2005年，福州大学生物工程专业，学士学位；
2008年，福州大学计算机软件与理论专业，硕士学位；
2012年，中国科学院遗传与发育生物学研究所生物信息学专业，博士学位；
2011-2013年，葛兰素史克上海医药研发有限公司，科学家；
2013-2018年，哈佛大学Dana-Farber癌症研究所/波士顿儿童医院，博士后；
2018年至今，厦门大学生命科学学院，闽江学者特聘教授。
B.S. 2005, Fuzhou University, Bioengineering;
M.S. 2008, Fuzhou University, Computer Software and Theory;
Ph.D., 2012, Chinese Academy of Science, Bioinformatics;
Scientist, GlaxoSmithKline (China) R&D Co., Ltd., Shanghai, 2011-2013;
Postdoc, Dana-Farber Cancer Institute/Boston Children's Hospital, Harvard Medical School, 2013-2018;
Principal Investigator, School of Life Sciences, Xiamen University, 2018 to Present.

人类基因组中仅约2%的序列编码蛋白质，其余非编码区域（尤其是增强子等调控元件）富含疾病相关突变，但其功能机制仍存在大量未知。本课题组利用人工智能、单细胞多组学和基因编辑等前沿交叉学科技术，解析增强子在发育和疾病中的作用和机制。主要包括：（1）干实验：开发生物信息学算法，整合多组学数据，构建增强子研究的方法学体系；（2）湿实验：结合单细胞多组学和CRISPR高通量筛选等平台，揭示增强子对基因表达的调控机制；（3）临床合作：与临床团队紧密合作，利用“大数据+AI”探索临床实践中的科学问题（血液肿瘤的诊断、治疗、预后和病因等）。
Only about 2% of the human genome encodes proteins, while the remaining non-coding regions (particularly regulatory elements such as enhancers) are enriched with disease-associated mutations, yet their function and mechanisms remain largely unknown. Our research group employs cutting-edge interdisciplinary technologies, including artificial intelligence, single-cell multi-omics, and gene editing, to investigate the roles and mechanisms of enhancers in development and diseases, especially hematologic malignancies. The research primarily includes: (1) Dry lab: developing bioinformatics algorithms and integrating multi-omics data to establish a methodological framework for enhancer studies; (2) Wet lab: utilizing single-cell multi-omics and CRISPR high-throughput screening platforms to elucidate the regulatory mechanisms of enhancers on gene expression; (3) Clinical collaboration: working closely with clinical teams to explore scientific questions in clinical practice (e.g. diagnosis, treatment, prognosis, and mechanism of hematologic malignancies) using "big data + AI" technologies.

代表性论文(^# co-first author, ^* Corresponding author):

1. H. Lin^#, X. Ye, W. Chen, D. Hong, L. Liu, F. Chen, N. Sun, K. Ye, J. Hong, Y. Zhang, F. Lu, L. Li, J. Huang^*. Modular organization of enhancer network provides transcriptional robustness in mammalian development. Nucleic Acids Research, 2025.
2. Z. Zhang^#, R. Tang^#, M. Zhu^#, Z. Zhu, J. Zhu, H. Li, M. Tong^*, N. Li^*, J. Huang^*. Deciphering cell states and the cellular ecosystem to improve risk stratification in acute myeloid leukemia. Briefings in Bioinformatics, 2025.
3. S. Luo^#, M. Zhu^#*, L. Lin^#, J. Xie, J. Zhu, S. Lin, Y. Chen, J. Huang^*. DECA: harnessing interpretable transformer model for cellular deconvolution of chromatin accessibility profile. Briefings in Bioinformatics, 2025.
4. C. Wu, J. Huang^*. Enhancer selectivity across cell types delineates three functionally distinct enhancer-promoter regulation patterns. BMC Genomics, 2024.
5. D. Hong^#, H. Lin^#, L. Liu, M. Shu, J. Dai, F. Lu, M. Tong, J. Huang^*. Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis. Briefings in Bioinformatics, 2023.
6. M. Shu^#, D. Hong^#, H. Lin, J. Zhang, Z. Luo, Y. Du, Z. Sun, M. Yin, Y. Yin, L. Liu, S. Bao, Z. Liu, F. Lu^*, J. Huang^*, J. Dai^*. Single-cell chromatin accessibility identifies enhancer networks driving gene expression during spinal cord development. Developmental Cell, 2022.
7. Z. Wang^#, T. Wang^#, D. Hong^#, B. Dong^#, Y. Wang, H. Huang, W. Zhang, B. Lian, B. Ji, H. Shi, M. Qu, X. Gao, D. Li, C. Collins, G. Wei, C. Xu^*, H. J. Lee^*, J. Huang^*, J. Li^*. Single-cell transcriptional regulation and genetic evolution of neuroendocrine prostate cancer. iScience, 2022.
8. Y. Kai^#, B. E. Li^#, M. Zhu^#, G. Y. Li, F. Chen, Y. Han, H. J. Cha, S. H. Orkin, W. Cai^*, J. Huang^*, G.-C. Yuan^*. Mapping the evolving landscape of super-enhancers during cell differentiation. Genome Biology, 2021.
9. W. Cai^#, J. Huang^#, Q. Zhu, B. Li, D. Seruggia, P. Zhou, M. Nguyen, Y. Fujiwara, H. Xie, Z. Yang, D. Hong, P. Ren, J. Xu, W. Pu, G.-C. Yuan^* and S. H. Orkin^*. Enhancer-dependence of cell-type-specific gene expression increases with developmental age. PNAS, 2020
10. J. Huang^#, K. Li^#, W. Cai, X. Liu, Y. Zhang, S. H. Orkin, J. Xu^*, G.-C. Yuan^*. Dissecting super-enhancer hierarchy based on chromatin interactions. Nature Communications, 2018.
11. J. Huang^#, X. Liu^#, D. Li^#, Z. Shao^#, H. Cao, Y. Zhang, E. Trompouki, T. V. Bowman, L. I. Zon, G.-C. Yuan, S. H. Orkin^*, J. Xu^*. Dynamic control of enhancer repertoires drives lineage and stage-specific transcription during hematopoiesis. Developmental Cell, 2016.
12. J. Huang, E. Marco, L. Pinello, G.-C. Yuan^*. Predicting chromatin organization using histone marks. Genome Biology, 2015.

科研项目
1. 国家自然科学基金，重大研究计划培育项目，急性髓系白血病耐药和复发的免疫微环境演变规律和机制研究，2025 - 2027，主持
2. 国家自然科学基金，面上项目，基于单细胞多组学探索增强子网络在发育和疾病中的作用和机制，2024 - 2027，主持
3. 国家自然科学基金，面上项目，哺乳动物发育过程中基因表达对增强子依赖性的系统评估，2021 - 2024，主持
4. 国家自然科学基金，面上项目，整合多组学数据解析增强子之间的层次结构，2019 - 2022，主持

学术兼职情况
2024-至今，中国遗传学会表观遗传学分会委员
2023-至今，中国遗传学会三维基因组学专委会委员
2023-至今，中国生物信息学学会（筹）表观遗传信息学专委会委员
2021-至今，福建省生物信息学学会理事

荣誉、奖励及参加学术团体的情况:

1. 厦门大学“清源奖”奖教金（2023）
2. 厦门大学暑期社会实践活动“优秀教师”荣誉称号（2022）
3. 福建省引进高层次人才（2019）
4. 厦门市高层次及骨干人才（2019）