| Review of CRISPR/Cas9 sgRNA design tools Y Cui, J Xu, M Cheng, X Liao, S Peng Interdisciplinary Sciences: Computational Life Sciences 10, 455-465, 2018 | 270 | 2018 |
| Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute B Wang, M Wang, W Zhang, T Xiao, CH Chen, A Wu, F Wu, N Traugh, ... Nature protocols 14 (3), 756-780, 2019 | 264 | 2019 |
| A review of parallel implementations for the Smith–Waterman algorithm Z Xia, Y Cui, A Zhang, T Tang, L Peng, C Huang, C Yang, X Liao Interdisciplinary Sciences: Computational Life Sciences, 1-14, 2021 | 21 | 2021 |
| CRISP-view: a database of functional genetic screens spanning multiple phenotypes Y Cui, X Cheng, Q Chen, B Song, A Chiu, Y Gao, T Dawson, L Chao, ... Nucleic acids research 49 (D1), D848-D854, 2021 | 18 | 2021 |
| mBWA: A massively parallel sequence reads aligner Y Cui, X Liao, X Zhu, B Wang, S Peng 8th International Conference on Practical Applications of Computational …, 2014 | 16 | 2014 |
| OffScan: a universal and fast CRISPR off-target sites detection tool Y Cui, X Liao, S Peng, T Tang, C Huang, C Yang BMC genomics 21, 1-6, 2020 | 15 | 2020 |
| A cpu/mic collaborated parallel framework for gromacs on tianhe-2 supercomputer S Peng, Y Cui, S Yang, W Su, X Zhang, T Zhang, W Liu, XM Zhao IEEE/ACM transactions on computational biology and bioinformatics 16 (2 …, 2017 | 11 | 2017 |
| Efficient computation of motif discovery on intel many integrated core (mic) architecture S Peng, M Cheng, K Huang, YB Cui, Z Zhang, R Guo, X Zhang, S Yang, ... BMC bioinformatics 19, 101-110, 2018 | 9 | 2018 |
| MinimapR: A parallel alignment tool for the analysis of large-scale third-generation sequencing data Z Wang, Y Cui, S Peng, X Liao, Y Yu Computational Biology and Chemistry 99, 107735, 2022 | 7 | 2022 |
| B-MIC: an ultrafast three-level parallel sequence aligner using MIC Y Cui, X Liao, X Zhu, B Wang, S Peng Interdisciplinary Sciences: Computational Life Sciences 8, 28-34, 2016 | 6 | 2016 |
| Large-scale neo-heterogeneous programming and optimization of SNP detection on Tianhe-2 Y Cui, X Liao, S Peng, Y Lu, C Yang, B Wang, C Wu High Performance Computing: 30th International Conference, ISC High …, 2015 | 5 | 2015 |
| mSNP: A massively parallel algorithm for large-scale SNP detection Y Cui, S Peng, Y Lu, X Zhu, B Wang, C Wu, X Liao IEEE Transactions on Parallel and Distributed Systems 29 (11), 2557-2567, 2018 | 4 | 2018 |
| VISPR-online: a web-based interactive tool to visualize CRISPR screening experiments Y Cui, Z Wang, J Köster, X Liao, S Peng, T Tang, C Huang, C Yang BMC bioinformatics 22 (1), 344, 2021 | 2 | 2021 |
| Large-scale parallel alignment algorithm for smrt reads Z Xia, Y Cui, A Zhang, P Zhang, S Long, T Tang, L Peng, C Huang, ... International Conference on Algorithms and Architectures for Parallel …, 2021 | 1 | 2021 |
| A Hybrid Parallel Strategy Based on String Graph Theory to Improve De Novo DNA Assembly on the TianHe-2 Supercomputer F Zhang, X Liao, S Peng, Y Cui, B Wang, X Zhu, J Liu Interdisciplinary Sciences: Computational Life Sciences 8, 169-176, 2016 | 1 | 2016 |
| A massively parallel computational method of reading index files for SOAPsnv X Zhu, S Peng, S Liu, Y Cui, X Gu, M Gao, L Fang, X Fang Interdisciplinary Sciences: Computational Life Sciences 7, 397-404, 2015 | 1 | 2015 |
| Neo-hetergeneous Programming and Parallelized Optimization of a Human Genome Re-sequencing Analysis Software Pipeline on TH-2 Supercomputer X Liao, S Peng, Y Lu, Y Cui, C Wu, H Wang, J Wen Supercomputing Frontiers and Innovations 2 (1), 73-83, 2015 | 1 | 2015 |
| SNCL: a supernode OpenCL implementation for hybrid computing arrays T Tang, K Lu, L Peng, Y Cui, J Fang, C Huang, R Wang, C Yang, Y Guo The Journal of Supercomputing, 1-23, 2023 | | 2023 |
| DrugProtKGE: Weakly Supervised Knowledge Graph Embedding for Highly-Effective Drug-Protein Interaction Representation Y Qiu, S Wang, X Yang, X Qiu, C Wu, Y Cui, C Yang 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2023 | | 2023 |
| MTMap: A Long-Read Alignment Tool based on Multi-Core DSPs Y Guo, X An, S Li, Y Cui, P Zhang, B Long, S Li 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2023 | | 2023 |
