Related papers: PANDA: Processing-in-MRAM Accelerated De Bruijn Gr…

Data movement between the main memory and the processor is a key contributor to execution time and energy consumption in memory-intensive applications. This data movement bottleneck can be alleviated using Processing-in-Memory (PiM). One…

Applications of Binary Neural Networks (BNNs) are promising for embedded systems with hard constraints on computing power. Contrary to conventional neural networks with the floating-point datatype, BNNs use binarized weights and activations…

Processing-using-DRAM has been proposed for a limited set of basic operations (i.e., logic operations, addition). However, in order to enable full adoption of processing-using-DRAM, it is necessary to provide support for more complex…

3D point cloud neural networks have significantly enhanced the perceptual capabilities of resource-limited mobile intelligent systems. However, despite the transformative impact, the point cloud algorithm suffers from substantial memory…

Processing-In-Memory (PIM) is a novel approach that augments existing DRAM memory chips with lightweight logic. By allowing to offload computations to the PIM system, this architecture allows for circumventing the data-bottleneck problem…

Transcriptome assembly from RNA-Seq reads is an active area of bioinformatics research. The ever-declining cost and the increasing depth of RNA-Seq have provided unprecedented opportunities to better identify expressed transcripts. However,…

Sequence alignment is a fundamental process in computational biology which identifies regions of similarity in biological sequences. With the exponential growth in the volume of data in bioinformatics databases, the time, processing power,…

Processing-using-DRAM has been proposed for a limited set of basic operations (i.e., logic operations, addition). However, in order to enable the full adoption of processing-using-DRAM, it is necessary to provide support for more complex…

Today's systems are overwhelmingly designed to move data to computation. This design choice goes directly against at least three key trends in systems that cause performance, scalability and energy bottlenecks: (1) data access from memory…

Our ISCA 2015 paper provides a new programmable processing-in-memory (PIM) architecture and system design that can accelerate key data-intensive applications, with a focus on graph processing workloads. Our major idea was to completely…

Graph processing requires irregular, fine-grained random access patterns incompatible with contemporary off-chip memory architecture, leading to inefficient data access. This inefficiency makes graph processing an extremely memory-bound…

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…

This paper is focused in designing an efficient on-line algorithm to reconstruct a DNA sequence and search the genes in it, we assume that the segment have no mutation or reading error, the algorithm is based on de Bruijn Graph for…

Motivation: Seed location filtering is critical in DNA read mapping, a process where billions of DNA fragments (reads) sampled from a donor are mapped onto a reference genome to identify genomic variants of the donor. State-of-the-art read…

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…

Genome assembly from the high-throughput sequencing (HTS) reads is a fundamental yet challenging computational problem. An intrinsic challenge is the uncertainty caused by the widespread repetitive elements. Here we get around the…

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…

Accelerating end-to-end inference of transformer-based large language models (LLMs) is a critical component of AI services in datacenters. However, diverse compute characteristics of end-to-end LLM inference present challenges as previously…

Convolutional neural networks (CNNs) play a key role in deep learning applications. However, the large storage overheads and the substantial computation cost of CNNs are problematic in hardware accelerators. Computing-in-memory (CIM)…

Developing kernels for Processing-In-Memory (PIM) platforms poses unique challenges in data management and parallel programming on limited processing units. Although software development kits (SDKs) for PIM, such as the UPMEM SDK, provide…