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成果及论文

(*Co-first author；#Co-corresponding author)

  1. Leisheng Shi*; Shasha Li*; Rongyi Zhu*; Chenyang Lu*; Xintian Xu; Changzhi Li;  Xinyue Huang; Xiaolu Zhao#; Fengbiao Mao#; Kailong Li#; CRISPRepi: a multi-omic atlas for CRISPR-based epigenome editing, Nucleic Acids Research, 2024 Nov 12:gkae1039.

  2. Jin Cheng*; Cheng Wang*; Jingxian Zhu*; La Li; Qingyang Meng; Yifei Fan; Wenqiang Yan; Zhipeng Zhu; Yanyan Shi; Yuanyi Wang; Bin Shen; Fengbiao Mao#; Yingfang Ao#; Xiaoqing Hu#；Targeting RIP3 inhibits osteoarthritis development by restoring anabolic-catabolic balance in the bone-cartilage unit, Medicine Plus, Volume 1, Issue 2, June 2024, 100032.

  3. Jimeng Su*;  Ying Song *;  Zhipeng Zhu; Xinyue Huang; Jibiao Fan; Jie Qiao#; Fengbiao Mao#; Cell-cell communication: new insights and clinical implications, Signal Transduction and Targeted Therapy, 2024 Aug 7;9(1):196.

  4. Zhipeng Zhu*;  Huang Cao*;  Hongyu Yan; Hanzhi Liu; Zaifa Hong; Anran Sun#; Tong Liu#; Fengbiao Mao#; Prognostic iron-metabolism signature robustly stratifies single-cell characteristics of hepatocellular carcinoma, Computational and Structural Biotechnology Journal, 2024 Feb 1:23:929-941.

  5. Yifan Chen *;  Shanwu Ma *;  Chutong Lin; Zhipeng Zhu; Jie Bai; Zhongnan Yin; Yan Sun; Fengbiao Mao#; Lixiang Xue#; Shaohua Ma#; Integrative analysis of DNA methylomes reveals novel cell-free biomarkers in lung adenocarcinoma, Frontiers in Genetics, 2023 Jun 16:14:1175784.

  6. Fengbiao Mao#; Husile Baiyin; Jinchen Li; Xiao Che; Yungang Xu; Chenqi Wang; Chang L; Editorial: Biomedical application of DNA modifications, Frontiers in Genetics, 2023 Sep 8:14:1286185. 

  7. Fan Jibiao*; Leisheng Shi*; Liu Qi*; Zhu Zhipeng; Wang Fan; Song Runxian; Su Jimeng; Zhou Degui; Chen Xiao; Li Kailong; Xue Lixiang#; Sun Lichao#; Mao Fengbiao#；Annotation and evaluation of base editing outcomes in multiple cell types using CRISPRbase, Nucleic Acids Research, 2023 Jan 6;51(D1):D1249-D1256.
  8. Wang Lu; Chen Yifan; Chen Rao; Mao Fengbiao#; Sun Zhongsheng#; Liu Xiangdong#；Risk modelling of single cell transcriptomes reveals the heterogeneity of immune infiltration in hepatocellular carcinoma, Journal of Biological Chemistry, 25 January 2023, 102948.
  9. Zhao Xiaolu*; Shi Leisheng*; Ruan Shasha*; Bi Wenjian; Chen Yifan; Chen Lin; Liu Yifan; Li Mingkun#; Qiao, Jie#; Mao, Fengbiao#; CircleBase: an integrated resource and analysis platform for human eccDNAs, Nucleic Acids Research 2022, 50(D1): D72-D82.
  10. Li Shasha *; Lu Chenyang*; Zhang Yuan ; Zhao Xiaolu; Lin Kequan; Kong Xiufang; David Fox; Xue Lixiang; Sun Lichao#; Liu Yi #; Mao Fengbiao#; Genetic association and single-cell transcriptome analyses reveal distinct features connecting autoimmunity with cancers, iScience (2022).
  11. Shi Xiaohui*; Teng Huajing; Shi Leisheng; Bi Wenjian; Wei Wenqing; Mao Fengbiao#; Sun Zhongsheng#; Comprehensive evaluation of computational methods for predicting cancer driver genes, Briefings in Bioinformatics, 2022, 23(2), 1–14. 
  12. Wang Tao*; Ruan Shasha*; Zhao Xiaolu; Shi Xiaohui; Teng Huajing; Zhong Jianing; You Mingcong; Xia Kun#; Sun Zhongsheng#; Mao Fengbiao#; OncoVar: an integrated database and analysis platform for oncogenic driver variants in cancers, Nucleic Acids Research, 2021, 49(D1): D1289-D 1301.
  13. Teng Huajing*; Wei Wenqing*; Li Qinglan; Xue Meiying; Shi Xiaohui; Li Xianfeng; Mao Fengbiao#; Sun Zhongsheng#; Prevalence and architecture of posttranscriptionally impaired synonymous mutations in 8,320 genomes across 22 cancer types, Nucleic Acids Research, 2020, 48(3): 1192- 1205. 
  14. Li Qiang*; Mao Fengbiao*; Zhou Bo*; Huang Yuanhao; Zou Zhenhua; Aaron D denDekker; Xu Jing; Sean Hou; Liu Jie; Dou Yali; Rajesh C Rao#; p53 Integrates Temporal WDR5 Inputs during Neuroectoderm and Mesoderm Differentiation of Mouse Embryonic Stem Cells, Cell Reports, 2020, 30(2): 465-480.e6.
  15. Li Guobing*; Ruan Shasha*; Zhao Xiaolu; Liu Qi; Dou Yali#; Mao Fengbiao#; Transcriptomic signatures and repurposing drugs for COVID-19 patients: findings of bioinformatics analyses, Computational and Structural Biotechnology Journal, 2020, 19: 1-15. 
  16. Wang Haoxuan*; Wang Tao*; Zhao Xiaolu; Wu Honghu; You Mingcong; Sun Zhongsheng#; Mao Fengbiao#; AI-Driver: an ensemble method for identifying driver mutations in personal cancer genomes, NAR Genomics and Bioinformatics, 2020, 2(4). 
  17. Li Xianfeng*; Shi Leisheng*; Wang Yan*; Zhong Jianing*; Zhao Xiaolu; Teng Huajing; Shi Xiaohui; Yang Haonan; Ruan Shasha; Li MingKun; Sun Zhong Sheng#; Zhan Qimin#; Mao Fengbiao#; OncoBase: a platform for decoding regulatory somatic mutations in human cancers, Nucleic Acids Research, 2019, 47(D1): D1044-D1055. 
  18. Zhao Xiaolu*; Xiong Jie*; Mao Fengbiao*; Sheng Yalan; Chen Xiao; Feng Lifang; Dui Wen; Yang Wentao; Kapusta Aurelie; Feschotte Cedric; Coyne Robert S; Miao Wei; Gao Shan#; Liu Yifan#; RNAi-dependent Polycomb repression controls transposable elements in Tetrahymena, Genes & Development, 2019, 33(5-6): 348-364. 
  19. Mao Fengbiao*; Liu Qi*; Zhao Xiaolu*; Yang Haonan; Guo Sen; Xiao Luoyuan; Li Xianfeng; Teng Huajing#; Sun Zhongsheng#; Dou Yali#; EpiDenovo: a platform for linking regulatory de nov o mutations to developmental epigenetics and diseases, Nucleic Acids Research, 2018, 46(D1): D92- D99. 
  20. Teng Huajing*#; Mao Fengbiao*; Liang Jialong; Xue Meiying; Wei Wenqing; Li Xianfeng; Zhang Kun; Feng Dongdong; Liu Baoguo; Sun Zhongsheng#; Transcriptomic signature associated with carcinogenesis and aggressiveness of papillary thyroid carcinoma, Theranostics, 2018, 8(16): 4 345-4358. 
  21. Mao Fengbiao*; Xiao Luoyuan; Li Xianfeng; Liang Jialong; Teng Huajing; Cai Wanshi#; Sun ZhongSheng#; RBP-Var: a database of functional variants involved in regulation mediated by RNA-binding proteins, Nucleic Acids Research, 2016, 44(D1): D154-D163. 
  22. Cai Wanshi*; Mao Fengbiao*; Teng Huajing; Cai Tao; Zhao Fangqing; Wu Jinyu#; Sun ZhongSheng#; MBRidge: an accurate and cost-effective method for profiling DNA methylome at single-base resolution, Journal of Molecular Cell Biology, 2015, 7(4): 299-313. 

Participated Articles:

  1. Wu N*, Wei L, Zhu Z, Liu Q, Li K, Mao F, Qiao J#, Zhao X#, Innovative insights into extrachromosomal circular DNAs in gynecologic tumors and reproduction, Innovative insights into extrachromosomal circular DNAs in gynecologic tumors and reproduction. Protein Cell. 2024 Jan 3;15(1):6-20.

  2. Khoa LTP*, Yang W, Shan M, Zhang L, Mao F, Zhou B, Li Q, Malcore R, Harris C, Zhao L, Rao RC, Iwase S, Kalantry S, Bielas SL, Lyssiotis CA, Dou Y#, Quiescence enables unrestricted cell fate in naive embryonic stem cells. Nat Commun. 2024 Feb 26;15(1):1721.

  3. Khoa LTP*, Yang W, Shan M, Zhang L, Mao F, Zhou B, Li Q, Malcore R, Harris C, Zhao L, Rao RC, Iwase S, Kalantry S, Bielas SL, Lyssiotis CA, Dou Y#, Author Correction: Quiescence enables unrestricted cell fate in naive embryonic stem cells. Nat Commun. 2024 Mar 12;15(1):2215.

  4. Wang C*, Liu J, Min S, Liu Y, Liu B, Hu Y, Wang Z, Mao F, Wang C, Ma X, Wen P, Zheng Y#, Tian Y#, The effect of pore size on the mechanical properties, biodegradation and osteogenic effects of additively manufactured magnesium scaffolds after high temperature oxidation: An in vitro and in vivo study. Bioact Mater. 2023 Jul 6:28:537-548.

  5. Li Y*, Fan T*, Li X*, Liu L, Mao F, Li Y, Miao Z, Zeng C, Song W, Pan J, Zhou S, Wang H, Wang Y#, Sun ZS#, Npas3 deficiency impairs cortical astrogenesis and induces autistic-like behaviors. Cell Rep. 2022 Aug 30;40(9):111289.

  6. Yang M*, Zhang ZC*, Yuan FZ*, Deng RH, Yan X, Mao F, Chen YR#, Lu H#, Yu JK#, An immunomodulatory polypeptide hydrogel for osteochondral defect repair. Bioact Mater. 2022 May 13;19:678-689.

  7. Miao Z*, Li Y*, Mao F, Zhang J, Sun ZS#, Wang Y#, Prenatal witness stress induces intergenerational anxiety-like behaviors and altered gene expression profiles in male mice. Neuropharmacology. 2022 Jan 1;202:108857.

  8. Ma K#, Baloch Z#, Mao F, Natural Products as a Source for New Leads in Depression Treatment, Evid Based Complement Alternat Med. 2022 Jan 13;2022:9791434.

  9. Li Q*, Huang Y, Xu J, Mao F, Zhou B, Sun L, Basinski BW, Aksu M, Liu J, Dou Y, Rao RC#, p53 inactivation unmasks histone methylation-independent WDR5 functions that drive self-renewal and differentiation of pluripotent stem cells. Stem Cell Reports. 2021 Nov 9;16(11):2642-2658.

  10. Yan X*, Yang B, Chen Y, Song Y, Ye J, Pan Y, Zhou B, Wang Y, Mao F, Dong Y, Liu D#, Yu J#, Anti-Friction MSCs Delivery System Improves the Therapy for Severe Osteoarthritis. Adv Mater. 2021 Dec;33(52):e2104758.

  11. Xu J*, Zhao X*, Mao F, Basrur V, Ueberheide B, Chait BT, Allis CD, Taverna SD, Gao S#, Wang W#, Liu Y#, A Polycomb repressive complex is required for RNAi-mediated heterochromatin formation and dynamic distribution of nuclear bodies. Nucleic Acids Research, 2021,8:gkaa1262.

  12. Rogawski DS*, Deng J*, Li H*, Miao H, Borkin D, Purohit T, Song J, Chase J, Li S, Ndoj J, Klossowski S, Kim E, Mao F, Zhou B, Ropa J, Krotoska MZ, Jin Z, Ernst P, Feng X, Huang G, Nishioka K, Kelly S, He M, Wen B, Sun D, Muntean A, Dou Y, Maillard I, Cierpicki T#, Grembecka J#, Discovery of first-in-class inhibitors of ASH1L histone methyltransferase with anti-leukemic activity. Nat Commun. 2021 May 14;12(1):2792.

  13. Lee YT*, Ayoub A, Park SH, Sha L, Xu J, Mao F, Zheng W, Zhang Y, Cho US, Dou Y#. Mechanism for DPY30 and ASH2L intrinsically disordered regions to modulate the MLL/SET1 activity on chromatin, Nat Commun. 2021 May 19;12(1):2953.

  14. Khoa LTP*, Tsan YC, Mao F, Kremer DM, Sajjakulnukit P, Zhang L, Zhou B, Tong X, Bhanu NV, Choudhary C, Garcia BA, Yin L, Smith GD, Saunders TL, Bielas SL, Lyssiotis CA, Dou Y#, Histone Acetyltransferase MOF Blocks Acquisition of Quiescence in Ground-State ESCs through Activating Fatty Acid Oxidation. Cell Stem Cell, 2020, 27(3): 441-458.e10. 

  15. Liu L*, Inoki A, Fan K, Mao F, Shi G, Jin X, Zhao M, Ney G, Jones MA, Sun S, Dou Y, Inoki K, Qi L, Li Q#, ER associated degradation preserves hematopoietic stem cell quiescence and self-renewal by restricting mTOR activity. Blood, 2020,4: blood.2020007975.

  16. Zhao X*, Li Y, Duan L, Chen X, Mao F, Juma M, Liu Y, Song W, Gao S#, Functional analysis of the methyltransferase SMYD in the single-cell model organism Tetrahymena thermophile. Marine Life Science & Technology, 2020, 2:109-122.

  17. Zhang H*, Khoa LTP, Mao F, Xu H, Zhou B, Han Y, O'Leary M, Nusrat A, Wang L, Saunders TL, Dou Y#, MLL1 Inhibition and Vitamin D Signaling Cooperate to Facilitate the Expanded Pluripotency State. Cell Reports, 2019, 29(9): 2659-2671.e6. 

  18. Sun Y*, Zhou B, Mao F, Xu J, Miao H, Zou Z, Khoa LTP, Cai S, Witkin M, Koche R, Ge K, Dressler G, Levine RL, Armstrong SA, Dou Y# and Hess JL#, HOXA9 Reprograms the Enhancer Landscape to Promote Leukemogenesis. Cancer Cell, 2018, 34 (4): 643-658. 

  19. Li X*, Shi L, Zhang K, Wei W, Liu Q, Mao F, Li J, Cai W, Chen H, Teng H#, Li J#, Sun ZS#, CirGRDB: a database for the genome-wide deciphering circadian genes and regulators, Nucleic Acids Research, 2018, 46 (D1): D64–D70. 

  20. Liang J*, Cai W*, Feng D*, Teng H, Mao F, Jiang Y, Hu S, Li X, Zhang Y, Liu B# and Sun Z#, Genetic landscape of papillary thyroid carcinoma in the Chinese population, Journal of Pathology, 2018 Feb,244(2):215-226. 

  21. Miao Z*, Mao F, Liang J, Szyf M, Wang Y#, Sun ZS#, Anxiety-related behaviors associated with microRNA-206-3p and BDNF expression in pregnant female mice following psychological social stress, Molecular Neurobiology, 2018, 55:1097–1111. 

  22. Zhong J*, Li X, Cai W, Wang Y, Dong S, Yang J, Zhang J, Wu N, Li Y, Mao F, Zeng C, Wu J, Xu X, Sun ZS#, TET1 modulates H4K16 acetylation by controlling auto-acetylation of hMOF to affect gene regulation and DNA repair function, Nucleic Acids Research, 2017, 45(2):672-684. 

  23. Teng H*, Zhang Y*, Shi C*, Mao F, Cai W, Lu L, Zhao F#, Sun Z#, Zhang J#, Population Genomics Reveals Speciation and Introgression between Brown Norway Rats and Their Sibling Species, Molecular Biology and Evolution, 2017, 34(9): 2214-2228. 

  24. Zhu L*, Tan X*, Liu W, Mao F, Wu C, Zhou J, Liu X, Lu S, Ma K, Yin B, Luo J, Yuan J, Qiang B, Chen R#, Peng X#, Identification and analysis of intermediate-size noncoding RNAs in the rhesus macaque fetal brain, Journal of Genetics and Genomics, 2017, 44(3):171-174. 

  25. Teng H*, Zhang Y, Shi C, Mao F, Hou L, Guo H, Sun Z, Zhang J#, Whole-Genome Sequencing Reveals Genetic Variation in the Asian House Rat. G3-Genes Genomes Genetics, 2016, 6(7):1969-1977. 

  26. Zhang L*, Jia Z, Mao F, Shi Y, Bu RF#, Zhang B#, Whole-exome sequencing identifies a somatic missense mutation of NBN in clear cell sarcoma of the salivary gland. Oncol Rep. 2016 Jun;35(6):3349-56.

  27. Chen S*, Li M, Zhu W, Mao F, Wang J, Sun Z#, Huang X#, A novel 10-base pair insertion mutation in exon 5 of the SOD1 gene in a Chinese family with amyotrophic lateral sclerosis. Neurobiol Aging. 2016 Sep;45:212.e1-212.e4.

  28. Wang K*, Li X*, Dong S, Liang J, Mao F, Zeng C, Wu H, Wu J, Cai W#, Sun ZS#, Q-RRBS: a quantitative reduced representation bisulfite sequencing method for single-cell methylome analyses. Epigenetics-US, 2015, 10 (9):775-783. 

  29. Wang Y*, Wang Y*, Liu Q, Xu G, Mao F, Qin T, Teng H, Cai W, Yu P, Cai T, Zhao M#, Sun ZS#, Xie C#, Comparative RNA-seq analysis reveals potential mechanisms mediating the conversion to androgen independence in an LNCaP progression cell model. Cancer Letters, 2014, 342(1):130-138. 

  30. Wang Y*, Li G, Mao F, Li X, Liu Q, Chen L, Lv L, Wang X, Wu J, Dai W, Wang G, Zhao E, Tang KF#, Sun ZS#, Ras-induced Epigenetic Inactivation of the RRAD (Ras-related Associated with Diabetes) Gene Promotes Glucose Uptake in a Human Ovarian Cancer Model. Journal of Biological Chemistry, 2014, 289(20):14225-14238. 

  31. Wang Z*, Cai W*, Cui F, Cai T, Chen Z, Mao F, Teng H, Chen L, Wang J, Sun Z#, Huang X#, Yu P#, Identification of a novel missense (C7W) mutation of SOD1 in a large familial amyotrophic lateral sclerosis pedigree. Neurobiology of Aging, 2014, 35(3):725 e711-725. 

  32. Xie Q*, Liu Q*, Mao F, Cai W, Wu H, You M, Wang Z, Chen B, Sun ZS#, Wu J#, A Bayesian framework to identify methylcytosines from high-throughput bisulfite sequencing data. PLoS Computational Biology, 2014, 10 (9): e1003853.

  33. Teng H*, Cai W*, Zeng K, Mao F, You MC, Wang T, Zhao FQ#, Sun ZS#, Genome-wide identification and divergent transcriptional expression of StAR-related lipid transfer (START) genes in teleosts. Gene, 2013, 519(1):18-25.