arXiv subjects

Merry P. Mani

Publications and source records attributed to Merry P. Mani.

4 recordsLinked to original sources

arXiv2020

Model-Based Deep Learning for Reconstruction of Joint k-q Under-sampled High Resolution Diffusion MRI

We propose a model-based deep learning architecture for the reconstruction of highly accelerated diffusion magnetic resonance imaging (MRI) that enables high resolution imaging. The proposed reconstruction jointly recovers all the diffusion weighted images in a single step from a joint k-q under-sampled acquisition in a parallel MRI setting. We propose the novel use of a pre-trained denoiser as a regularizer in a model-based reconstruction for the recovery of highly under-sampled data. Specifically, we designed the denoiser based on a general diffusion MRI tissue microstructure model for multi-compartmental modeling. By using a wide range of biologically plausible parameter values for the multi-compartmental microstructure model, we simulated diffusion signal that spans the entire microstructure parameter space. A neural network was trained in an unsupervised manner using an autoencoder to learn the diffusion MRI signal subspace. We employed the autoencoder in a model-based reconstruction and show that the autoencoder provides a strong denoising prior to recover the q-space signal. We show reconstruction results on a simulated brain dataset that shows high acceleration capabilities of the proposed method.

eess.IV↗

arXiv2019

Structured Low-Rank Algorithms: Theory, MR Applications, and Links to Machine Learning

In this survey, we provide a detailed review of recent advances in the recovery of continuous domain multidimensional signals from their few non-uniform (multichannel) measurements using structured low-rank matrix completion formulation. This framework is centered on the fundamental duality between the compactness (e.g., sparsity) of the continuous signal and the rank of a structured matrix, whose entries are functions of the signal. This property enables the reformulation of the signal recovery as a low-rank structured matrix completion, which comes with performance guarantees. We will also review fast algorithms that are comparable in complexity to current compressed sensing methods, which enables the application of the framework to large-scale magnetic resonance (MR) recovery problems. The remarkable flexibility of the formulation can be used to exploit signal properties that are difficult to capture by current sparse and low-rank optimization strategies. We demonstrate the utility of the framework in a wide range of MR imaging (MRI) applications, including highly accelerated imaging, calibration-free acquisition, MR artifact correction, and ungated dynamic MRI.

cs.CV↗

arXiv2019

MoDL-MUSSELS: Model-Based Deep Learning for Multi-Shot Sensitivity Encoded Diffusion MRI

We introduce a model-based deep learning architecture termed MoDL-MUSSELS for the correction of phase errors in multishot diffusion-weighted echo-planar MRI images. The proposed algorithm is a generalization of existing MUSSELS algorithm with similar performance but with significantly reduced computational complexity. In this work, we show that an iterative re-weighted least-squares implementation of MUSSELS alternates between a multichannel filter bank and the enforcement of data consistency. The multichannel filter bank projects the data to the signal subspace thus exploiting the phase relations between shots. Due to the high computational complexity of self-learned filter bank, we propose to replace it with a convolutional neural network (CNN) whose parameters are learned from exemplary data. The proposed CNN is a hybrid model involving a multichannel CNN in the k-space and another CNN in the image space. The k-space CNN exploits the phase relations between the shot images, while the image domain network is used to project the data to an image manifold. The experiments show that the proposed scheme can yield reconstructions that are comparable to state of the art methods while offering several orders of magnitude reduction in run-time.

cs.CV↗

arXiv2019

MoDL: Model Based Deep Learning Architecture for Inverse Problems

We introduce a model-based image reconstruction framework with a convolution neural network (CNN) based regularization prior. The proposed formulation provides a systematic approach for deriving deep architectures for inverse problems with the arbitrary structure. Since the forward model is explicitly accounted for, a smaller network with fewer parameters is sufficient to capture the image information compared to black-box deep learning approaches, thus reducing the demand for training data and training time. Since we rely on end-to-end training, the CNN weights are customized to the forward model, thus offering improved performance over approaches that rely on pre-trained denoisers. The main difference of the framework from existing end-to-end training strategies is the sharing of the network weights across iterations and channels. Our experiments show that the decoupling of the number of iterations from the network complexity offered by this approach provides benefits including lower demand for training data, reduced risk of overfitting, and implementations with significantly reduced memory footprint. We propose to enforce data-consistency by using numerical optimization blocks such as conjugate gradients algorithm within the network; this approach offers faster convergence per iteration, compared to methods that rely on proximal gradients steps to enforce data consistency. Our experiments show that the faster convergence translates to improved performance, especially when the available GPU memory restricts the number of iterations.

cs.CV↗