柯荣秦博士，华侨大学医学院教授，长期致力于分子诊断学技术方法的开发和应用研究，曾就职于美国Complete Genomics公司，发明了基于DNA纳米球的双端测序技术，现为华大基因自主研发的国产二代测序系统的核心技术之一。共同发明了RNA原位测序技术，该技术入选了Nature Methods杂志2013年度的Method of the Year，引领了基于成像的空间转录组学技术的发展。先后主持或参与国家自然科学基金、国家重点研发计划、福建省自然科学基金等国家级和省部级项目，入选国家级、省部级人才项目。

欢迎访问实验室主页：https://kelab.mysxl.cn/

(欢迎对分子诊断技术、多组学技术、化学生物学技术研究，以及基础生物学和基础医学研究感兴趣的硕士生（学硕和专硕）、博士生、博士后加入课题组；诚邀具有相关研究背景的博士、博士后加盟课题组担任专业教师）

教育背景:

2001.09 – 2005.07    厦门大学生命科学学院生物科学学士

2005.09 – 2008.07    厦门大学生命科学学院生物化学与分子生物学硕士

2008.09 – 2012.12    瑞典乌普萨拉大学医学科学博士

 

发表文章: (*通讯作者，#第一作者）

2024年

1. Qiu Y, Liu Y, Zheng W, Chen W, Yang W, He X, Lin C, Ke R*. Visualization of Protein–Protein Interaction In Situ Using Hybridization-Enhanced Proximity Ligation Assay. Anal Chem. 2024, (Accepted).

2. Tang L, Xu D*, Luo L, Ma W, He X, Diao Y, Ke R*, Kapranov P*.  A novel human protein-coding locus identified using a targeted RNA enrichment technique. BMC Biol. 2024, 26;22(1):273.

3. Liu Y., Chen J., Lin C. Ke R*. Multiplexed in situ RNA imaging by combFISH. Anal Bioanal Chem. 2024, 416(16):3765-3774. (封面文章）
4. Qiu Y, Wei K, Lin H, Liu Y, Lin C, Ke R*. Combined amplification-based single-molecule fluorescence in situ hybridization with immunofluorescence for simultaneous in situ detection of RNAs and proteins. Biochem Biophys Res Commun. 2024, 696:149508.

5. Chen J, Ke R*. Spatial analysis toolkits for RNA in situ sequencing. Wiley Interdiscip Rev RNA. 2024, 15(2):e1842.

6. Chen Y, Zhang L, Shi X, Han J, Chen J, Zhang X, Xie D, Li Z, Niu X, Chen L, Yang C, Sun X, Zhou T, Su P, Li N, Greenblatt MB, Ke R*, Huang J*, Chen ZS*, Xu R*. Characterization of the Nucleus Pulposus Progenitor Cells via Spatial Transcriptomics. Adv Sci (Weinh). 2024, 4:e2303752.

7. Chen G, Yu D, Yang Y, Li X, Wang X, Sun D, Lu Y, Ke R, Zhang G, Cui J, Feng S. Adaptive expansion of ERVK solo-LTRs is associated with Passeriformes speciation events. Nat Commun. 2024, 15(1):3151.

2023年

1. Jiang M, Wei K, Li M, Lin C,Ke R*. Single molecule RNA in situ detection in clinical FFPE tissue sections by vsmCISH. RNA. 2023, 29(6):836-846.

2. Rao X, Zheng L, Wei K, Li M, Jiang M, Qiu J, Zhou Y, Ke R* , Lin C*. Novel In Situ Hybridization Assay for Chromogenic Single-Molecule Detection of Human Papillomavirus E6/E7 mRNA. Microbiology Spectrum. 2023,  11(2):e0389622.

3. Tang X, Chen J, Zhang X, Liu X, Xie Z, Wei K, Qiu J, Ma W, Lin C, Ke R*. Improved in situ sequencing for high-resolution targeted spatial transcriptomic analysis in tissue sections. Journal of Genetics and Genomics. 2023, 50(9):652-660.

4. Zhang HX, Zhou YL, Xu WY, Chen XL, Jiang JY, Zhou XM, Wang ZG, Ke RQ*, Guo QW*. Polymerase chain reaction-based assays facilitate the breeding and study of mouse models of Klinefelter syndrome. Asian J Androl. 2023;53(1):76-80.

5. Zhang Q, Xia K, Jiang M, Li Q, Chen W, Han M, Li W, Ke R, Wang F, Zhao Y, Liu Y, Fan C, Gu H. Catalytic DNA-Assisted Mass Production of Arbitrary Single-Stranded DNA. Angew Chem Int Ed Engl. 2023, 62(5): e202212011.

6. Zhu L, Ke R*. High-throughput single-cell genomic analysis for archival tissue blocks. The Innovation Life. 2023, 3: 10034.

2022年

1. Li Q, Zhang X, Ke R*. Spatial Transcriptomics for Tumor Heterogeneity Analysis. Frontiers in Genetics. 2022, 13:906158. 

2021年

1. Yin J, Lin C, Jiang M, Tang X, Xie D, Chen J, Ke R*. CENPL, ISG20L2, LSM4, MRPL3 are four novel hub genes and may serve as diagnostic and prognostic markers in breast cancer. Sci Rep. 2021, 2, 11(1):15610.

2. Lin C, Liu X, Zheng B, Ke R*, Tzeng CM*. Liquid Biopsy, ctDNA Diagnosis through NGS. Life, 2021, 11(9):890.

3. Lin C, Jiang M, Liu L, Chen X, Zhao Y, Chen L, Hong Y, Wang X, Hong C, Yao X, Ke R*. Imaging of individual transcripts by amplification-based single-molecule fluorescence in situ hybridization. New Biotechnology. 2021, 61:116-123.

4. Yu Y, Zeng Z, Xie D, Chen R, Sha Y, Huang S, Cai W, Chen W, Li W, Ke R, Sun T. Interneuron origin and molecular diversity in the human fetal brain. Nat Neurosci. 2021, 24(12):1745-1756.

5. Liu Q, Li J, Zhang W, Xiao C, Zhang S, Nian C, Li J, Su D, Chen L, Zhao Q, Shao H, Zhao H, Chen Q, Li Y, Geng J, Hong L, Lin S, Wu Q, Deng X, Ke R, Ding J, Johnson RL, Liu X, Chen L, Zhou D. Glycogen accumulation and phase separation drives liver tumor initiation. Cell. 2021, 184(22):5559-5576.e19.

2020年

1. Zhao Y, Lin C, Wu P, Chen X, Zhao Y, Li Y, Chen L, Nilsson M, Ke R*. Single Cell RNA Expression Analysis Using Flow Cytometry Based on Specific Probe Ligation and Rolling Circle Amplification. ACS Sensors. 2020, 5, 10:3031–3036.

2. Lin C, Jiang M, Duan S, Qiu J, Hong Y, Wang X, Chen X, Ke R*. Visualization of individual microRNA molecules in fixed cells and tissues using target-primed padlock probe assay. Biochem Biophys Res Commun. 2020. 526(3):607-611.

3. Jiang M, Lin C, Ke R*. Detection of Individual RNA in Fixed Cells and Tissues by Chromogenic ISH. Bio Protoc. 2020,10(3): e3510.

2019年

1. Jiang M, Liu L, Hong C, Chen D, Yao X, Chen X, Lin C, Ke R*. Single molecule chromogenic in situ hybridization assay for RNA visualization in fixed cells and tissues. RNA. 2019 25(8):1038-1046.

2. Zeng F, Ma X, Zhu L, Xu Q, Zeng Y, Gao Y, Li G, Guo T, Zhang H, Tang X, Wang Z, Ye Z, Zheng L, Zhang H, Zheng Q, Li K, Lu J, Qi X, Luo H, Zhang X, Wang Z, Zhou Y, Yao Y, Ke R, Zhou Y, Liu Y, Sun H, Huang T, Shao Z, Xu H, Wang X. The deubiquitinase USP6 affects memory and synaptic plasticity through modulating NMDA receptor stability. PLoS Biol. 2019. 17(12): e3000525.

2019年之前

1. Ke R^#, Mignardi M, Hauling T, Nilsson M. Fourth Generation of Next-Generation Sequencing Technologies: Promise and Consequences. Human Mutation. 2016, 37(12):1363-1367.

2. Ke R^#, Mignardi M^#, Botling J, Wählby C, and Nilsson M. In situ sequencing for RNA analysis in preserved cells and tissue. Nature Methods. 2013, 10: 857–860. （入选2013年度Method of the Year）

3. Ke R*, Nong RY*, Fredriksson S, Landegren U, Nilsson M. Improving precision of proximity ligation assay by amplified single molecule detection. PLoS One. 2013, 8(7): e69813. 

4. Gómez de la Torre TZ#, Ke R#, Mezger A, Svedlindh P, Strømme M, Nilsson M. Sensitive detection of spores using volume-amplified magnetic nanobeads. Small. 2012, 8:2174-7.

5. Ke R, Zorzet A, Göransson J, Lindegren G, Sharifi-Mood B, Chinikar S, Mardani M, Mirazimi A, Nilsson M. Colorimetric nucleic acid testing assay for RNA virus detection based on circle-to-circle amplification of padlock probes. Journal of Clinical Microbiology. 2011, 49:4279-85.

6. Ke R#, Yang W#, Xia X, Xu Y, Li Q. Tandem conjugation of enzyme and antibody on silica nanoparticle for enzyme immunoassay. Analytical Biochemistry. 2010, 406:8-13. (selected for cover) （封面文章）

7. New technologies for DNA analysis--a review of the READNA Project, New Biotechnology. 2016, 33:311-330. 

8. Sun S, Ke R, Hughes D, Nilsson M, Andersson DI. Genome-Wide Detection of Spontaneous Chromosomal Rearrangements in Bacteria. PLoS One. 2012, 7: e42639.

9. Göransson J, Ke R, Nong RY, Howell WM, Karman A, Grawé J, Stenberg J, Granberg M, Elgh M, Herthnek D, Wikström P, Jarvius J, Nilsson M. Rapid identification of bio-molecules applied for detection of biosecurity agents using rolling circle amplification. PLoS One. 2012, 7: e31068.

10. Barišić I, Schoenthaler S, Ke R, Nilsson M, Noehammer C, Wiesinger-Mayr H, Multiplex detection of antibiotic resistance genes using padlock probes. Diagnostic microbiology and infectious disease. 2013, 77: 118-125.

11. Xia X, Xu Y, Ke R, Zhang H, Zou M, Yang W, Li Q, A highly sensitive europium nanoparticle-based lateral flow immunoassay for detection of chloramphenicol residue, Analytical Bioanalytical Chemistry. 2013, 45: 7541-7544.

12. Pacureanu A, Ke R, Mignardi M, Nilsson M, Wählby C, Image based in situ sequencing for RNA analysis in tissue. Biomedical Imaging (ISBI), IEEE 11th International Symposium on, 2014: 286-289.

书籍章节：

1. Xia X, Jiang M, Lin C, Ke R*. Visualization of Individual RNA Molecules by Proximity Ligation-Based Chromogenic In Situ Hybridization Assay. Methods Mol Biol. 2024;2822:143-156.

2. Hauling T, Ke R, Krzywkowski T, Nilsson M. In situ detection of individual mRNA molecules with padlock probes and target-primed rolling-circle amplification in fixed mouse brain tissues. In Situ Hybridization Methods. 2015: 485-507.

所获荣誉：

国家级高层次人才

省级高层次人才

福建省杰出青年基金

 

 

原位单细胞空间多组学

新型原位杂交技术及应用