Related papers: Processing-in-memory for genomics workloads

As data-intensive applications increasingly strain conventional computing systems, processing-in-memory (PIM) has emerged as a promising paradigm to alleviate the memory wall by minimizing data transfer between memory and processing units.…

Poor DRAM technology scaling over the course of many years has caused DRAM-based main memory to increasingly become a larger system bottleneck. A major reason for the bottleneck is that data stored within DRAM must be moved across a…

Bulk-bitwise processing-in-memory (PIM), where large bitwise operations are performed in parallel by the memory array itself, is an emerging form of computation with the potential to mitigate the memory wall problem. This paper examines the…

In modern computer architectures, the performance of many memory-bound workloads (e.g., machine learning, graph processing, databases) is limited by the data movement bottleneck that emerges when transferring large amounts of data between…

Decoder-only Transformer models such as GPT have demonstrated exceptional performance in text generation, by autoregressively predicting the next token. However, the efficacy of running GPT on current hardware systems is bounded by low…

The performance of today's in-memory indexes is bottlenecked by the memory latency/bandwidth wall. Processing-in-memory (PIM) is an emerging approach that potentially mitigates this bottleneck, by enabling low-latency memory access whose…

Digital processing-in-memory (PIM) architectures are rapidly emerging to overcome the memory-wall bottleneck by integrating logic within memory elements. Such architectures provide vast computational power within the memory itself in the…

During genomics life science research, the data volume of whole genomics and life science algorithm is going bigger and bigger, which is calculated as TB, PB or EB etc. The key problem will be how to store and analyze the data with…

Large biological datasets are being produced at a rapid pace and create substantial storage challenges, particularly in the domain of high-throughput sequencing (HTS). Most approaches currently used to store HTS data are either unable to…

Processing-in-memory (PIM) architectures have demonstrated great potential in accelerating numerous deep learning tasks. Particularly, resistive random-access memory (RRAM) devices provide a promising hardware substrate to build PIM…

Processing-in-DRAM (DRAM-PIM) has emerged as a promising technology for accelerating memory-intensive operations in modern applications, such as Large Language Models (LLMs). Despite its potential, current software stacks for DRAM-PIM face…

Sequence alignment is a memory bound computation whose performance in modern systems is limited by the memory bandwidth bottleneck. Processing-in-memory architectures alleviate this bottleneck by providing the memory with computing…

Bulk-bitwise processing-in-memory (PIM), an emerging computational paradigm utilizing memory arrays as computational units, has been shown to benefit database applications. This paper demonstrates how GROUP-BY and JOIN, database operations…

Large Language Models (LLMs) have become essential in a variety of applications due to their advanced language understanding and generation capabilities. However, their computational and memory requirements pose significant challenges to…

High-throughput sequencing (HTS) is revolutionizing biological research by enabling scientists to quickly and cheaply query variation at a genomic scale. Despite the increasing ease of obtaining such data, using these data effectively still…

Processing-in-memory (PIM) architectures have seen an increase in popularity recently, as the high internal bandwidth available within 3D-stacked memory provides greater incentive to move some computation into the logic layer of the memory.…

DNA sequencing is the physical/biochemical process of identifying the location of the four bases (Adenine, Guanine, Cytosine, Thymine) in a DNA strand. As semiconductor technology revolutionized computing, modern DNA sequencing technology…

In-DRAM Processing-In-Memory (DRAM-PIM) has emerged as a promising approach to accelerate memory-intensive workloads by mitigating data transfer overhead between DRAM and the host processor. Bit-serial DRAM-PIM architectures, further…

PIM architectures aim to reduce data transfer costs between processors and memory by integrating processing units within memory layers. Prior PIM architectures have shown potential to improve energy efficiency and performance. However, such…

Processing-in-memory (PIM) has emerged as an enabler for the energy-efficient and high-performance acceleration of deep learning (DL) workloads. Resistive random-access memory (ReRAM) is one of the most promising technologies to implement…