多组学技术和生物信息学（omics and bioinformatics）
遗传和表观遗传学（genetics and epigenetics）
肾脏损伤纤维化（kidney injury and fibrosis）

2026-07~2029-06，校级，上海交通大学“明志荣誉计划”提名项目，课题负责人
2025-12~2027-11，上海市白玉兰人才计划浦江项目，肾脏损伤修复和纤维化中分子机制多组学研究，课题负责人
2025-09~2029-12，上海交通大学医学院附属第一人民医院，上海市第一人民医院高层次人才启动经费，课题负责人
2025-01~2027-12，国家自然科学基金优秀青年科学基金项目（海外），肾脏纤维化中肾小管细胞损伤反应和代谢调控机制，课题负责人

Li H.，Proteogenomic dissection of kidney disease and cardiovascular-kidney-metabolic syndrome，Kidney International，2026，S0085-2538(26)00071-2
Haikuo Li, Bo Tao, Archibald Enninful, Dingyao Zhang, Yi Dai, Fiona Oh, Negin Farzad, Keyi Li, Zhiliang Bai, Xiaoyu Qin, Mingyu Yang, Emily J. Hwang, Jing Zhang, Jun Lu, Mark Gerstein, Jingtian Zhou, Mina L. Xu, Rong Fan，Spatially decoding genotype-associated epigenetic landscapes in human lymphoma FFPE tissues via epi-Patho-DBiT，Nature Communications，2026，10.1038/S41467-026-71576-9
Malone A.F., Paul R., Li H., Leckie-Harre A., Wu H., Ledru N., McPherson G., Davies H.B., Doty T., Farney A.C. and Jay C.C. et al.，Mosaic Loss of Y Chromosome Defines a Proximal Tubular Cell State Associated with Recovery from DGF and of Allograft Quality and Functional Reserve Post DCD Kidney Transplantation，Annals of Surgery，2025，pp.10-1097
Li H., Bao S., Farzad N., Qin X., Fung A.A., Zhang D., Bai Z., Tao B., Fan R.，Spatially resolved genome-wide joint profiling of epigenome and transcriptome with spatial-ATAC-RNA-seq and spatial-CUTandTag-RNA-seq，Nature Protocols，2025，20, pages 2383–2417
Bai Z.#, Zhang D.#, Gao Y.#, Tao B.#, Zhang D.#, Bao S.#, Enninful A., Wang Y., Li H., Su G., Tian X., Zhang N., Xiao Y., Liu Y., Gerstein M., Li M., Xing Y., Lu J., Xu ML., Fan R.，Spatially exploring RNA biology in archival formalin-fixed paraffin-embedded tissues，Cell，2024，187(23), pp.6760-6779
Li H., Humphreys B.D. ，Protocol for multimodal profiling of human kidneys with simultaneous high-throughput ATAC and RNA expression with sequencing，STAR Protocols，2024，5(3), p.103049
Li H., Humphreys B.D.，Targeting de novo lipogenesis to mitigate kidney disease，The Journal of Clinical Investigation，2024，134(4):1-3
Li H., Humphreys B.D. ，Multimodal characterization of sexual dimorphism in the mammalian kidney，Kidney International，2024，105(4), pp.653-655
Li H.#, Li D.#, Humphreys, B.D.，Chromatin conformation and histone modification profiling across human kidney anatomic regions，Scientific Data，2024，11(1), p.797:1-12
Li H., Humphreys B.D. ，Spatially resolved metabolomic dataset of distinct human kidney anatomic regions，Data in Brief，2024，54, p.110431
Zhao C.#, Rong K.#, Liu P.#, Kong K., Li H., Zhang P., Chen X., Fu Q., Wang X.，Preventing periprosthetic osteolysis in aging populations through lymphatic activation and stem cell-associated secretory phenotype inhibition，Communications Biology，2024，7(1), p.962
Li H., Li D., Ledru N., Xuanyuan Q., Wu H., Asthana A., Byers L.N., Tullius S.G., Orlando G., Waikar S.S., Humphreys B.D.，Transcriptomic, epigenomic, and spatial metabolomic cell profiling redefines regional human kidney anatomy，Cell Metabolism，2024，36(5), pp.1105-1125
Wilson P.C., Verma A., Yoshimura Y., Muto Y., Li H., Malvin N.P., Dixon E.E., Humphreys B.D.，Mosaic loss of Y chromosome is associated with aging and epithelial injury in chronic kidney disease，Genome Biology，2024，25(1), p.36
Ku X.#, Wang J.#, Li H.#, Meng C., Yu F., Yu W., Li Z., Zhou Z., Zhang C., Hua Y., Yan W.，Proteomic portrait of human lymphoma reveals protein molecular fingerprint of disease specific subtypes and progression，Phenomics，2023，3(2), pp.148-166
Zhongshan Cheng, Brian DeVeale, Katherine A Hoadley, Jeffrey Damrauer, Haikuo Li, Benjamin D. Humphreys, Huan Liao, Anthony J. Hannan, Divya Sahu, Anindya Dutta, Surbhi Sona, Angela H. Ting, Siyuan Zheng，RNA-seq: questions and answers，STAR Protocols，2023，Special issue
Wang J.#, Ku X.#, Ma Q.#, Li H.#, Huang S.#, Mao L., Yu F., Jin J., Yan W.，Hsa_circ_0007099 and PIP4K2A coexpressed in diffuse large B-cell lymphoma with clinical significance，Genes and Diseases，2023，11(4), p.101056
Muto Y.#, Li H.#, Humphreys, B.D.，Single Cell Transcriptomics，Innovations in Nephrology: Breakthrough Technologies in Kidney Disease Care，2022，pp. 87-102
Li H., Humphreys B.D. ，Mouse kidney nuclear isolation and library preparation for single-cell combinatorial indexing RNA sequencing，STAR Protocols，2022，3(4), p.101904
Li H., Dixon E.E., Wu H., Humphreys, B.D.，Comprehensive single-cell transcriptional profiling defines shared and unique epithelial injury responses during kidney fibrosis，Cell Metabolism，2022，34(12), pp.1977-1998
Li H., Humphreys B.D. ，New functions for basophils identified in kidney fibrosis，Nature Immunology，2022，23(6), pp.824-825
Li H., Humphreys B.D. ，Single cell technologies: Beyond microfluidics，Kidney360，2021，2(7), pp.1196-1204
Li H., Humphreys B.D. ，Surveying the human single-cell landscape，Kidney International，2020，98(6), pp.1385-1387

研究生导师

李海廓