DeepPV-MRF: End-to-End Partial-Volume Fraction Estimation from MR Fingerprinting Time Series
Abstract: Background: Estimating subvoxel tissue fractions from magnetic resonance fingerprinting (MRF) is challenging. Conventional dictionary matching and segmentation pipelines can propagate errors from intermediate parametric maps into tissue fraction estimates. Purpose: We introduce DeepPV-MRF, a deep learning framework that directly estimates voxel-wise tissue fractions from raw MRF signals. Methods: A cascaded spatial-temporal network was trained on subject-derived Bloch simulations with radial k-space undersampling. The network combines temporal encoding and spatial U-Net refinement to estimate cerebrospinal fluid (CSF), gray matter (GM), and white matter (WM) fractions without intermediate T1/T2 maps. We compared DeepPV-MRF with partial-volume dictionary matching (PV-DM) and pseudoinverse estimation (PV-Pinv) using simulated and in vivo data. Results: DeepPV-MRF outperformed both methods across acquisition settings. In single-shot simulations, CSF/WM/GM mean absolute errors were 0.0418/0.0744/0.0757, versus 0.1281/0.2443/0.2958 for PV-DM and 0.2021/0.2793/0.2630 for PV-Pinv. Corresponding structural similarity values were 0.960/0.916/0.922. In vivo results showed sharper anatomical boundaries and smoother tissue transitions, while cross-shot analysis indicated improved consistency across volunteers. Conclusions: DeepPV-MRF enables accurate and efficient direct tissue fraction estimation from MRF signals, particularly with limited shots. Further validation is needed before clinical deployment.