiv2020

Towards Histopathological Stain Invariance by Unsupervised Domain Augmentation using Generative Adversarial Networks

The application of supervised deep learning methods in digital pathology is limited due to their sensitivity to domain shift. Digital Pathology is an area prone to high variability due to many sources, including the common practice of evaluating several consecutive tissue sections stained with different staining protocols. Obtaining labels for each stain is very expensive and time consuming as it requires a high level of domain knowledge. In this article, we propose an unsupervised augmentation approach based on adversarial image-to-image translation, which facilitates the training of stain invariant supervised convolutional neural networks. By training the network on one commonly used staining modality and applying it to images that include corresponding, but differently stained, tissue structures, the presented method demonstrates significant improvements over other approaches. These benefits are illustrated in the problem of glomeruli segmentation in seven different staining modalities (PAS, Jones H&E, CD68, Sirius Red, CD34, H&E and CD3) and analysis of the learned representations demonstrate their stain invariance.

eess.IV↗

arXiv2018

Strategies for Training Stain Invariant CNNs

An important part of Digital Pathology is the analysis of multiple digitised whole slide images from differently stained tissue sections. It is common practice to mount consecutive sections containing corresponding microscopic structures on glass slides, and to stain them differently to highlight specific tissue components. These multiple staining modalities result in very different images but include a significant amount of consistent image information. Deep learning approaches have recently been proposed to analyse these images in order to automatically identify objects of interest for pathologists. These supervised approaches require a vast amount of annotations, which are difficult and expensive to acquire---a problem that is multiplied with multiple stainings. This article presents several training strategies that make progress towards stain invariant networks. By training the network on one commonly used staining modality and applying it to images that include corresponding but differently stained tissue structures, the presented unsupervised strategies demonstrate significant improvements over standard training strategies.

cs.CV↗

arXiv2016

Retrieving and Ranking Similar Questions from Question-Answer Archives Using Topic Modelling and Topic Distribution Regression

Presented herein is a novel model for similar question ranking within collaborative question answer platforms. The presented approach integrates a regression stage to relate topics derived from questions to those derived from question-answer pairs. This helps to avoid problems caused by the differences in vocabulary used within questions and answers, and the tendency for questions to be shorter than answers. The performance of the model is shown to outperform translation methods and topic modelling (without regression) on several real-world datasets.

cs.IR↗