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Nanopore based sequencing has demonstrated significant potential for the development of fast, accurate, and cost-efficient fingerprinting techniques for next generation molecular detection and sequencing. We propose a specific multi-layered…

Traditional computers with von Neumann architecture are unable to meet the latency and scalability challenges of Deep Neural Network (DNN) workloads. Various DNN accelerators based on Conventional compute Hardware Accelerator (CHA),…

In-memory database query processing frequently involves substantial data transfers between the CPU and memory, leading to inefficiencies due to Von Neumann bottleneck. Processing-in-Memory (PIM) architectures offer a viable solution to…

DNA sequence classification is a fundamental task in computational biology with vast implications for applications such as disease prevention and drug design. Therefore, fast high-quality sequence classifiers are significantly important.…

Deep neural networks (DNNs) have made breakthroughs in various fields including image recognition and language processing. DNNs execute hundreds of millions of multiply-and-accumulate (MAC) operations. To efficiently accelerate such…

Nanopore sequencing technology has the potential to render other sequencing technologies obsolete with its ability to generate long reads and provide portability. However, high error rates of the technology pose a challenge while generating…

The advent of high-throughput sequencing technologies has revolutionized genome analysis by enabling the rapid and cost-effective sequencing of large genomes. Despite these advancements, the increasing complexity and volume of genomic data…

Aligning the entire genome of an organism is a compute-intensive task. Pre-alignment filters substantially reduce computation complexity by filtering potential alignment locations. The base-count filter successfully removes over 68% of the…

Innovations in Next-Generation Sequencing are enabling generation of DNA sequence data at ever faster rates and at very low cost. Large sequencing centers typically employ hundreds of such systems. Such high-throughput and low-cost…

Hand-sized Deoxyribonucleic acid (DNA) sequencing machines are of growing importance in several life sciences fields as their small footprints enable a broader range of use cases than their larger, stationary counterparts. However, as…

Various processing-in-memory (PIM) accelerators based on various devices, micro-architectures, and interfaces have been proposed to accelerate deep neural networks (DNNs). How to deploy DNNs onto PIM-based accelerators is the key to explore…

Convolutional neural networks (CNNs) require high throughput hardware accelerators for real time applications owing to their huge computational cost. Most traditional CNN accelerators rely on single core, linear processing elements (PEs) in…

While graph-based dynamic programming (DP) is a cornerstone of genomics and network analytics, its efficiency is hampered by fundamentally conflicting computational patterns. Matrix-centric DP drives regular, compute-bound network…

In this paper, we propose PIM-LLM, a hybrid architecture developed to accelerate 1-bit large language models (LLMs). PIM-LLM leverages analog processing-in-memory (PIM) architectures and digital systolic arrays to accelerate low-precision…

The computing wall and data movement challenges of deep neural networks (DNNs) have exposed the limitations of conventional CMOS-based DNN accelerators. Furthermore, the deep structure and large model size will make DNNs prohibitive to…

Homomorphic encryption (HE) allows direct computations on encrypted data. Despite numerous research efforts, the practicality of HE schemes remains to be demonstrated. In this regard, the enormous size of ciphertexts involved in HE…

Resistive random access memory (ReRAM)-based processing-in-memory (PIM) architectures have demonstrated great potential to accelerate Deep Neural Network (DNN) training/inference. However, the computational accuracy of analog PIM is…

DNA pattern matching is essential for many widely used bioinformatics applications. Disease diagnosis is one of these applications, since analyzing changes in DNA sequences can increase our understanding of possible genetic diseases. The…

Cryptographic algorithms such as AES-128 and SHA-256 are fundamental to ensuring data security and integrity. Although these algorithms are computationally efficient, their performance is often constrained by the processor-centric…

Nanopore sequencing technologies continue to advance rapidly, offering critical benefits such as real-time analysis, the ability to sequence extremely long DNA fragments (up to millions of bases in a single read), and the option to…