TransCaller: An End-to-end Accelerated Transformer-based Nanopore Basecaller on GPUs
Di Xu, Peiheng Zhang, Yang Zhang, Shunchen Shi, and Xueqi Li. 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2023)
Accelerating k-Shape Time Series Clustering Algorithm Using GPU
Xun Wang , Ruibao Song , Junmin Xiao , Tong Li , Xueqi Li (correspondence). Acceptance. Transactions on Parallel and Distributed Systems
CiteDOI
Shunchen Shi
Shunchen Shi is currently a Ph.D. student under the supervision of Prof. Ninghui Sun. He received his B.E. degree in 2022 from University of Electronic Science and Technology of China (UESTC), Chengdu, China. After that, he joined the Institute of Computing Technology, Chinese Academy of Sciences (ICT, CAS)
Crescent: A GPU-based Targeted Nanopore Sequence Selector
Tong Li, Xueqi Li (correspondence), Yewen Li, Ruibao Song, Xun Wang (correspondence) IEEE International Conference on Bioinformatics & Biomedicine (BIBM22)
CiteDOI
[Grant] URSA has been supported by the National Key R&D Program of China
URSA has been supported by the National Key R&D Program of China. The main topic is Algorithm-Architecture-Technology Cross-layer Optimations for Domain-Specific Accelerators.
[Paper] One paper has been accepted by HPCA'23
Our work “NvWa: Enhancing Sequence Alignment Accelerator Throughput via Hardware Scheduling” has been accepted by The 29th IEEE International Symposium on High-Performance Computer Architecture (HPCA 2023)! Congrats to Yewen!
[Paper] One collaborative paper has been accepted by SC'22
One collaborative paper "AlphaSparse: Generating High-Performance SpMV Codes Directly from Sparse Matrices" has been accepted by SC'22. Congrats to Zhen!
MetaZip: A High-throughput and Efficient Accelerator for DEFLATE
Ruihao Gao, Xueqi Li (correspondence), Yewen Li, Xun Wang, Guangming Tan The 59th Design Automation Conference (DAC-59)
CiteDOI
PIM-Align: A Processing-in-Memory Architecture for FM-index Search Algorithm
Xueqi Li, Guangming Tan, Ninghui SunJournal of Computer Science and Technology (JCST) (IF: 1.506)
CiteDOI
MEDAL: Scalable DIMM based Near Data Processing Accelerator for DNA Seeding Algorithm
Wenqin Huangfu, Xueqi Li, Shuangchen Li, Xing Hu, Peng Gu, Yuan Xie The 52nd IEEE/ACM International Symposium on Microarchitecture (MICRO-52)
CiteDOI