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The emerging field of DNA storage employs strands of DNA bases (A/T/C/G) as a storage medium for digital information to enable massive density and durability. The DNA storage pipeline includes: (1) encoding the raw data into sequences of…
Segment Anything Model (SAM) is an advanced foundational model for image segmentation, which is gradually being applied to remote sensing images (RSIs). Due to the domain gap between RSIs and natural images, traditional methods typically…
Searching for similar genomic sequences is an essential and fundamental step in biomedical research and an overwhelming majority of genomic analyses. State-of-the-art computational methods performing such comparisons fail to cope with the…
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…
High throughput sequencing of RNA (RNA-Seq) can provide us with millions of short fragments of RNA transcripts from a sample. How to better recover the original RNA transcripts from those fragments (RNA-Seq assembly) is still a difficult…
Coherent optics has demonstrated significant potential as a viable solution for achieving 100 Gb/s and higher speeds in single-wavelength passive optical networks (PON). However, upstream burst-mode coherent detection is a major challenge…
Repetitive DNA (repeats) poses significant challenges for accurate and efficient genome assembly and sequence alignment. This is particularly true for metagenomic data, where genome dynamics such as horizontal gene transfer, gene…
The problem of fast items retrieval from a fixed collection is often encountered in most computer science areas, from operating system components to databases and user interfaces. We present an approach based on hash tables that focuses on…
The Segment Anything Model (SAM) has garnered significant attention for its versatile segmentation abilities and intuitive prompt-based interface. However, its application in medical imaging presents challenges, requiring either substantial…
An applied problem facing all areas of data science is harmonizing data sources. Joining data from multiple origins with unmapped and only partially overlapping features is a prerequisite to developing and testing robust, generalizable…
Realizing the 6G vision of artificial intelligence (AI) and integrated sensing and communication (ISAC) critically requires large-scale real-world channel datasets for channel modeling and data-driven AI models. However, traditional…
Recursive query processing has experienced a recent resurgence, as a result of its use in many modern application domains, including data integration, graph analytics, security, program analysis, networking and decision making. Due to the…
Communication systems at millimeter-wave (mmW) and sub-terahertz frequencies are of increasing interest for future high-data rate networks. One critical challenge faced by phased array systems at these high frequencies is the efficiency of…
The Segment Anything Model (SAM) family has become a widely adopted vision foundation model, but its ability to control segmentation granularity remains limited. Users often need to refine results manually - by adding more prompts or…
Understanding genetic variation, e.g., through mutations, in organisms is crucial to unravel their effects on the environment and human health. A fundamental characterization can be obtained by solving the haplotype assembly problem, which…
Next-generation particle accelerators demand advanced beam-diagnostic capabilities to ensure high performance, operational reliability, and sustainable machine operation. Increasing beam intensities and stored energies make the precise…
Quantifying how hard it is to build a molecular graph matters for biosignature detection, chemical complexity, and cheminformatics. We present an exact, scalable algorithm to compute the molecular assembly index (MA) which prioritizes the…
Unsupervised binary representation allows fast data retrieval without any annotations, enabling practical application like fast person re-identification and multimedia retrieval. It is argued that conflicts in binary space are one of the…
The de novo assembly of large, complex genomes is a significant challenge with currently available DNA sequencing technology. While many de novo assembly software packages are available, comparatively little attention has been paid to…
Traditional radar sensing typically involves matched filtering between the received signal and the shape of the transmitted pulse. Under the confinement of classic sampling theorem this requires that the received signals must first be…