Ren Qi 齐忍
Ph.D, Assistant Professor, Special Associate Research Fellow
School of Computer Science
Beijing Institute of Technology
Research Interests
scRNA-seq; Drug study; Biological sequence processing and analysis; Machine learning
Education
- 2018-2022: Phd in College of Intelligence and Computing, Tianjin University, China
- 2016-2018: MS in School of Computer Sceience, Tianjin University, China
- 2012-2016: BS in School of Electronic and Information Engineering, Nanjing University of Information Science & Technology, China
Academic Positions
- Jun.2024 - present: Assistant Professor, School of Computer Science, Beijing Institute of Technology
- Mar.2022 - Mar.2024: Postdocter, University of Electronic Science and Technology of China
- Mar.2022 - Mar.2024: Postdocter, Yangtze Delta Region Institute(Quzhou), University of Electronic Science and Technology of China
- Dec.2019-Dec.2020: Visitor, Department of Biomedical Informatics, College of Medicine, The Ohio State University, USA
Funding
- 基于单细胞多组学数据的细胞-药物反应预测深度强化学习模型的构建与研究, 国家自然科学基金（面上项目）, 2024-01-01 至 2027-12-31, 在研, 主持
- 基于单细胞测序数据的药物反应预测研究, 国家自然科学基金（青年科学基金项目）, 2023-01-01 至 2025-12-31, 在研, 主持
- 精准医疗中单细胞测序数据分析方法的开发及应用, 浙江省博士后基金（择优资助项目一等资助）, 2023-01 至 2025-12, 在研, 主持
- 基于bulk与单细胞多组学数据研究癌症单细胞与药物反应, 衢州市科技局项目, 2022-09 至 2024-08, 结题, 主持
- 开放环境下大规模缺失数据的鲁棒学习方法与应用, 国家自然科学基金(面上项目), 2019-01-01 至 2022-12-31, 资助期满, 参与
Publications
- Ren Qi, Quan Zou.Trends and Potential of Machine Learning and Deep Learning Techniques in Drug Study at Single-cell Level. Research, 2023, doi: 10.34133/research.0050. (SCI-1, IF 2022=11.036)
- Ren Qi, Anjun Ma, Qin Ma, Quan Zou.Clustering and classification methods for single-cell RNA-sequencing data. Briefings in Bioinformatics, 2020, 21(4): 1196-1208. (SCI-1, IF 2020=11.622)
- Ren Qi#, Jin Wu#, Fei Guo, Lei Xu, Quan Zou. A spectral clustering with self-weighted multiple kernel learning method for single-cell RNA-seq data. Briefings in Bioinformatics, 2021, 22(4), bbaa216. (SCI-1, IF 2021=11.622)
- Ren Qi, Zehua Zhang, Jin Wu, Lijun Dou, Lei Xu, Yue Cheng. A new method for handling heterogeneous data in bioinformatics. Computers in Biology and Medicine, 2024, 170: 107937. (SCI-1, TOP, IF 2023=7.7)
- Ren Qi, Quan Zou. Special Protein or RNA Molecules Computational Identification . International Journal of Molecular Sciences, 2023, 24(14):11312. (SCI-2,IF=6.2)
- Ren Qi, Fei Guo, Quan Zou. String kernels construction and fusion: a survey with bioinformatics application.Frontiers of Computer Science, 2022, 16(6):166904. (SCI-2, IF 2022=2.061)
- Ren Qi, Arun Kumar Sangaiah, Dariusz Mrozek, Quan Zou. Machine Learning Techniques on Gene Function Prediction Volume II.Frontiers in Genetics, 2022, 13:949285. (SCI-3, IF 2022=4.772)
- Ren Qi, Quan Zou. Editorial: Machine learning methods in single-cell immune and drug response prediction. Frontiers in Genetics , 2023, 14:1233078. (SCI-3, IF 2023=4.772)
- 齐忍, 朱鹏飞, 梁建青.混杂数据的多核几何平均度量学习.软件学报，2017, 28(11):2992-3001. (中文核心期刊)
- Zhecheng Zhou, Linlin Zhuo*, Xiangzheng Fu*, Juan Lv, Quan Zou, Ren Qi*. Joint masking and self-supervised strategies for inferring small molecule-miRNA associations . Molecular Therapy: Nucleic Acid , 2024,35(1): 102103. (SCI-2, TOP, IF 2023=10.183)
- Mengting Niu, Chunyu Wang, Yaojia Chen, Quan Zou, Ren Qi*, Lei Xu*. CircRNA Identification and Feature Interpretability Analysis . BMC Biology , 2024, 22:44. (SCI-1, TOP, IF=7.1)
- Mingshuai Chen, Quan Zou, Ren Qi*, Yijie Ding*. PseU-KeMRF: A novel method for identifying RNA pseudouridine sites. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2024. (TCBB, CCF-B, IF 2022=3.702)
- Pengfei Zhu, Ren Qi, Qinghua Hu, Qilong Wang, Changqing Zhang, Liu Yang. Beyond similar and dissimilar relations: a kernel regression formulation for metric learning.Twenty-Seventh International Joint Conference on Artificial Intelligence(IJCAI), 2018, doi:10.24963/ijcai.2018/450. (CCF-A)
- Juexin Wang, Anjun Ma, Yuzhou Chang, Jianting Gong, Yuexu Jiang, Ren Qi, et al. scGNN: a novel graph neural network framework for single-cell RNA-Seq analyses.Nature Communications, 2021,12(1):1-11. (SCI-1, IF 2021=12.121)
- Bin Yu, Chen Chen, Ren Qi, Ruiqing Zheng, Patrick J. Lawrence,et al. scGMAI: a Gaussian mixture model for clustering single-cell RNA-Seq data based on deep autoencoder. Briefings in Bioinformatics, 2021,22(4):bbaa316. (SCI-1, IF 2021=11.622)
- Jing Jiang#, Cankun Wang#, Ren Qi, Hongjun Fu, Qin Ma. scREAD: a single-cell RNA-Seq database for Alzheimer's Disease. iScience, 2020,23(11):101769. (SCI-2, IF 2020=5.458)
- Xiaolin Wang, Hongli Gao, Ren Qi, Ruiqing Zheng, Xin Gao, and Bin Yu. scBKAP: a clustering model for single-cell RNA-Seq data based on bisecting K-means.IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2022: 1-10. (TCBB, CCF-B, IF 2022=3.702)
Awards
- 2023年度海南省科学技术奖自然科学奖三等奖, 海南省科技厅，2023.
- 国家奖学金,2021.
- 国家高水平公派联合培养博士生基金, 国家留学基金委, 2019.
- 天津市优秀硕士论文, 天津市人民政府，2020.
- CCML 2017 最佳学生论文奖, 中国人工智能学会, 2017.
- 国家励志奖学金, 2013 & 2014.