Related papers: ClaPIM: Scalable Sequence CLAssification using Pro…

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…

In this paper, we present GradPIM, a processing-in-memory architecture which accelerates parameter updates of deep neural networks training. As one of processing-in-memory techniques that could be realized in the near future, we propose an…

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…

Processing-in-memory (PIM) architectures are emerging to reduce data movement in data-intensive applications. These architectures seek to exploit the same physical devices for both information storage and logic, thereby dwarfing the…

Low-cost, high-throughput DNA and RNA sequencing (HTS) data is the backbone of the life sciences. Genome sequencing is now becoming a part of Predictive, Preventive, Personalized, and Participatory (termed 'P4') medicine. All genomic data…

Processing in-memory (PIM) is promising to accelerate neural networks (NNs) because it minimizes data movement and provides large computational parallelism. Similar to machine learning accelerators, application mapping, which determines the…

Genome analysis has revolutionized fields such as personalized medicine and forensics. Modern sequencing machines generate vast amounts of fragmented strings of genome data called reads. The alignment of these reads into a complete DNA…

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…

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…

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…

Database applications are increasingly bottlenecked by memory bandwidth and latency due to the memory wall and the limited scalability of DRAM. Join queries, central to analytical workloads, require intensive memory access and are…

Bit-serial Processing-In-Memory (PIM) is an attractive paradigm for accelerator architectures, for parallel workloads such as Deep Learning (DL), because of its capability to achieve massive data parallelism at a low area overhead and…

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…

DNA sequence alignment is an important workload in computational genomics. Reference-guided DNA assembly involves aligning many read sequences against candidate locations in a long reference genome. To reduce the computational load of this…

Motivation: Seed 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. Read mappers 1) quickly…

Processing-in-memory (PIM) seeks to eliminate computation/memory data transfer using devices that support both storage and logic. Stateful logic techniques such as IMPLY, MAGIC and FELIX can perform logic gates within memristive crossbar…

With the widespread use of deep neural networks(DNNs) in intelligent systems, DNN accelerators with high performance and energy efficiency are greatly demanded. As one of the feasible processing-in-memory(PIM) architectures,…

Compute in-memory (CIM) is a promising technique that minimizes data transport, the primary performance bottleneck and energy cost of most data intensive applications. This has found wide-spread adoption in accelerating neural networks for…

The widespread integration of embedded systems across various industries has facilitated seamless connectivity among devices and bolstered computational capabilities. Despite their extensive applications, embedded systems encounter…

Spurred by widening gap between data processing speed and data communication speed in Von-Neumann computing architectures, some bioinformatic applications have harnessed the computational power of Processing-in-Memory (PIM) platforms.…