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Spatial transcriptomics (ST) has revolutionized biomedical research by enabling high resolution gene expression profiling within tissues. However, the high cost and scarcity of high resolution ST data remain significant challenges. We…
As a medium for cold data storage, DNA stands out as it promises significant gains in storage capacity and lifetime. However, it comes with its own data processing challenges to overcome. Constrained codes over the DNA alphabet…
In the current era, DeoxyriboNucleic Acid (DNA) based data storage emerges as an intriguing approach, garnering substantial academic interest and investigation. This paper introduces a novel deep joint source-channel coding (DJSCC) scheme…
High-density DNA arrays, used to monitor gene expression at a genomic scale, have produced vast amounts of information which require the development of efficient computational methods to analyze them. The important first step is to extract…
Simultaneous sparse approximation is a generalization of the standard sparse approximation, for simultaneously representing a set of signals using a common sparsity model. Generalizing the compressive sensing concept to the simultaneous…
Predicting the behavior of complex systems is critical in many scientific and engineering domains, and hinges on the model's ability to capture their underlying dynamics. Existing methods encode the intrinsic dynamics of high-dimensional…
Recent image classification algorithms, by learning deep features from large-scale datasets, have achieved significantly better results comparing to the classic feature-based approaches. However, there are still various challenges of image…
The pursuit algorithms integrated in multi-layer convolutional sparse coding (ML-CSC) can interpret the convolutional neural networks (CNNs). However, many current state-of-art (SOTA) pursuit algorithms require multiple iterations to…
Large pre-trained transformers have revolutionized artificial intelligence across various domains, and fine-tuning remains the dominant approach for adapting these models to downstream tasks due to the cost of training from scratch.…
The Jaccard similarity index is an important measure of the overlap of two sets, widely used in machine learning, computational genomics, information retrieval, and many other areas. We design and implement SimilarityAtScale, the first…
A key recent advance in face recognition models a test face image as a sparse linear combination of a set of training face images. The resulting sparse representations have been shown to possess robustness against a variety of distortions…
In high dimensional settings, sparse structures are crucial for efficiency, both in term of memory, computation and performance. It is customary to consider $\ell_1$ penalty to enforce sparsity in such scenarios. Sparsity enforcing methods,…
Sparse Subspace Clustering (SSC) is a state-of-the-art method for clustering high-dimensional data points lying in a union of low-dimensional subspaces. However, while $\ell_1$ optimization-based SSC algorithms suffer from high…
Training neural networks sequentially in time to approximate solution fields of time-dependent partial differential equations can be beneficial for preserving causality and other physics properties; however, the sequential-in-time training…
Genetic algorithms are a well-known method for tackling the problem of variable selection. As they are non-parametric and can use a large variety of fitness functions, they are well-suited as a variable selection wrapper that can be applied…
Corrupted data sets containing noisy or missing observations are prevalent in various contemporary applications such as economics, finance and bioinformatics. Despite the recent methodological and algorithmic advances in high-dimensional…
Transformer architectures have achieved remarkable success across language, vision, and multimodal tasks, and there is growing demand for them to address in-context compositional learning tasks. In these tasks, models solve the target…
Many modern big data applications feature large scale in both numbers of responses and predictors. Better statistical efficiency and scientific insights can be enabled by understanding the large-scale response-predictor association network…
Convolutional Sparse Coding (CSC) has been attracting more and more attention in recent years, for making full use of image global correlation to improve performance on various computer vision applications. However, very few studies focus…
DNA is an attractive medium for digital data storage. When data is stored on DNA, errors occur, which makes error-correcting coding techniques critical for reliable DNA data storage. To reduce the errors, a common technique is to include…