Adaptive Compressed Sensing for Support Recovery of Structured Sparse Sets

This paper investigates the problem of recovering the support of structured signals via adaptive compressive sensing. We examine several classes of structured support sets, and characterize the fundamental limits of accurately recovering such sets through compressive measurements, while simultaneously providing adaptive support recovery protocols that perform near optimally for these classes. We show that by adaptively designing the sensing matrix we can attain significant performance gains over non-adaptive protocols. These gains arise from the fact that adaptive sensing can: (i) better mitigate the effects of noise, and (ii) better capitalize on the structure of the support sets.Comment: to appear in IEEE Transactions on Information Theor

Compressed sensing with near-field THz radiation

We demonstrate a form of near-field terahertz (THz) imaging that is compatible with compressed sensing algorithms. By spatially photomodulating THz pulses using a set of shaped binary optical patterns and employing a 6-μm-thick silicon wafer, we are able to reconstruct THz images of an object placed on the exit interface of the wafer. A single-element detector is used to measure the electric field amplitude of transmitted THz radiation for each projected pattern, with the ultra-thin wafer allowing us to access the THz evanescent near fields to achieve a spatial resolution of ∼9  μm∼9  μm

Ensemble Analysis of Adaptive Compressed Genome Sequencing Strategies

Acquiring genomes at single-cell resolution has many applications such as in the study of microbiota. However, deep sequencing and assembly of all of millions of cells in a sample is prohibitively costly. A property that can come to rescue is that deep sequencing of every cell should not be necessary to capture all distinct genomes, as the majority of cells are biological replicates. Biologically important samples are often sparse in that sense. In this paper, we propose an adaptive compressed method, also known as distilled sensing, to capture all distinct genomes in a sparse microbial community with reduced sequencing effort. As opposed to group testing in which the number of distinct events is often constant and sparsity is equivalent to rarity of an event, sparsity in our case means scarcity of distinct events in comparison to the data size. Previously, we introduced the problem and proposed a distilled sensing solution based on the breadth first search strategy. We simulated the whole process which constrained our ability to study the behavior of the algorithm for the entire ensemble due to its computational intensity. In this paper, we modify our previous breadth first search strategy and introduce the depth first search strategy. Instead of simulating the entire process, which is intractable for a large number of experiments, we provide a dynamic programming algorithm to analyze the behavior of the method for the entire ensemble. The ensemble analysis algorithm recursively calculates the probability of capturing every distinct genome and also the expected total sequenced nucleotides for a given population profile. Our results suggest that the expected total sequenced nucleotides grows proportional to $\log$ of the number of cells and proportional linearly with the number of distinct genomes

Info-Greedy sequential adaptive compressed sensing

We present an information-theoretic framework for sequential adaptive compressed sensing, Info-Greedy Sensing, where measurements are chosen to maximize the extracted information conditioned on the previous measurements. We show that the widely used bisection approach is Info-Greedy for a family of $k$-sparse signals by connecting compressed sensing and blackbox complexity of sequential query algorithms, and present Info-Greedy algorithms for Gaussian and Gaussian Mixture Model (GMM) signals, as well as ways to design sparse Info-Greedy measurements. Numerical examples demonstrate the good performance of the proposed algorithms using simulated and real data: Info-Greedy Sensing shows significant improvement over random projection for signals with sparse and low-rank covariance matrices, and adaptivity brings robustness when there is a mismatch between the assumed and the true distributions.Comment: Preliminary results presented at Allerton Conference 2014. To appear in IEEE Journal Selected Topics on Signal Processin