代 表 性 论 文
1. Zhang, X. #, Wang, X. #, Lv, J., Huang, H., Wang, J., Zhuo, M., Tan, Z., Huang, G., Liu, J., Liu, Y., Li, M., Lin, Q., Li, L., Ma, S., Huang, T., Lin, Y. *, Zhao, X. *, Rong, Z.* Engineered circular guide RNAs boost CRISPR/Cas12a- and CRISPR/Cas13d-based DNA and RNA editing. Genome Biol 24, 145 (2023)
2. Huang, T. #, Chen S. #, Ding, K., Zheng, B., Lv, W., Wang, X., Zhong, Y., Huang, H., Zhang, X., Ma, S., Yang, B. *, Wang, X. *, Rong, Z.* SLC35E1 promotes keratinocyte proliferation in psoriasis by regulating zinc homeostasis. Cell Death Dis 14, 354 (2023)
3. Zhao, S. #, Wu, X.#, Tan, Z., Ren, Y., Li, L., Ou, J., Lin, Y., Song, H., Feng, L., Seto, D., Wu, J., Zhang, Q.*, Rong, Z.* Generation of human embryonic stem cell-derived lung organoids for modeling infection and replication differences between human adenovirus types 3 and 55 and evaluating potential antiviral drugs. J Virol 97, e0020923 (2023)
4. Ma, S., Liao, K., Li, M., Wang, X., Lv, J., Zhang, X., Huang, H., Li, L., Huang, T., Guo, X.*, Lin, Y.*, Rong, Z.* Phase-separated DropCRISPRa platform for efficient gene activation in mammalian cells and mice. Nucleic Acids Res 51, 5271-5284 (2023)
5. Gu, J.J. #, Deng, C.C. #, Feng, Q.L., Liu, J., Zhu, D.H., Cheng, Q, Rong, Z.*, Yang, B.* Relief of extracellular matrix deposition repression by downregulation of IRF1-mediated TWEAK/Fn14 signaling in keloids. J Invest Dermatol 143, 1208-1219 (2023)
6. Deng, C.C. #, Zhang, L.X. #, Xu, X.Y. #, Zhu, D.H., Cheng, Q., Ma, S., Rong, Z.*, Yang, B.* Risk SNP-mediated enhancer-promoter interaction drives keloid through lncRNA DEIK. Br J Dermatol 188, 84-93 (2023)
Commented by Br J Dermatol (188: 7)
7. Feng, J., Li, L., Tan, Z., Zhao, S., Zhang, X., Wang, J., Ye, Y., Lin, Y.*, Rong, Z.* Lung adeno-squamous carcinoma modeling using oncogenic KRAS activation in human embryonic stem cell-derived alveolar organoids. Genes Dis 10, 33-36 (2023)
8. Ye, H., Jiang, C., Li, L., Li, H., Rong, Z.*, Lin, Y.* Live-cell imaging of genomic loci with Cas9 variants. Biotechnol J 17, e2100381 (2022)
9. Huang, H., Huang, G., Tan, Z., Hu, Y., Shan, L., Zhou, J., Zhang, X., Ma, S., Lv, W., Huang, T., Liu, Y., Wang, D., Zhao, X., Lin, Y.*, Rong, Z.* Engineered Cas12a-Plus nuclease enables gene editing with enhanced activity and specificity. BMC Biol 20, 91 (2022)
10. Xu, Y. *, #, Zhang, J. #, Hu, Y. #, Li, X. #, Sun, L., Peng, Y., Sun, Y., Liu, B., Bian, Z. *, Rong, Z. * Single-cell transcriptome analysis reveals the dynamics of human immune cells during early fetal skin development. Cell Rep 36, 109524 (2021)
11. Ma, S.#, Lv, J.#, Feng, Z.#, Rong, Z.*, Lin, Y.* Get ready for the CRISPR/Cas system: A beginner's guide to the engineering and design of guide RNAs. J Gene Med, e3377. 10.1002/jgm.3377 (2021)
12. Huang, H. #, Hu, Y. #, Huang, G., Ma, S., Feng, J., Wang, D., Lin, Y.*, Zhou, J.*, Rong, Z.* Tag-seq: a convenient and scalable method for genome-wide specificity assessment of CRISPR/Cas nucleases. Commun Biol 4, 830 (2021)
13. Deng, C.C. #, Hu, Y.F. #, Zhu, D.H. #, Cheng, Q., Gu, J.J., Feng, Q.L., Zhang, L.X., Xu, Y.P., Wang, D., Rong, Z.*, Yang, B.* Single-cell RNA-seq reveals fibroblast heterogeneity and increased mesenchymal fibroblasts in human fibrotic skin diseases. Nat Commun 12, 3709 (2021)
14. Li, L.#, Feng, J.#, Zhao, S., Rong, Z.*, Lin, Y*. SOX9 inactivation affects the proliferation and differentiation of human lung organoids. Stem Cell Res Ther 12, 343 (2021)
15. Zhang, X.#, Lv, S.#, Luo, Z.#, Hu, Y., Peng, X., Lv, J., Zhao, S., Feng, J., Huang, G., Wan, Q.L., Liu, J., Huang, H., Luan, B., Wang, D., Zhao, X., Lin, Y., Zhou, Q.*, Zhang, Z.N.*, Rong, Z.* MiniCAFE, a CRISPR/Cas9-based compact and potent transcriptional activator, elicits gene expression in vivo. Nucleic Acids Res 49, 4171-4185 (2021)
16. Pei, R.#, Feng, J.#, Zhang, Y., Sun, H., Li, L., Yang, X., He, J., Xiao, S., Xiong, J., Lin, Y., Wen, K., Zhou, H., Chen, J., Rong, Z.*, Chen, X*. Host metabolism dysregulation and cell tropism identification in human airway and alveolar organoids upon SARS-CoV-2 infection. Protein & Cell 12, 717-733 (2021)
17. Liu, J.#, Chen, J.#, Zhong, Y., Yu, X., Lu, P., Feng, J., Zhang, X., Ma, S., Yang, C., Yang, B.*, Rong, Z.* OSMRβ mutants enhance basal keratinocyte differentiation via inactivation of the STAT5/KLF7 axis in PLCA patients. Protein & Cell 12, 653-661 (2021)
18. Xue, Y.#, Chen, W.#, Mai, Z., Yu, X., Wu, Q., Wan, C., Su, X., Wu, Y., Rong, Z.*, Zheng, H*. Inhibition of the Extracellular Signal-Regulated Kinase/Ribosomal S6 Kinase Cascade Limits Chlamydia trachomatis infection. J Invest Dermatol 141, 852-862 (2021)
19. Ma, S., Wang, X., Hu, Y., Lv, J., Liu, C., Liao, K., Guo, X., Wang, D., Lin, Y.*, Rong, Z.* Enhancing site-specific DNA integration by a Cas9 nuclease fused with a DNA donor-binding domain. Nucleic Acids Res 48, 10590-10601 (2020)
20. Lu, L., Liu, X., Huang, W.K., Giusti-Rodriguez, P., Cui, J., Zhang, S., Xu, W., Wen, Z., Ma, S., Rosen, J.D., Xu, Z., Bartels, C.F., Kawaguchi, R., Hu, M., Scacheri, P.C., Rong, Z., Li, Y., Sullivan, P.F., Song, H., Ming, G.L., Li, Y., Jin, F. Robust Hi-C Maps of Enhancer-Promoter Interactions Reveal the Function of Non-coding Genome in Neural Development and Diseases. Mol Cell 79, 521-534 (2020)
21. Huang, H.#, Zhang, X.#, Lv, J., Yang, H., Wang, X., Ma, S., Shao, R., Peng, X., Lin, Y.*, Rong, Z.* Cell-cell contact-induced gene editing/activation in mammalian cells using a synNotch-CRISPR/Cas9 system. Protein & Cell 11, 299-303 (2020)
22. Wang, Y.P.#, Ma, S.F.#, Dai, Z.Y., Rong, Z. *, Liu, J. * Facile in situ synthesis of ultrasmall near-infrared-emitting gold glyconanoparticles with enhanced cellular uptake and tumor targeting. Nanoscale 11, 16336-16341 (2019)
23. Deng, C.C.#, Zhu, D.H.#, Chen, Y.J., Huang, T.Y., Peng, Y., Liu, S.Y., Lu, P., Xue, Y.H., Xu, Y.P., Yang, B.*, Rong, Z.* TRAF4 promotes fibroblast proliferation in keloids by destabilizing p53 via interacting with the deubiquitinase USP10. J Invest Dermatol 139, 1925-1935 (2019)
24. Ma, S., Lin, Y., Rong, Z.* Killing pluripotent stem cells by BET protein inhibition. Science Bulletin 63, 459-461 (2018) (Research Highlight)
25. Zhang, X.#, Wang, W.#, Shan, L., Han, L., Ma, S., Zhang, Y., Hao, B., Lin, Y.*, Rong, Z.* Gene activation in human cells using CRISPR/Cpf1-p300 and CRISPR/Cpf1-SunTag systems. Protein & Cell 9, 380-383 (2018)
26. Ma, S., Lv, J., Sun, J., Tang, P., Li, H., Zhou, H., Zhang, Z., Lin, Y.*, Rong, Z.* iKA-CRISPR hESCs for inducible and multiplex orthogonal gene knockout and activation. FEBS Lett 592, 2238-2247 (2018)
27. Chen, Y., Feng, J., Zhao, S., Han, L., Yang, H., Lin, Y.*, Rong, Z.* Long-Term Engraftment Promotes Differentiation of Alveolar Epithelial Cells from Human Embryonic Stem Cell Derived Lung Organoids. Stem Cells Dev 27, 1339-1349 (2018) (Cover story)
28. Ye, H., Rong, Z.*, Lin, Y.* Live cell imaging of genomic loci using dCas9-SunTag system and a bright fluorescent protein. Protein & Cell 8, 853-855 (2017)
29. Zhao, T.#, Zhang, Z.N.#, Westenskow, P.D.#, Todorova, D., Hu, Z., Lin, T., Rong, Z., Kim, J., He, J., Wang, M., Clegg, D.O., Yang, Y.G., Zhang, K., Friedlander, M., Xu, Y. Humanized Mice Reveal Differential Immunogenicity of Cells Derived from Autologous Induced Pluripotent Stem Cells. Cell Stem Cell 17, 353-359 (2015)
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申 请 / 授 权 发 明 专 利
1. 中国发明专利：荣知立，林瑛，张鑫，彭欣；基于CjCas9和VPR核心结构域的融合蛋白、相应的DNA靶向激活系统及其应用，专利号：ZL 2019 1 0687464.7，专利申请日：2019年07月29日，授权公告日：2021年04月06日，授权公告号：CN 110358753 B
2. 中国发明专利：荣知立，林瑛，马淑凤，王新龙，吕杰，刘成芳；一种高效精准靶向的基因整合系统及其应用，专利号：ZL 2019 1 0628110.5，专利申请日：2019年07月12日，授权公告日：2021年08月20日，授权公告号：CN 110305908 B
3. 中国发明专利：荣知立，林瑛，黄洪新，单琳；一种高保真CRISPR/AsCpf1突变体的构建及其应用，专利号：ZL 2019 1 0766124.3，专利申请日：2019年08月19日，授权公告日：2021年09月07日，授权公告号：CN 110452893 B
4. 中国发明专利：荣知立，林瑛，黄洪新，杨鸿程；新型SynNotch合成受体及编码基因，专利号：ZL 2018 1 0954811.3，专利申请日：2018年08月21日，授权公告日：2021年12月28日，授权公告号：CN 109180805 B
5. 中国发明专利：荣知立，林瑛，黄洪新，周家健；一种检测脱靶效应方法及其应用，专利号：ZL 2020 1 1069812.3，专利申请日：2020年09月30日，授权公告日：2022年07月01日，授权公告号：CN 112159838 B
6. 中国发明专利：薛耀华，郑和平，荣知立；ERK信号通路小分子抑制剂在抑制衣原体感染中的应用，专利号：ZL 2018 1 1603622.8，专利申请日：2018年12月26日，授权公告日：2021年04月27日，授权公告日：CN 109745562 B
7. 中国发明专利：薛耀华，郑和平，荣知立；RSK信号通路抑制剂在抑制沙眼衣原体感染中的应用，专利号：ZL 2018 1 1605134.0，专利申请日：2018年12月26日，授权公告日：2023年02月28日，授权公告日：CN 109847063 B
8. 中国发明专利：荣知立，马淑凤，林瑛，廖凯彤，李梦绕；DropCRISPRa高效靶向相分离基因激活系统及其构建方法和应用；专利申请号：202210519955.2
9. 中国发明专利：邓成成，杨斌，荣知立，徐雪艳，朱定衡，张莉雪；一种组合物、用途及基因综合筛选方法，专利申请号：202210556165.1，
10. 中国发明专利：刘军，钟亚丹，荣知立，杨斌；Keratin5-IRES-eGFP敲入的hESCs细胞系的构建及诱导分化方法，专利申请号：202011493656.3
11. 国际PCT专利：荣知立，林瑛，黄洪新，杨鸿程；新型SynNotch合成受体及编码基因，专利申请号：PCT/CN2018/110356
12. 国际PCT专利：荣知立，林瑛，黄洪新，单琳；一种高保真的CRISPR/AsCpf1突变体，专利申请号：PCT/CN2019/101439
13. 美国专利：Zhili Rong, Ying Lin, Hongxin Huang, Lin Shan; Construction of high-fidelity CRISPR/AsCpf1 mutant and uses thereof, Application number: 17794263
专 业 论 著
1. Genome Editing and Engineering: From TALENs, ZFNs and CRISPRs to Molecular Surgery. Cambridge University Press. (2018). ISBN: 9781107170377
Chapter 18: Genome editing of pluripotent stem cells.
Zhili Rong & Yang Xu