medical image processing developers

Abstract: Solving severely ill-posed imaging inverse problems requires recovering image structures that are unobservable or weakly constrained by the measurements. Diffusion models provide expressive learned priors for inferring such missing information, while posterior sampling incorporates measurement consistency along the reverse process. Standard diffusion posterior samplers, however, rely on instantaneous measurement-aware estimates, without explicitly exploiting information carried by previous posterior corrections. We introduce Consecutive Posterior Fusion Denoising Diffusion Null-Space Models (CPF-DDNM), an inference-time strategy that fuses consecutive measurement-aware estimates to improve the diffusive recovery of unobservable image structures, without requiring retraining or additional denoiser evaluations. We instantiate this principle within DDNM, whose range/null-space decomposition reveals that consecutive fusion preserves the measurement-determined component while acting exclusively on the prior-driven null-space estimate. We thus provide a geometric interpretation of CPF-DDNM and a local error analysis that characterizes the optimal time-dependent fusion coefficient, including the extrapolative regime. Experiments on sparse-view and simulated low-dose computed tomography, as well as medical image super-resolution, show consistent improvements over DDNM and competitive performance against diffusion-based inverse solvers.

Abstract: Multi-shell diffusion MRI (dMRI) unlocks more expressive microstructural modeling than single-shell scans, yet its longer acquisition time hinders deployment in large-scale cohorts and time-constrained clinical settings. Synthesizing an unobserved shell from a single-shell input is fundamentally ill-posed and further complicated by protocol mismatch, where source and target gradient direction sets may not align. We propose DTI-SHNet, a single-to-multi-shell synthesis framework that operates in the real symmetric spherical harmonics (SH) coefficient domain and performs spatially aware volumetric regression. Given a source shell, we estimate diffusion tensor imaging (DTI) and use direction-agnostic parametric maps along with a brain mask as conditioning priors to guide a 3D U-Net regressor from source-shell to target-shell SH coefficients. To couple coefficient accuracy with signal fidelity, we introduce a signal consistency regularization that reconstructs signals on randomly sampled canonical directions from predicted coefficients and enforces agreement in the signal domain. Experiments on UK Biobank and Cam-CAN data for b=1000 to b=2000 dMRI synthesis show that DTI-SHNet achieves competitive visual quality compared to advanced methods, while better preserving downstream diffusion measures. Our code is available at https://github.com/xiaovhua/dti-shnet.

Abstract: The larval stage of Drosophila melanogaster is a compact model system for neuroscience whose genetic toolkit allows fluorescent markers to be expressed in defined neural populations, and comparing the resulting expression patterns across animals requires every brain to be registered into a shared anatomical reference space. Existing pipelines for this task are predominantly based on classical registration methods, which perform a new optimization for each volume, often require per-case parameter tuning, and can take minutes per brain, limiting their use as a routine preprocessing step. We present a trained deep registration pipeline that deformably aligns a larval brain to a reference template in a single forward pass at high spatial resolution, on volumes that hold several times more voxels than those learned 3D registration is normally reported on, together with the preprocessing and anatomy-anchored evaluation pipeline required to apply it. Against eleven classical and seven further learned baselines on a held-out collection acquired with different acquisition and quality strata, the proposed pipeline is the most accurate, improving on the strongest classical baseline by 23 percentage points of anatomical landmark-local mutual information. It registers a volume one to two orders of magnitude faster than the classical deformable pipelines, and it retains more of its accuracy than any other method as acquisition quality degrades. The network, its trained weights and the full pipeline are released as the open-source deep larval brain registration framework: https://github.com/agentdr1/deep-larval-brain-reg