Hongyi Xin

Most-cited papers

1. 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 +6 more

   2017BMC Genomics213 citations Open access

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2. Linearly compressed pages: A low-complexity, low-latency main memory compression framework

   Gennady Pekhimenko, Vivek Seshadri, Yoongu Kim, Hongyi Xin +4 more

   2013Micro167 citations

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3. Accelerating read mapping with FastHASH

   Hongyi Xin, Donghyuk Lee, Farhad Hormozdiari, Samihan Yedkar +2 more

   2013BMC Genomics153 citations Open access

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4. GateKeeper: a new hardware architecture for accelerating pre‐alignment in DNA short read mapping

   Mohammed Alser, Hasan Hassan, Hongyi Xin, Oğuz Ergin +2 more

   2016Bioinform.127 citations Open access

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5. 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 +3 more

   2015Bioinform.106 citations Open access

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6. Mitigating Prefetcher-Caused Pollution Using Informed Caching Policies for Prefetched Blocks

   Vivek Seshadri, Samihan Yedkar, Hongyi Xin, Onur Mutlu +3 more

   2015ACM Transactions on Architecture and Code Optimization (TACO)65 citations Open access

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7. A case for unlimited watchpoints

   J. Greathouse, Hongyi Xin, Yixin Luo, T. Austin

   2012ASPLOS XVII41 citations

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8. Optimal seed solver: optimizing seed selection in read mapping

   Hongyi Xin, R. L. Zhu, S. Nahar, John Emmons +4 more

   2015Bioinform.39 citations Open access

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9. GRIM-filter: fast seed filtering in read mapping using emerging memory technologies

   Jeremie S. Kim, Damla Şenol, Hongyi Xin, Donghyuk Lee +6 more

   201729 citations

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10. Fast and Accurate Mapping of Complete Genomics Reads

    Donghyuk Lee, Farhad Hormozdiari, Hongyi Xin, Faraz Hach +2 more

    2014Methods14 citations Open access

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11. Sequence Alignment LEAP: A Generalization of the Landau-Vishkin Algorithm with Custom Gap Penalties

    Hongyi Xin, Jeremie S. Kim, S. Nahar, C. Alkan +1 more

    20176 citations

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12. Adaptively Accelerating Map-Reduce/Spark with GPUs: A Case Study

    K. Jayaram, Anshul Gandhi, Hongyi Xin, Shu Tao

    2019International Conference on Automation and Computing5 citations

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13. GateKeeper: Enabling Fast Pre-Alignment in DNA Short Read Mapping with a New Streaming Accelerator Architecture

    Mohammed Alser, Hasan Hassan, Hongyi Xin, Oğuz Ergin +2 more

    2016arXiv.org5 citations

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14. Context-aware seeds for read mapping

    Hongyi Xin, Mingfu Shao, C. Kingsford

    2019Algorithms for Molecular Biology4 citations Open access

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15. EMERALD: Characterization of emerging applications and algorithms for low-power devices

    Chuanjun Zhang, Glenn G. Ko, Jung-Kyu Choi, Shang-nien Tsai +12 more

    2013IEEE International Symposium on Performance Analysis of Systems and Software1 citations

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16. Optimal Seed Solver

    Hongyi Xin

    20150 citations

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17. FastHASH: a new algorithm for fast and comprehensive next-generation sequence mapping

    Hongyi Xin, Donghyuk Lee, Farhad Hormozdiari, C. Alkan +1 more

    20120 citations

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