Mona A. Sheikh

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A C++ Class Supporting Adjoint-State Methods by Marco U. Enriquez The adjoint-state method is widely used for computing gradients in simulation-driven optimization problems. The adjoint-state evolution equation requires access to the entire history of the system states. There are instances, however, where the required state for the adjoint-state evolution(More)
Compressive sensing microarrays (CSMs) are DNA-based sensors that operate using group testing and compressive sensing (CS) principles. In contrast to conventional DNA microarrays, in which each genetic sensor is designed to respond to a single target, in a CSM, each sensor responds to a set of targets. We study the problem of designing CSMs that(More)
We propose a signal recovery method using Belief Propagation (BP) for nonlinear Compressed Sensing (CS) and demonstrate its utility in DNA array decoding. In a CS DNA microarray, the array spots identify DNA sequences that are shared between multiple organisms, thereby reducing the number of spots required. The sparsity in DNA sequence commonality between(More)
In this paper we propose a new blind, error-free detection algorithm for watermarking in transform domains. The detection scheme uses linear decoding techniques from the theory of compressive sensing (CS), whose central idea is that a small number of non-adaptive linear projections of a sparse signal are sufficient for error-free reconstruction of the(More)
—Compressive Sensing Microarrays (CSM) are DNA-based sensors that operate using group testing and compres-sive sensing (CS) principles. In contrast to conventional DNA microarrays, in which each genetic sensor is designed to respond to a single target, in a CSM each sensor responds to a group of targets. We study the problem of designing CS probes that(More)
Early identification of pathogens is essential for limiting development of therapy-resistant pathogens and mitigating infectious disease outbreaks. Most bacterial detection schemes use target-specific probes to differentiate pathogen species, creating time and cost inefficiencies in identifying newly discovered organisms. We present a novel universal(More)
+ Equal contribution * To whom correspondence should be addressed (yaniv@wi.mit.edu). CC-BY 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not. ABSTRACT Hemifacial microsomia (HFM) is the second most common facial anomaly after cleft lip and palate. The phenotype(More)
Spike sorting refers to the detection and classification of electric potentials (spikes) from multi-neuron recordings, a difficult but essential pre-processing step before neural data can be analyzed for information content. While several spike sorting algorithms have been proposed, our goal is to determine the ultimate limits of spike classification and to(More)