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On behalf of the organizing committee, we would like to welcome you to the 2017 International Symposium on Biomedical Imaging (ISBI'17) and we would like to acknowledge the Wurundjeri people, original owners of the Kulin lands on which the conference is taking place. We pay respects to the Elders past and present. Since 2002, ISBI has been bringing together world experts from the biomedical imaging...
We propose a structured low rank matrix completion algorithm to recover a time series of images consisting of linear combination of exponential parameters at every pixel, from undersampled Fourier measurements. The spatial smoothness of these parameters is exploited along with the exponential structure of the time series at every pixel, to derive an annihilation relation in the k − t domain. This...
MRI parameter quantification has diverse applications, but likelihood-based methods typically require nonconvex optimization due to nonlinear signal models. To avoid expensive grid searches used in prior works, we propose to learn a nonlinear estimator from simulated training examples and (approximate) kernel ridge regression. As proof of concept, we apply kernel-based estimation to quantify six parameters...
Registration involving one or more images containing pathologies is challenging, as standard image similarity measures and spatial transforms cannot account for common changes due to pathologies. Low-rank/Sparse (LRS) decomposition removes pathologies prior to registration; however, LRS is memory-demanding and slow, which limits its use on larger data sets. Additionally, LRS blurs normal tissue regions,...
Compressed sensing (CS) enables significant reduction of MR acquisition time with performance guarantee. However, computational complexity of CS is usually expensive. To address this, here we propose a novel deep residual learning algorithm to reconstruct MR images from sparsely sampled k-space data. In particular, based on the observation that coherent aliasing artifacts from downsampled data has...
High-dimensional signals, including dynamic magnetic resonance (dMR) images, often lie on low dimensional manifold. While many current dynamic magnetic resonance imaging (dMRI) reconstruction methods rely on priors which promote low-rank and sparsity, this paper proposes a novel manifold-based framework, we term M-MRI, for dMRI reconstruction from highly undersampled k-space data. Images in dMRI are...
We designed a complete acquisition-reconstruction framework to reduce the radiation dosage in 3D scanning transmission electron microscopy (STEM). Projection measurements are acquired by randomly scanning a subset of pixels at every tilt-view (i.e., random-beam STEM or “RB-STEM”). High-quality images are then recovered from the randomly downsampled measurements through a regularized tomographic reconstruction...
Single molecule localization microscopy has made great improvements in spatial resolution achieving performance beyond the diffraction limit by sequentially activating and imaging small subsets of molecules. Here, we present an algorithm designed for high-density molecule localization which is of a major importance in order to improve the temporal resolution of such microscopy techniques. We formulate...
In this work, we introduce an original strategy to apply the Compressed Sensing (CS) framework to a super-resolution Structured Illumination Microscopy (SIM) technique. We first define a framework for direct domain CS, that exploits the sparsity of fluorescence microscopy images in the Fourier domain. We then propose an application of this method to a fast 4-images SIM technique, which allows to reconstruct...
Microscopic analysis of neuronal cell morphology is required in many studies in neurobiology. The development of computational methods for this purpose is an ongoing challenge and includes solving some of the fundamental computer vision problems such as detecting and grouping sometimes very noisy line-like image structures. Advancements in the field are impeded by the complexity and immense diversity...
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