A case for unlimited watchpoints. - Joseph L. Greathouse; Hongyi Xin; Yixin Luo; Todd M. Austin (ASPLOS, 2012)

EMERALD: Characterization of emerging applications and algorithms for low-power devices. - Chuanjun Zhang; Glenn G. Ko; Jungwook Choi; Shang-nien Tsai; Minje Kim; Abner Guzmán-Rivera; Rob A. Rutenbar; Paris Smaragdis; Mi Sun Park; Vijaykrishnan Narayanan; Hongyi Xin; Onur Mutlu; et al. (ISPASS, 2013)

Linearly compressed pages: a low-complexity, low-latency main memory compression framework. - Gennady Pekhimenko; Vivek Seshadri; Yoongu Kim; Hongyi Xin; Onur Mutlu; Phillip B. Gibbons; Michael A. Kozuch; Todd C. Mowry (MICRO, 2013)

Accelerating read mapping with FastHASH. - Hongyi Xin; Donghyuk Lee; Farhad Hormozdiari; Samihan Yedkar; Onur Mutlu; Can Alkan (BMC Genom., 2013)

Mitigating Prefetcher-Caused Pollution Using Informed Caching Policies for Prefetched Blocks. - Vivek Seshadri; Samihan Yedkar; Hongyi Xin; Onur Mutlu; Phillip B. Gibbons; Michael A. Kozuch; Todd C. Mowry (ACM Trans. Archit. Code Optim., 2014)

Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping. - Hongyi Xin; John Greth; John Emmons; Gennady Pekhimenko; Carl Kingsford; Can Alkan; Onur Mutlu (Bioinform., 2015)

Optimal seed solver: optimizing seed selection in read mapping. - Hongyi Xin; Sunny Nahar; Richard L. Zhu; John Emmons; Gennady Pekhimenko; Carl Kingsford; Can Alkan; Onur Mutlu (Bioinform., 2016)

GateKeeper: Enabling Fast Pre-Alignment in DNA Short Read Mapping with a New Streaming Accelerator Architecture. - Mohammed Alser; Hasan Hassan; Hongyi Xin; Oguz Ergin; Onur Mutlu; Can Alkan (CoRR, 2016)

GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping. - Mohammed Alser; Hasan Hassan; Hongyi Xin; Oguz Ergin; Onur Mutlu; Can Alkan (Bioinform., 2017)

GRIM-Filter: Fast seed location filtering in DNA read mapping using processing-in-memory technologies. - Jeremie S. Kim; Damla Senol Cali; Hongyi Xin; Donghyuk Lee; Saugata Ghose; Mohammed Alser; Hasan Hassan; Oguz Ergin; Can Alkan; Onur Mutlu (BMC Genom., 2018)

Adaptively Accelerating Map-Reduce/Spark with GPUs: A Case Study. - K. R. Jayaram; Anshul Gandhi; Hongyi Xin; Shu Tao (ICAC, 2019)

Context-aware seeds for read mapping. - Hongyi Xin; Mingfu Shao; Carl Kingsford (Algorithms Mol. Biol., 2020)

Artificial-cell-type aware cell-type classification in CITE-seq. - Qiuyu Lian; Hongyi Xin; Jianzhu Ma; Liza Konnikova; Wei Chen 074; Jin Gu; Kong Chen (Bioinform., 2020)

Deep-learning-based prediction of late age-related macular degeneration progression. - Qi Yan 008; Daniel E. Weeks; Hongyi Xin; Anand Swaroop; Emily Y. Chew; Heng Huang; Ying Ding 003; Wei Chen 074 (Nat. Mach. Intell., 2020)

SODA: Detecting COVID-19 in Chest X-Rays With Semi-Supervised Open Set Domain Adaptation. - Jieli Zhou; Baoyu Jing; Zeya Wang; Hongyi Xin; Hanghang Tong (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

TIST: Transcriptome and Histopathological Image Integrative Analysis for Spatial Transcriptomics. - Yiran Shan; Qian Zhang 099; Wenbo Guo 010; Yanhong Wu; Yuxin Miao; Hongyi Xin; Qiuyu Lian; Jin Gu (Genom. Proteom. Bioinform., 2022)

MIRACLE: Multi-task Learning based Interpretable Regulation of Autoimmune Diseases through Common Latent Epigenetics. - Pengcheng Xu; Jinpu Cai; Yulin Gao; Ziqi Rong; Hongyi Xin (CoRR, 2023)

Few-shot classification with task-adaptive semantic feature learning. - Meihong Pan; Hongyi Xin; Chun-Qiu Xia; Hong-Bin Shen (Pattern Recognit., 2023)

L2 Normalization and Geodesic Distance for Enhanced Information Preservation in Visualizing High-dimensional Single-cell Sequencing Data. - Ziqi Rong; Jinpu Cai; Jiahao Qiu; Pengcheng Xu; Lana X. Garmire; Qiuyu Lian; Hongyi Xin (BCB, 2024)

Team YXZ at BioLaySumm: Adapting Large Language Models for Biomedical Lay Summarization. - Jieli Zhou; Cheng Ye; Pengcheng Xu; Hongyi Xin (BioNLP@ACL, 2024)

Semantic-Based Implicit Feature Transform for Few-Shot Classification. - Meihong Pan; Hongyi Xin; Hong-Bin Shen (Int. J. Comput. Vis., 2024)