arXiv subjects

Thomas Kröncke

Publications and source records attributed to Thomas Kröncke.

6 recordsLinked to original sources

arXiv2026

Inverse Bayesian Inference for Extracting Lesion Dynamics from Longitudinal Spectral CT

Longitudinal medical imaging captures temporal evolution of lesions, yet extracting the underlying dynamical parameters governing this evolution remains challenging. We propose an inverse Bayesian framework for inferring lesion dynamics from longitudinal spectral CT. We decompose spectral feature ($x$) evolution into three components: \begin{equation*} \frac{dx_i}{dt} = A_i x_i + B \cdot n + C \cdot Δx_{\text{sat}} \end{equation*} where $A_i$ captures intrinsic dynamics (lesion-autonomous evolution), $B$ captures local environment tumour burden (organ tumour burden through satellite count coupling), and $C$ captures environment/satellite state change (i.e., whether surrounding lesions move similarly or not). We demonstrate the framework on photon-counting NSCLC CT data from metastases, recovering distinct dynamical regimes: lung lesions exhibit significant satellite count coupling ($B=-0.34$, $p<0.05$) suggesting competitive dynamics, while liver lesions show synergistic satellite behaviour coupling ($C\approx+1.0$, $p<0.05$). Synthetic validation confirms parameter recovery, and cross-coupling analysis validates that our method detects non-zero coupling when present. This work establishes inverse dynamical inference as a principled methodology for extracting interpretable parameters from longitudinal imaging, moving beyond static feature extraction toward mechanistic characterisation of lesion behaviour. The code and data are available at: https://github.com/lukasf98/inverse-bayesian-inference

cs.CV↗

arXiv2026

Bridging MRI and PET physiology: Untangling complementarity through orthogonal representations

Multimodal imaging analysis often relies on joint latent representations, yet these approaches rarely define what information is shared versus modality-specific. Clarifying this distinction is clinically relevant, as it delineates the irreducible contribution of each modality and informs rational acquisition strategies. We propose a subspace decomposition framework that reframes multimodal fusion as a problem of orthogonal subspace separation rather than translation. We decompose Prostate-Specific Membrane Antigen (PSMA) PET uptake into an MRI-explainable physiological envelope and an orthogonal residual reflecting signal components not expressible within the MRI feature manifold. Using multiparametric MRI, we train an intensity-based, non-spatial implicit neural representation (INR) to map MRI feature vectors to PET uptake. We introduce a projection-based regularization using singular value decomposition to penalize residual components lying within the span of the MRI feature manifold. This enforces mathematical orthogonality between tissue-level physiological properties (structure, diffusion, perfusion) and intracellular PSMA expression. Tested on 13 prostate cancer patients, the model demonstrates that residual components spanned by MRI features are absorbed into the learned envelope, while the orthogonal residual is largest in tumour regions. This indicates that PSMA PET contains signal components not recoverable from MRI-derived physiological descriptors. The resulting decomposition provides a structured characterization of modality complementarity grounded in representation geometry rather than image translation.

cs.CV↗

arXiv2025

Technical recommendation on multiplex MR elastography for tomographic mapping of abdominal stiffness with a focus on the pancreas and pancreatic ductal adenocarcinoma

Objectives: MR elastography (MRE) offers valuable mechanical tissue characterization, however, in deep abdominal organs like the pancreas conventional single-driver, single-frequency approaches often fail. This study evaluates whether multiplex MRE using multiple drivers and vibration frequencies can overcome these limitations. Methods: This study used single-shot spin-echo MRE in 18 healthy volunteers targeting the liver, pancreas, kidneys, and spleen. Each healthy volunteer underwent 16 MRE examinations with different sets of four vibration frequencies (30-60 Hz) and four driver combinations, and an additional null experiment without vibrations. Further, a cohort of 14 patients with pancreatic ductal adenocarcinoma (PDAC) were retrospectively assessed. The quality of shear-wave fields and stiffness maps was assessed by displacement amplitudes and image sharpness. Results: In healthy volunteers, abdominal coverage with displacement amplitudes above the pre-determined noise level of 4 μm varied between MRE configurations: 24.2% ([0.0%-56.2%], single-driver, 60 Hz), 66.9% ([24.8%-97.7%], single-driver, 30-60 Hz), 70.2% ([0.0%-92.5%], multi-driver, 60 Hz) and 99.9% ([89.4%-100%], multi-driver, 30-60 Hz). In the pancreas, >60% coverage was achieved in all subjects using four drivers and multiple frequencies. This was achieved in only 2/18 subjects using single-driver/single-frequency MRE. Patients with PDAC had 99.1% [91.4%-100%] coverage in the pancreas and 96.3% [63.1%-100%] abdominal coverage (multi-driver, 30-60 Hz). Conclusion: MRE with four drivers and multiple vibration frequencies between 30-60 Hz enables tomographic mapping of tissue stiffness across the entire abdomen, including the pancreas. Multiplex MRE offers a promising approach for generating detailed images of abdominal stiffness, potentially enhancing clinical diagnostics for abdominal and pancreatic diseases.

physics.med-ph↗

arXiv2024

MRSegmentator: Multi-Modality Segmentation of 40 Classes in MRI and CT

Purpose: To develop and evaluate a deep learning model for multi-organ segmentation of MRI scans. Materials and Methods: The model was trained on 1,200 manually annotated 3D axial MRI scans from the UK Biobank, 221 in-house MRI scans, and 1228 CT scans from the TotalSegmentator dataset. A human-in-the-loop annotation workflow was employed, leveraging cross-modality transfer learning from an existing CT segmentation model to segment 40 anatomical structures. The annotation process began with a model based on transfer learning between CT and MR, which was iteratively refined based on manual corrections to predicted segmentations. The model's performance was evaluated on MRI examinations obtained from the German National Cohort (NAKO) study (n=900) from the AMOS22 dataset (n=60) and from the TotalSegmentator-MRI test data (n=29). The Dice Similarity Coefficient (DSC) and Hausdorff Distance (HD) were used to assess segmentation quality, stratified by organ and scan type. The model and its weights will be open-sourced. Results: MRSegmentator demonstrated high accuracy for well-defined organs (lungs: DSC 0.96, heart: DSC 0.94) and organs with anatomic variability (liver: DSC 0.96, kidneys: DSC 0.95). Smaller structures showed lower accuracy (portal/splenic veins: DSC 0.64, adrenal glands: DSC 0.69). On external validation using NAKO data, mean DSC ranged from 0.85 $\pm$ 0.08 for T2-HASTE to 0.91 $\pm$ 0.05 for in-phase sequences. The model generalized well to CT, achieving mean DSC of 0.84 $\pm$ 0.11 on AMOS CT data. Conclusion: MRSegmentator accurately segments 40 anatomical structures in MRI across diverse datasets and imaging protocols, with additional generalizability to CT images. This open-source model will provide a valuable tool for automated multi-organ segmentation in medical imaging research. It can be downloaded from https://github.com/hhaentze/MRSegmentator.

eess.IV↗

arXiv2021

An Uncertainty-Aware, Shareable and Transparent Neural Network Architecture for Brain-Age Modeling

The deviation between chronological age and age predicted from neuroimaging data has been identified as a sensitive risk-marker of cross-disorder brain changes, growing into a cornerstone of biological age-research. However, Machine Learning models underlying the field do not consider uncertainty, thereby confounding results with training data density and variability. Also, existing models are commonly based on homogeneous training sets, often not independently validated, and cannot be shared due to data protection issues. Here, we introduce an uncertainty-aware, shareable, and transparent Monte-Carlo Dropout Composite-Quantile-Regression (MCCQR) Neural Network trained on N=10,691 datasets from the German National Cohort. The MCCQR model provides robust, distribution-free uncertainty quantification in high-dimensional neuroimaging data, achieving lower error rates compared to existing models across ten recruitment centers and in three independent validation samples (N=4,004). In two examples, we demonstrate that it prevents spurious associations and increases power to detect accelerated brain-aging. We make the pre-trained model publicly available.

cs.LG↗

arXiv2021

Predicting brain-age from raw T 1 -weighted Magnetic Resonance Imaging data using 3D Convolutional Neural Networks

Age prediction based on Magnetic Resonance Imaging (MRI) data of the brain is a biomarker to quantify the progress of brain diseases and aging. Current approaches rely on preparing the data with multiple preprocessing steps, such as registering voxels to a standardized brain atlas, which yields a significant computational overhead, hampers widespread usage and results in the predicted brain-age to be sensitive to preprocessing parameters. Here we describe a 3D Convolutional Neural Network (CNN) based on the ResNet architecture being trained on raw, non-registered T$_ 1$-weighted MRI data of N=10,691 samples from the German National Cohort and additionally applied and validated in N=2,173 samples from three independent studies using transfer learning. For comparison, state-of-the-art models using preprocessed neuroimaging data are trained and validated on the same samples. The 3D CNN using raw neuroimaging data predicts age with a mean average deviation of 2.84 years, outperforming the state-of-the-art brain-age models using preprocessed data. Since our approach is invariant to preprocessing software and parameter choices, it enables faster, more robust and more accurate brain-age modeling.

eess.IV↗