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ORCIDKai Ye 0001
Person information
- affiliation: Xi'an Jiaotong University, School of Electronics and Information Engineering, China
- affiliation: First Affiliated Hospital of Xi'an Jiaotong University, Genome Institute, China
- affiliation (2012): Washington University in St. Louis, MO, USA
- affiliation (2009): European Bioinformatics Institute, Cambridge, UK
- affiliation (PhD 2008): Leiden University, Netherlands
- affiliation (former): Wuhan University, China
Other persons with the same name
- Kai Ye — disambiguation page
- Kai Ye 0002
![[0000-0002-8728-1719]](https://dblp.org/img/orcid-mark.12x12.png "0000-0002-8728-1719")
— University of Pittsburgh, Department of Electrical and Computer Engineering, PA, USA (and 1 more) - Kai Ye 0003 — University of Science and Technology of China, State Key Laboratory of Fire Science, Hefei, China
- Kai Ye 0004 — Shenzhen University, Computer Vision Institute, School of Computer Science and Software Engineering, China
- Kai Ye 0005 — Xiamen University, School of Informatics, China (and 1 more)
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2020 – today
- 2024
[j25]Jiang Hu, Zhuo Wang, Fan Liang, Shanlin Liu, Kai Ye, De-Peng Wang:
NextPolish2: A Repeat-aware Polishing Tool for Genomes Assembled Using HiFi Long Reads. Genom. Proteom. Bioinform. 22(1) (2024)- [j24]Xiaofei Yang, Gaoyang Zheng, Peng Jia, Songbo Wang, Kai Ye:
Pindel-TD: A Tandem Duplication Detector Based on A Pattern Growth Approach. Genom. Proteom. Bioinform. 22(1) (2024) - [j23]Peng Jia, Xuanhao Yang, Xiaofei Yang, Tingjie Wang, Yu Xu, Kai Ye:
MSIsensor-RNA: Microsatellite Instability Detection for Bulk and Single-cell Gene Expression Data. Genom. Proteom. Bioinform. 22(3) (2024) - 2023
- [j22]Jiadong Lin, Peng Jia, Songbo Wang, Walter A. Kosters, Kai Ye:
Comparison and benchmark of structural variants detected from long read and long-read assembly. Briefings Bioinform. 24(4) (2023) - [j21]Xuhan Liu, Kai Ye, Herman W. T. van Vlijmen, Adriaan P. IJzerman, Gerard J. P. van Westen:
DrugEx v3: scaffold-constrained drug design with graph transformer-based reinforcement learning. J. Cheminformatics 15(1): 24 (2023) - 2022
- [j20]Bo Wang, Xiaofei Yang, Yanyan Jia, Yu Xu, Peng Jia, Ningxin Dang, Songbo Wang, Tun Xu, Xixi Zhao, Shenghan Gao, Quanbin Dong, Kai Ye:
High-quality Arabidopsis thaliana Genome Assembly with Nanopore and HiFi Long Reads. Genom. Proteom. Bioinform. 20(1): 4-13 (2022) - [j19]Wan-Ping Lee, Qihui Zhu, Xiaofei Yang, Silvia Liu, Eliza Cerveira, Mallory Ryan, Adam Mil-Homens, Lauren Bellfy, Kai Ye, Charles Lee, Chengsheng Zhang:
JAX-CNV: A Whole-genome Sequencing-based Algorithm for Copy Number Detection at Clinical Grade Level. Genom. Proteom. Bioinform. 20(6): 1197-1206 (2022) - [j18]Jialong Shi, Jianyong Sun, Qingfu Zhang, Kai Ye:
Homotopic Convex Transformation: A New Landscape Smoothing Method for the Traveling Salesman Problem. IEEE Trans. Cybern. 52(1): 495-507 (2022) - 2021
- [j17]Xuhan Liu, Kai Ye, Herman W. T. van Vlijmen, Michael T. M. Emmerich, Adriaan P. IJzerman, Gerard J. P. van Westen:
DrugEx v2: de novo design of drug molecules by Pareto-based multi-objective reinforcement learning in polypharmacology. J. Cheminformatics 13(1): 85 (2021) - [c2]Rundong Li, Pinghui Wang, Jiongli Zhu, Junzhou Zhao, Jia Di, Xiaofei Yang, Kai Ye:
Building Fast and Compact Sketches for Approximately Multi-Set Multi-Membership Querying. SIGMOD Conference 2021: 1077-1089 - [i1]Ang Jia, Ming Fan, Xi Xu, Di Cui, Wenying Wei, Zijiang Yang, Kai Ye, Ting Liu:
From Innovations to Prospects: What Is Hidden Behind Cryptocurrencies? CoRR abs/2103.08924 (2021) - 2020
- [j16]Peng Jia, Xiaofei Yang, Li Guo, Bowen Liu, Jiadong Lin, Hao Liang, Jianyong Sun, Chengsheng Zhang, Kai Ye:
MSIsensor-pro: Fast, Accurate, and Matched-normal-sample-free Detection of Microsatellite Instability. Genom. Proteom. Bioinform. 18(1): 65-71 (2020) - [j15]Xiaofei Yang, Tun Xu, Peng Jia, Han Xia, Li Guo, Lei Zhang, Kai Ye:
Transportation, germs, culture: a dynamic graph model of COVID-19 outbreak. Quant. Biol. 8(3): 238-244 (2020) - [c1]Ang Jia, Ming Fan, Xi Xu, Di Cui, Wenying Wei, Zijiang Yang, Kai Ye, Ting Liu:
From Innovations to Prospects: What Is Hidden Behind Cryptocurrencies? MSR 2020: 288-299
2010 – 2019
- 2019
- [j14]Chen Cao, Lauren Mak, Guangxu Jin, Paul Gordon, Kai Ye, Quan Long:
PRESM: personalized reference editor for somatic mutation discovery in cancer genomics. Bioinform. 35(9): 1445-1452 (2019) - [j13]Bowen Liu, Xiaofei Yang, Tingjie Wang, Jiadong Lin, Yongyong Kang, Peng Jia, Kai Ye:
MEpurity: estimating tumor purity using DNA methylation data. Bioinform. 35(24): 5298-5300 (2019) - [j12]Li Guo, Kai Ye:
Mapping Genome Variants Sheds Light on Genetic and Phenotypic Differentiation in Chinese. Genom. Proteom. Bioinform. 17(3): 226-228 (2019) - [j11]Xuhan Liu, Kai Ye, Herman W. T. van Vlijmen, Adriaan P. IJzerman, Gerard J. P. van Westen:
An exploration strategy improves the diversity of de novo ligands using deep reinforcement learning: a case for the adenosine A2A receptor. J. Cheminformatics 11(1): 35:1-35:16 (2019) - [j10]Jianyong Sun, Hu Zhang, Aimin Zhou, Qingfu Zhang, Ke Zhang, Zhenbiao Tu, Kai Ye:
Learning From a Stream of Nonstationary and Dependent Data in Multiobjective Evolutionary Optimization. IEEE Trans. Evol. Comput. 23(4): 541-555 (2019) - 2017
- [j9]Matthew A. Wyczalkowski, Kristine M. Wylie, Song Cao, Michael D. McLellan, Jennifer Flynn, Mo Huang, Kai Ye, Xian Fan, Ken Chen, Michael C. Wendl, Li Ding:
BreakPoint Surveyor: a pipeline for structural variant visualization. Bioinform. 33(19): 3121-3122 (2017) - 2016
- [j8]M. Kroon, Eric-Wubbo Lameijer, N. Lakenberg, Jayne Y. Hehir-Kwa, D. T. Thung, P. Eline Slagboom, Joost N. Kok, Kai Ye:
Detecting dispersed duplications in high-throughput sequencing data using a database-free approach. Bioinform. 32(4): 505-510 (2016) - [j7]Yu Xue, Eric-Wubbo Lameijer, Kai Ye, Kunlin Zhang, Suhua Chang, Xiaoyue Wang, Jianmin Wu, Ge Gao, Fangqing Zhao, Jian Li, Chunsheng Han, Shuhua Xu, Jing-Fa Xiao, Xuerui Yang, Xiaomin Ying, Xuegong Zhang, Wei-Hua Chen, Yun Liu, Zhang Zhang, Kun Huang, Jun Yu:
Precision Medicine: What Challenges Are We Facing? Genom. Proteom. Bioinform. 14(5): 253-261 (2016) - 2014
- [j6]Beifang Niu, Kai Ye, Qunyuan Zhang, Charles Lu, Mingchao Xie, Michael D. McLellan, Michael C. Wendl, Li Ding:
MSIsensor: microsatellite instability detection using paired tumor-normal sequence data. Bioinform. 30(7): 1015-1016 (2014) - 2012
- [j5]Yanju Zhang, Eric-Wubbo Lameijer, Peter A. C. 't Hoen, Zemin Ning, P. Eline Slagboom, Kai Ye:
PASSion: a pattern growth algorithm-based pipeline for splice junction detection in paired-end RNA-Seq data. Bioinform. 28(4): 479-486 (2012)
2000 – 2009
- 2009
- [j4]Kai Ye, Marcel H. Schulz, Quan Long, Rolf Apweiler, Zemin Ning:
Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads. Bioinform. 25(21): 2865-2871 (2009) - 2008
- [j3]Kai Ye, K. Anton Feenstra, Jaap Heringa, Adriaan P. IJzerman, Elena Marchiori:
Multi-RELIEF: a method to recognize specificity determining residues from multiple sequence alignments using a Machine-Learning approach for feature weighting. Bioinform. 24(1): 18-25 (2008) - [j2]Kai Ye, Gert Vriend, Adriaan P. IJzerman:
Tracing evolutionary pressure. Bioinform. 24(7): 908-915 (2008) - 2007
- [j1]Kai Ye, Walter A. Kosters, Adriaan P. IJzerman:
An efficient, versatile and scalable pattern growth approach to mine frequent patterns in unaligned protein sequences. Bioinform. 23(6): 687-693 (2007)
Coauthor Index
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