1、开发和利用生物信息学方法（深度学习），绘制并解析慢阻肺和肺纤维化等呼吸疾病早期演进过程单细胞多维度表观修饰机制；

2、通过挖掘和整合单细胞表观多组学，发现慢阻肺和肺纤维化早期发生和进展的表观标记和潜在干预靶点；

3、开发基于痰液cell-free DNA甲基化早期检测慢阻肺和肺纤维化发生和进展的液体活检技术。

1、国自然面上项目，Tet2介导造血干细胞衰老相关异染色质定位异常在骨髓增生异常综合征（MDS）中的作用机制研究，49万。

2、广州国家实验室专项项目，吸烟诱导的慢阻肺早期演进表观机制研究，2800万

3、广州市重点研发计划，肺纤维化表观机制及早诊表观标记的研究，50万

1、Yang J, Zhang X, Tang M, Jiang Y, Chen Z, Lai C, Bao J, Su J, Cui D, Li J. Mapping fibroblast plasticity across non-cancer lung diseases at single-cell resolution. Genome Medicine, 2026.

2、Song J, Cui D, Wang J, Qi X, Ma J, Liu Q, Yang J, Yu H, Ye L, Huang Q, et al. Targeting Mettl8–Tcf1 axis promotes CD8⁺ TPEX differentiation and antitumor immunity. Journal of Experimental Medicine, 223(5): e20250424, 2026.

3、Zhang G, Yang Y, Cui D, Li J. DNA Methylation Concurrence, Independent of DNA Methylation Ratios, Is Associated with Chromatin Accessibility and 3D Genome Architecture. International Journal of Molecular Sciences, 26:7199, 2025.

4、Cai Y, Fan Y, Chen A, Wang X, Wang L, Chen J, Wang Z, Li J, Yi X, Ju C. Characteristics of upper and lower respiratory tract microbiota after lung transplantation. Respiratory Research, 26(1):160, 2025.

5、Guo L, Hong T, Lee YT, Hu X, Pan G, Zhao R, Yang Y, Yang J, Cai X, et al. Perturbing TET2 condensation promotes aberrant genome-wide DNA methylation and curtails leukaemia cell growth. Nature Cell Biology, 26:2154–2167, 2024.

6、Cao W, Li J, Che L, Yang R, Wu Z, Hu G, Zou W, Zhao Z, Zhou Y, Jiang X, et al. Single-cell transcriptomics reveals e-cigarette vapor-induced airway epithelial remodeling and injury. Respiratory Research, 25(1):353, 2024.

7、Hong T, Li J, Guo L, Cavalier M, Wang T, Dou Y, DeLaFuente A, Fang S, et al. TET2 modulates spatial relocalization of heterochromatin in aged hematopoietic stem and progenitor cells. Nature Aging, 3(11):1387–1400, 2023.

8、Yang P, Luo Q, Wang X, Fang Q, Fu Z, Li J, Lai Y, Chen X, Xu X, Peng X, et al. Comprehensive analysis of fibroblast activation protein expression in interstitial lung diseases. American Journal of Respiratory and Critical Care Medicine, 207(2):160–172, 2023.

9、Li J, Hong T, Wei Y, Guo L, Lee M, Yang H, Class C, Yang Y, Wang X, et al. Aberrant DNA hydroxymethylation reshapes transcription factor binding in myeloid neoplasms. Clinical Epigenetics, 14(1):81, 2022.

10、Zhao S, Li J, Zhang H, Qi L, Du Y, Kogiso M, Braun FK, Xiao S, Huang Y, et al. Epigenetic alterations of repeated relapses in patient-matched childhood ependymomas. Nature Communications, 13(1):6689, 2022.

11、Li J, Wu X, Ke J, Lee M, Lan Q, Li J, Yu J, Huang Y, Sun DQ, Xie R. TET1 dioxygenase is required for FOXA2-associated chromatin remodeling in pancreatic beta-cell differentiation. Nature Communications, 13(1):3907, 2022.

12、Fang S, Cui D, Hong T, Guo L, Lee YT, Lee M, Isgandarova S, et al. Ten-eleven translocation ablation impairs cardiac differentiation of mouse embryonic stem cells. Stem Cells, 40(3):260–272, 2022.

13、Yin Y, Li J, Li J, Lee M, Zhao S, Guo L, Li J, Zhang M, Huang Y, Li XN, et al. LiBis: an ultrasensitive alignment augmentation for low-input bisulfite sequencing. Briefings in Bioinformatics, 22(4):bbaa332, 2021.

14、Lee M, Li J, Li J, Fang S, Zhang J, Vo ATT, Han W, Zeng H, Isgandarova S, et al. Tet2 inactivation enhances the antitumor activity of tumor-infiltrating lymphocytes. Cancer Research, 81(8):1965–1976, 2021.

15、Han Y, Zhang M, Xu J, Li J, Xu Y, Thompson TC, Logothetis CJ, Sun D, et al. Genome-wide DNA methylation profiling of leukocytes identifies CpG methylation signatures of aggressive prostate cancer. American Journal of Cancer Research, 11(3):968–986, 2021.

16、Chen YS, Li J, Menon R, Jayaraman A, Lee K, Huang Y, Dashwood WM, et al. Reshaping the Gut Microbiome in an Apc-Mutant Genetic Background: Mechanistic Insights From Integrated Multi-Omics. 2021.

17、Li J, Zhao S, Lee M, Yin Y, Li J, Zhou Y, Ballester LY, Esquenazi Y, et al. Reliable tumor detection by whole-genome methylation sequencing of cell-free DNA in cerebrospinal fluid of pediatric medulloblastoma. Science Advances, 6(42):eabb5427, 2020.

18、Bhattacharjee S, Li J, Dashwood RH. Emerging crosstalk between long non-coding RNAs and Nrf2 signaling. Cancer Letters, 490:154–164, 2020.

19、Kumar J, Kaur G, Ren R, Lu Y, Lin K, Li J, Huang Y, Patel A, Barton MC, et al. KRAB domain of ZFP568 disrupts TRIM28-mediated abnormal interactions in cancer cells. NAR Cancer, 2(2):zcaa007, 2020.

20、Li J, Yin Y, Zhang M, Cui J, Zhang Z, Zhang Z, Sun D. GsmPlot: a web server to visualize epigenome data in NCBI. BMC Bioinformatics, 21(1):55, 2020.

1、2019/04: Oral Presentation 1st Award 2019 Annual Student Research Symposium, Texas A&M University Health Science Center

2、2018/10: Oral Presentation, 8th Annual Postdoctoral Science Symposium, MD Anderson Cancer Center

3、2017: Invited Speaker, International Conference on Epigenetics & Bioengineering

4、2017/06: Excellent Research Award for 31th Society of Chinese Bioscientists in America (SCBA-TX) Annual Symposium

5、2014/07: Travel bursary for 34th International Animal Genetic Conference

6、2010-2013: Research Achievement Awards of China Agricultural University