Hongyi Xin
Hongyi Xin
Shanghai Jiao Tong University
Verified email at cmu.edu - Homepage
Title
Cited by
Cited by
Year
Linearly compressed pages: a low-complexity, low-latency main memory compression framework
G Pekhimenko, V Seshadri, Y Kim, H Xin, O Mutlu, PB Gibbons, ...
Proceedings of the 46th Annual IEEE/ACM International Symposium on …, 2013
1372013
Accelerating read mapping with FastHASH
H Xin, D Lee, F Hormozdiari, S Yedkar, O Mutlu, C Alkan
BMC genomics 14 (S1), S13, 2013
942013
Mitigating prefetcher-caused pollution using informed caching policies for prefetched blocks
V Seshadri, S Yedkar, H Xin, O Mutlu, PB Gibbons, MA Kozuch, TC Mowry
ACM Transactions on Architecture and Code Optimization (TACO) 11 (4), 1-22, 2015
562015
GRIM-Filter: Fast seed location filtering in DNA read mapping using processing-in-memory technologies
JS Kim, DS Cali, H Xin, D Lee, S Ghose, M Alser, H Hassan, O Ergin, ...
BMC genomics 19 (2), 23-40, 2018
542018
GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping
M Alser, H Hassan, H Xin, O Ergin, O Mutlu, C Alkan
Bioinformatics 33 (21), 3355-3363, 2017
522017
Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping
H Xin, J Greth, J Emmons, G Pekhimenko, C Kingsford, C Alkan, O Mutlu
Bioinformatics 31 (10), 1553-1560, 2015
402015
A case for unlimited watchpoints
JL Greathouse, H Xin, Y Luo, T Austin
ACM SIGPLAN Notices 47 (4), 159-172, 2012
352012
Optimal seed solver: optimizing seed selection in read mapping
H Xin, S Nahar, R Zhu, J Emmons, G Pekhimenko, C Kingsford, C Alkan, ...
Bioinformatics 32 (11), 1632-1642, 2016
252016
A Bayesian mixture model for clustering droplet-based single-cell transcriptomic data from population studies
Z Sun, L Chen, H Xin, Y Jiang, Q Huang, AR Cillo, T Tabib, JK Kolls, ...
Nature communications 10 (1), 1-10, 2019
202019
Fast and accurate mapping of Complete Genomics reads
D Lee, F Hormozdiari, H Xin, F Hach, O Mutlu, C Alkan
Methods 79, 3-10, 2015
132015
Deep-learning-based prediction of late age-related macular degeneration progression
Q Yan, DE Weeks, H Xin, A Swaroop, EY Chew, H Huang, Y Ding, ...
Nature Machine Intelligence 2 (2), 141-150, 2020
112020
GRIM-Filter: fast seed filtering in read mapping using emerging memory technologies
JS Kim, D Senol, H Xin, D Lee, S Ghose, M Alser, H Hassan, O Ergin, ...
arXiv preprint arXiv:1708.04329, 2017
82017
Genome read in-memory (GRIM) filter: Fast location filtering in DNA read mapping using emerging memory technologies
J Kim, D Senol, H Xin, D Lee, M Alser, H Hassan, O Ergin, C Alkan, ...
Pacific Symp. Biocomputing, 2017
72017
GateKeeper: Enabling Fast Pre-Alignment in DNA Short Read Mapping with a New Streaming Accelerator Architecture
M Alser, H Hassan, H Xin, O Ergin, O Mutlu, C Alkan
arXiv preprint arXiv:1604.01789, 2016
42016
BREM-SC: a bayesian random effects mixture model for joint clustering single cell multi-omics data
X Wang, Z Sun, Y Zhang, Z Xu, H Xin, H Huang, RH Duerr, K Chen, ...
Nucleic Acids Research 48 (11), 5814-5824, 2020
22020
Adaptively Accelerating Map-Reduce/Spark with GPUs: A Case Study
KR Jayaram, A Gandhi, H Xin, S Tao
2019 IEEE International Conference on Autonomic Computing (ICAC), 105-114, 2019
22019
FastHASH: A new GPU-friendly algorithm for fast and comprehensive next-generation sequence mapping
H Xin, D Lee, F Hormozdiari, C Alkan, O Mutlu
BMC Genomics, 2013
22013
GMM-Demux: sample demultiplexing, multiplet detection, experiment planning, and novel cell-type verification in single cell sequencing
H Xin, Q Lian, Y Jiang, J Luo, X Wang, C Erb, Z Xu, X Zhang, ...
Genome biology 21 (1), 1-35, 2020
12020
Artificial-Cell-Type Aware Cell Type Classification in CITE-seq
Q Lian, H Xin, J Ma, L Konnikova, W Chen, J Gu, K Chen
bioRxiv, 2020
12020
LEAP: A Generalization of the Landau-Vishkin Algorithm with Custom Gap Penalties
H Xin, J Kim, S Nahar, C Kingsford, C Alkan, O Mutlu
BioRxiv, 133157, 2017
12017
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Articles 1–20