研究领域

1. 基于单细胞测序技术利用生物信息学方法阐释细胞的分化、鉴定肿瘤或正常组织的新细胞亚型、解析组织的异质性和不同细胞亚型间的相互作用等； 2. 利用多组学大数据（包括基因组、转录组、蛋白质组、表观组等测序数据）系统地解析和阐释特定癌症或肿瘤的致病机理并鉴定相应的生物标志物； 3. 多组学生物大数据分析平台的开发，整合与解析各种组学数据，在全基因组范围内揭示基因的功能、各种致病变异、表达谱、甲基化状态等； 4. 长非编码RNA的鉴定及相应的功能注释研究； 5. 基于蛋白质相互作用网络、转录调控网络等研究基因发挥功能的潜在机制等。

近期论文

1.Yuan D., Tao Y., Chen G*., Shi T*. Systematic expression analysis of ligand-receptor pairs reveals important cell-to-cell interactions inside glioma. Cell Commun Signal, 2019. 17(1): p. 48. (co-corresponding author) 2. Chen G*, Ning B., Shi T*. Single-Cell RNA-Seq Technologies and Related Computational Data Analysis. Frontiers in Genetics, 2019. 10: p. 317. 3. Ding W., Chen G*, Shi T*. Integrative analysis identifies potential DNA methylation biomarkers for pan-cancer diagnosis and prognosis. Epigenetics, 14(1):67-80, 2019 (co-corresponding author) 4. Ji X., Feng G., Chen G*, Shi T*. ShiLack of correlation between aristolochic acid exposure and hepatocellular carcinoma. Sci China Life Sci, 61(6):727-728, 2018 (co-corresponding author) 5. Cao R.,....,Chen G*, Shi T*. dbSAP: single amino-acid polymorphism database for protein variation detection. Nucleic Acids Research,2017，45(D1): p. D827-D832. (co-corresponding author) 6. Liu T., Chen G*, Shi T*. Identifying and Characterizing the Circular RNAs during the Lifespan of Arabidopsis Leaves. Front Plant Sci, 2017. 8: p. 1278. (co-corresponding author) 7. Chen G et al. Single-cell analyses of X chromosome inactivation dynamics and pluripotency during differentiation. Genome Research, doi:10.1101/gr.201954.115, 2016 (封面文章) 8. Nichterwitz S#, Chen G#, et al. Laser capture microscopy coupled with Smart-seq2 for precise spatial transcriptomic profiling. Nature Communications, 7: 12139, 2016 (co-first author) 9. Zhu J, Chen G et al. Identification of Tissue-Specific Protein-Coding and Noncoding Transcripts across 14 Human Tissues Using RNA-seq. Scientific Reports, 2016, 6: 28400. 10. Chen G et al. Significant variations in alternative splicing patterns and expression profiles between human-mouse orthologs in early embryos. Sci China Life Sci, 2016 11. Chen G et al. Identifying and annotating human bifunctional RNAs reveals their versatile functions. Sci China Life Sci, 2016, 59: p. 981-992 (封面文章) 12. Wen Z, Chen G et al. Expression profiling and functional annotation of noncoding genes across 11 distinct organs in rat development. Scientific Reports, 2016. 6: p. 38575. 13. Chen G et al. Characterizing and annotating the genome using RNA-seq data. Sci China Life Sci, 2016 14. Chen G, Yu D, et al. Re-annotation of presumed noncoding disease/trait-associated genetic variants by integrative analyses. Scientific Reports, 2015, 2, 9453 15. Su Z, Labaj P, Li S, Thierry-Mieg J, Thierry-Mieg D, ..…, Chen G, ….., Tong W, Kreil D, Mason C, Shi L. A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium. Nature Biotechnology, 2014, 32, 903-914 16. Chen G, Wang C, Shi L, et al. Incorporating the human gene annotations in different databases significantly improved transcriptomic and genetic analyses. RNA, 2013, 19: 479-489 17. Chen G, Chen J, Shi C, et al. Dissecting the Characteristics and Dynamics of Human Protein Complexes at Transcriptome Cascade Using RNA-Seq Data. PLoS One, 2013, 8: e66521 18. Chen G, Shi T: Next-generation sequencing technologies for personalized medicine: promising but challenging. Sci China Life Sci, 2013, 56:101-103. 19. Chen G, Wang C, Shi L, et al. Comprehensively identifying and characterizing the missing gene sequences in human reference genome with integrated analytic approaches. Human Genetics, 2013, 132: 899-911 20. Chen G, Yin K, Shi L, et al. Comparative analysis of human protein-coding and noncoding RNAs between brain and 10 mixed cell lines by RNA-Seq. PLoS One, 2011, 6: e28318