Processing-using-DRAM (PUD) is a processing-in-memory (PIM) approach that uses a
DRAM array's massive internal parallelism to execute very-wide (eg, 16,384-262,144-bit …

Decoder-only Transformer models such as Generative Pre-trained Transformers (GPT) have
demonstrated exceptional performance in text generation by autoregressively predicting the …

High-throughput sequencing (HTS) technologies have revolutionized the field of genomics,
enabling rapid and cost-effective genome analysis for various applications. However, the …

Genome analysis is a critical tool in medical and bioscience research, clinical diagnostics
and treatment, and disease control and prevention. Seed and extension-based alignment is …

Nanopore sequencing generates noisy electrical signals that need to be converted into a
standard string of DNA nucleotide bases using a computational step called basecalling. The …

Privacy has rapidly become a major concern/design consideration. Homomorphic
Encryption (HE) and Garbled Circuits (GC) are privacy-preserving techniques that support …

Nanopore sequencers generate electrical raw signals in real-time while sequencing long
genomic strands. These raw signals can be analyzed as they are generated, providing an …

Pairwise sequence alignment is one of the most fundamental and computationally intensive
steps in genome analysis. With the improving costs and throughput of third-generation …

The accurate simulation and performance assessment of Near-Data Accelerators (NDAccs)
is a complex challenge as it must consider the operation of the entire processing system, the …

Motivation: Read mapping is a computationally expensive process and a major bottleneck in
genomics analyses. The performance of read mapping is mainly limited by the performance …