CUPA-T2*: Covariance-Aware Uncertainty Propagation and Alignment for T2* Mapping in Accelerated MRI

Parallel imaging techniques reduce magnetic resonance imaging (MRI) scan time but image quality degrades as the acceleration factor increases. In clinical practice, conservative acceleration factors are chosen because no mechanism exists to automatically assess the diagnostic quality of undersampled reconstructions. This work introduces a general framework for pixel-wise uncertainty quantification in parallel MRI reconstructions, enabling automatic identification of unreliable regions without access to any ground-truth reference image. Our method integrates conformal quantile regression with image reconstruction methods to estimate statistically rigorous pixel-wise uncertainty intervals. We trained and evaluated our model on Cartesian undersampled brain and knee data obtained from the fastMRI dataset using acceleration factors ranging from 2 to 10. An end-to-end Variational Network was used for image reconstruction. Quantitative experiments demonstrate strong agreement between predicted uncertainty maps and true reconstruction error. Using our method, the corresponding Pearson correlation coefficient was higher than 90% at acceleration levels at and above four-fold; whereas it dropped to less than 70% when the uncertainty was computed using a simpler a heuristic notion (magnitude of the residual). Qualitative examples further show the uncertainty maps based on quantile regression capture the magnitude and spatial distribution of reconstruction errors across acceleration factors, with regions of elevated uncertainty aligning with pathologies and artifacts. The proposed framework enables evaluation of reconstruction quality without access to fully-sampled ground-truth reference images. It represents a step toward adaptive MRI acquisition protocols that may be able to dynamically balance scan time and diagnostic reliability.

We propose a novel Bayesian framework for joint image reconstruction and uncertainty quantification from compressed sensing magnetic resonance imaging data. The problem is formulated as a linear inverse problem, where prior distributions are assigned to the unknown image parameters. Specifically, the image is assumed to be sparse in a given transform domain. We develop a general framework applicable to any sparsifying transform and demonstrate its performance using (1) a total variation transform based on image spatial gradients and (2) a wavelet-domain transform. Bayesian inference is performed using a split-and-augmented Gibbs sampler, while the resulting non-differentiable conditional distributions are efficiently sampled using a proximal Markov chain Monte Carlo method. The proposed algorithms are validated on both single-coil and multi-coil datasets using various k-space sampling patterns and acceleration factors. The results demonstrate that the proposed Bayesian methods consistently outperform their optimisation-based counterparts in image reconstruction while providing uncertainty estimates for the reconstructed images. Furthermore, the estimated uncertainty maps show a strong correlation with the true reconstruction errors and substantially outperformed deep learning-based uncertainty estimation methods.

Diffusion posterior samplers for accelerated MRI can reconstruct accurately yet still disagree on the acquired k-space across samples, placing posterior variability on coefficients the scanner has already measured. We identify this measured-subspace leakage as a physical-admissibility failure. Under a hard-constraint model it violates the measurement constraint and inflates the reported uncertainty with disagreement about coefficients the scanner has already determined. To quantify this leakage, we introduce complementary measured- and unmeasured-subspace k-space dispersion metrics (MSD/USD). We then present Measured-Subspace Consistency (MSC), a training-free terminal correction that wraps any compatible image-space posterior sampler with a standard multi-coil consistency lock. The ideal lock follows classical range/null-space data consistency. Our contribution is to repurpose it as a black-box posterior audit and correction rather than a new reconstructor or learned sampler. Theoretically, we prove that the ideal transform confines pairwise sample differences to the MRI null space and bound the residual cross-subspace coupling left by practical sensitivity-weighted implementations. Across six base samplers and two MRI anatomies, including out-of-distribution transfer where a knee prior reconstructs brain, MSC substantially reduces measured-subspace dispersion for Soft samplers (a median 16.5x reduction for DPS across five brain contrasts, up to ~29x), while preserving unmeasured-subspace diversity and acting as a near-identity map for Consistent ones. Furthermore, MSC maintains or modestly improves PSNR/SSIM, with no retraining, retuning, or significant computational overhead.