Personal Profile
Education
2018 Carnegie Mellon University, Pittsburgh, United States，Computer Science Ph.D.
2011 University of Michigan, Ann Arbor, United States，Computer Engineering B.S.E.
2011 SJTU, Shanghai, China，Electrical and Computer Engineering, B.S.E.
Work Experience
2021 – Pres. Global Institute of Future Technology，SJTU Assistant Dean
2021 – Pres. Global Institute of Future Technology，SJTU Associate Professor
2021 – 2021 UM-SJTU Joint Institute，SJTU Associate Professor
2020 – 2021 UM-SJTU Joint Institute，SJTU Assistant Professor
2018 – 2020 University of Pittsburgh，Pediatrics Postdoctoral Associate
Research Fields
Machine learning and statistical methods for single cell analysis
Cancer multiomics, immunology and precision medicine
Combinatorial optimization algorithms in bioinformatics
Stable and explainable artificial intelligence in science
Honors and Awards
Tencent Rhinoceros Talent Plan
2021 National Science Foundation for Outstanding Young Scholars (Overseas)
2020 Shanghai Leading Talent Program
2020 Shanghai Pujiang Talent Program,CTCSM
2018 ASHG Selection of Judges
2016 ISMB Travel Award
Scientific research project
Selected Publications (10 selected in last 3 years)
Zhou, Jieli, and Hongyi Xin*. “Emerging artificial intelligence methods for fighting lung cancer: A survey.” in Clinical eHealth, 5, 19-34, December 2022.
Jieli Zhou, Baoyu Jing, Zeya Wang*, Hongyi Xin*, Hanghang Tong. “SODA: Detecting COVID-19 in Chest X-rays with Semi-supervised Open Set Domain Adaptation”, in IEEE/ACM Transactions on Computational Biology and Bioinformatics, 10.1109/TCBB.2021.3066331, March 2021.
Hongyi Xin, Qiuyu Lian, Yale Jiang, Jiadi Luo, Xinjun Wang, Carla Erb, Xiaoyi Zhang, Elisa Heidrich-O’Hare, Qi Yan, Richard Duerr, Kong Chen, Wei Chen. “Sample demultiplexing, multiplet detection, experiment planning and novel cell type verification in single cell sequencing”, in Genome Biology, 21, 188, July 2020.
Qiuyu Lian, Hongyi Xin(co-first), Jianzhu Ma, Lina Konnikova, Wei Chen, Jin Gu, Kong Chen. “Artificial-Cell-Type Aware Cell Type Classification in CITE-seq”, in Oxford Bioinformatics, Volume 33 Issue Supplement_1, November 2020
Hongyi Xin, Mingfu Shao, Carl Kingsford. “Context-Aware Seeds for Read Mapping”, in Algorithms in Molecular Biology, 15, 10, May 2020.
Qi Yan, Daniel Weeks, Hongyi Xin, Anand Swaroop, Emily Chew, Heng Huang, Ying Ding, Wei Chen. “Deep-LearningBased Prediction of Late Age-Related Macular Degeneration Progression”, in Nature Machine Intelligence, 2, 141-150, February 2020.
KR Jayaram, Anshul Gandhi, Hongyi Xin, Shu Tao. “Adaptively Accelerating Map-Reduce/Spark with GPUs: A Case Study”, in Proceedings of the 16th The International Conference on Autonomic Computing (ICAC 2019), Umea, Sweden, June 2019.
Zhe Sun, Li Chen, Hongyi Xin, Qianhui Huang, Anthony Cillo, Tracy Tabib, Ying Ding, Jay Kolls, Tullia Bruno, Robert Lafyatis, Dario Vignali, Kong Chen, Ming Hu, and Wei Chen. “BAMM-SC: A Bayesian Mixture Model for Clustering Droplet-Based Single Cell Transcriptomic Data from Population Studies”, in Nature Communications, 10(1), Page 1649, 2019.
Professional Service
IEEE Society for Bioinformatics and Biomedicine（BIBM），Program Commissioner
Journal of Computational Biology ，Editorial Board
Clinical E-Health，Editorial Board
The 7th National Conference on Computational Biology and Bioinformatics，Topic moderator
International Young Scientists Forum on Future Technology of Shanghai Jiaotong University，Co-Chairs
Course Taught (Recent 5 Years)
Introduction to Algorithms and Data Structures
