出版著作
已發表的第一作者或通訊作者SCI論文:
•Shengfeng Huang#, Mingjin Kang and Anlong Xu. HaploMerger2: rebuilding both haploid sub-assemblies from high-heterozygosity diploid genome assembly. Bioinformatics. 2017 Aug 15;33(16):2577-2579. #corresponding author
•Xinyu Yan, Wenbin Meng, Fenfang Wu, Anlong Xu and Shengfeng Huang#. The Nuclear DNA Content and Genetic Diversity of Lampetra morii. PLoS ONE. 2016. #corresponding author
•Shengfeng Huang*, Xin Tao*, Shaochun Yuan*, Yuhang Zhang, Peiyi Li, Helen A. Beilinson, Ya Zhang, Wenjuan Yu, Pierre Pontarotti, Hector Escriva, Yann Le Petillon, Xiaolong Liu, Shangwu Chen, David G. Schatz, Anlong Xu. Discovery of an Active RAG Transposon Illuminates the Origins of V(D)J Recombination. Cell. 2016 Jun 30;166(1):102-14.*co-first author
•Jie Li, Rui Li, Leiming You, Anlong Xu#, Yonggui Fu and Shengfeng Huang#. Evaluation of two statistical methods provides insight into the complex patterns of alternative polyadenylation site switching. PLoS ONE. 2015 Apr 14; 10(4):e0124324. #corresponding author
•Shengfeng Huang, Zelin Chen, Xinyu Yan, Ting Yu, Guangrui Huang, Pierre Antoine Pontarotti, Qingyu Yan, Hongchen Zhao, Jie Li, Ping Yang, Ruihua Wang, Rui Li, Xin Tao, Ting Deng, Yiquan Wang, Guang Li, Qiujin Zhang, Sisi Zhou, Leiming You, Shaochun Yuan, Yonggui Fu, Fenfang Wu, Meiling Dong, Shangwu Chen, Anlong Xu. Decelerated genome evolution in modern vertebrates revealed by analysis of multiple lancelet genomes. Nature communications. 2014 Dec 19; 5:5896.
•Guangrui Huang*, Shengfeng Huang*, Xinyu Yan, Ping Yang, Jun Lia, Weiya Xua, Lingling Zhang, Ruihua Wang, Yingcai Yu, Shaochun Yuan, Shangwu Chen, Guangbin Luo and Anlong Xu. Two apextrin-like proteins mediate extracellular and intracellular bacterial recognition in amphioxus. Proc Natl Acad Sci U S A. 2014 Sep 16;111(37):13469-74. *co-first author
•Ping Yang*, Shengfeng Huang*, Xinyu Yan, Guangrui Huang, Xiangru Dong, Tingting Zheng, Dongjuan Yuan, Ruihuan Wang, Rui Li, Ying Tan and Anlong Xu. Origin of the phagocytic respiratory burst and its role in gut epithelial phagocytosis in a basal chordate. Free radical biology & medicine. 2014; 70C: 54-67. *co-first author
•Shengfeng Huang#, Jie Li, Anlong Xu, Guangrui Huang, Leiming You. Small insertions are more deleterious than small deletions in human genomes. Human Mutation. 2013; 34(12): 1642-1649. *corresponding author
•Zelin Chen*, Shengfeng Huang*, Yuxin Li, Anlong Xu. AliquotG: an improved heuristic algorithm for genome aliquoting. PLoS ONE. 2013 May 14; 8(5): e64279. *co-first author
•Shengfeng Huang*, Zelin Chen*, Guangrui Huang, Ting Yu, Jie Li, Yonggui Fu, Shaochun Yuan, Shangwu Chen, Anlong Xu. HaploMerger: Reconstructing allelic relationships for polymorphic diploid genome assemblies. Genome Research. 2012; 22(8): 1581-1588. *co-first author
•Shengfeng Huang*, Ting Yu*, Zelin Chen, Shaochun Yuan, Shangwu Chen, Anlong Xu. More single-nucleotide mutations surround small insertions than small deletions in primates. Human Mutation. 2012; 33(7): 1099-1106. *co-first author
•Huiqing Huang*, Shengfeng Huang*, Yanhong Yu, Shaochun Yuan, Rui Li, Xin Wang, Hongchen Zhao, Jun Li, Manyi Yang, Liqun Xu, Shangwu Chen, Anlong Xu. Functional characterization of a ficolin-mediated complement pathway in amphioxus. Journal of Biological Chemistry. 2012; 286(42):36739-48. *co-first author
•Shengfeng Huang*, Xin Wang*, Qingyu Yan, Lei Guo, Shaochun Yuan, Meiling Dong, Shangwu Chen, Anlong Xu. The evolution and regulation of the mucosal immune complexity in the basal chordate amphioxus. Journal of Immunology. 2011 Feb 15;186(4):2042-55. *co-first author
•Shengfeng Huang, Haozheng Tian, Zelin Chen, Ting Yu, Anlong Xu. The evolution of vertebrate tetraspanins: gene loss, retention, and massive positive selection after whole genome duplications. BMC Evolutionary Biology. 2010;10:306.
•Shaochun Yuan*, Shengfeng Huang*, Wei Zhang, Tao Wu, Meiling Dong, Yanhong Yu, Tong Liu, Kui Wu, Huiling Liu, Manyi Yang, Hongwei Zhang, Anlong Xu. An amphioxus TLR with dynamic embryonic expression pattern responses to pathogens and activates NF-kappaB pathway via MyD88. Molecular Immunology. 2009 Jul;46(11-12):2348-56. *co-first author
•Shengfeng Huang, Shaochun Yuan, Lei Guo, Yanhong Yu, Jun Li, Tao Wu, Tong Liu, Manyi Yang, Kui Wu, Huiling Liu, Jin Ge, Yingcai Yu, Huiqing Huang, Meiling dong, Cuiling Yu, Shangwu Chen, Anlong Xu. Genomic Analysis of the Immune Gene Repertoire of Amphioxus Reveals Extraordinary Innate Complexity and Diversity. Genome Research. 2008 Jul;18(7):1112-26.
•Shengfeng Huang, Shaochun Yuan, Meiling Dong, Jing Su, Cuiling Yu, Xiaojin Xie, Yang Shen, xuesong Yu, Yanhong Yu, Shangwu Chen , Shicui Zhang, Pierre Pontarotti, Anlong Xu. The phylogenetic analysis of tetraspanins projects the evolution of cell-cell interactions from unicellular to multicellular organisms. Genomics. 2005 Dec; 86(6):674-684.
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•已發表的非第一作者SCI論文:
•Guangrui Huang, Shengfeng Huang, Ruihua Wang, Xinyu Yan, Yuxin Li, Yuchao Feng, Shaozhou Wang, Xia Yang, Jun Li, Leiming You, Shangwu Chen, Guangbin Luo and Anlong Xu. Dynamic Regulation of Tandem 3' Untranslated Regions in Zebrafish Spleen Cells during Immune Response. Journal of Immunology. 2016 Jan 15;196(2):715-25.
•Wen-Jie Wang, Wang Cheng, Ming Luo, Qingyu Yan, Hong-Mei Yu, Qiong Li, Dong-Dong Cao, Shengfeng Huang, Anlong Xu, Roy A. Mariuzza, Yuxing Chen and Cong-Zhao Zhou. Activity Augmentation of Amphioxus Peptidoglycan Recognition Protein BbtPGRP3 via Fusion with a Chitin Binding Domain. PLoS One. 2015 Oct 19;10(10):e0140953.
•Shaochun Yuan, Jie Ruan, Shengfeng Huang, Shangwu Chen, Anlong Xu. Amphioxus as a model for investigating evolution of the vertebrate immune system. Developmental & Comparative Immunology. 2015 Feb; 48(2): 297-305. (review)
•Leiming You, Jiexin Wu, Yuchao Feng, Yonggui Fu, Yanan Guo, Liyuan Long, Hui Zhang, Yijie Luan, Peng Tian, Liangfu Chen, Guangrui Huang, Shengfeng Huang, Yuxin Li, Jie Li, Chengyong Chen, Yaqing Zhang, Shangwu Chen and Anlong Xu. APASdb: a database describing alternative poly(A) sites and selection of heterogeneous cleavage sites downstream of poly(A) signals. Nucleic Acids Research. 2015 Jan;43(Database issue):D59-67.
•Shaochun Yuan, Xin Tao, Shengfeng Huang, Shangwu Chen, Anlong Xu. Comparative Immune Systems in Animals. Annual Review of Animal Biosciences. 2014. 2:235–58. (review)
•Dongjuan Yuan, Qiuqiong Zou, Ting Yu, Cuikai Song, Shengfeng Huang, Shangwu Chen, Zhenghua Ren and Anlong Xu. Ancestral genetic complexity of arachidonic acid metabolism in Metazoa. Biochim Biophys Acta. 2014; 1841(9): 1272-1284.
•Shaochun Yuan, Jie Zhang, Lingling Zhang, Ling Huang, Jian Peng, Shengfeng Huang, Shangwu Chen, Anlong Xu. The archaic roles of the amphioxus NF-kappaB/IkappaB complex in innate immune responses. Journal of Immunology. 2013; 191(3): 1220-1230
•Rirong Yang, TingTing Zheng, Xinsheng Cai, Yingcai Yu, Cuiling Yu, Lei Guo, Shengfeng Huang, Wei Zhu, Ruiming Zhu, Qingyu Yan, Zhenhua Ren, Shangwu Chen, Anlong Xu. Genome-Wide Analyses of Amphioxus MicroRNAs Reveal an Immune Regulation via miR-92d Targeting C3. Journal of Immunology. 2013; 190(4): 1491-1500.
•Sisi Zhou, Yonggui Fu, Jie Li, Lingyu He, Xingsheng Cai, Qingyu Yan, Xingqiang Rao, Shengfeng Huang, Guang Li, Yiquan Wang, Anlong Xu. HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries. PLoS ONE. 2012; 7(12): e52257.
•Yuxin Li, Yu Sun, Yonggui Fu, Mengzhen Li, Guangrui Huang, Chenxu Zhang, Jiahui Liang, Shengfeng Huang, Gaoyang Shen, Shaochun Yuan, Liangfu Chen, Shangwu Chen and Anlong Xu. Dynamic landscape of tandem 3' UTRs during zebrafish development. Genome Research. 2012; 22(10): 1899-1906.
•Liqun Xu, Shaochun Yuan, Jun Li, Jie Ruan, Shengfeng Huang, Manyi Yang, Huiqing Huang, Shangwu Chen, Zhenghua Ren, Anlong Xu. The conservation and uniqueness of the caspase family in the basal chordate, amphioxus. BMC Biology. 2011; 9:60.
•Manyi Yang, Shaochun Yuan, Shengfeng Huang, Jun Li, Liqun Xu, Huiqing Huang, Xing Tao, Jian Peng, Anlong Xu. Characterization of bbtTICAM from amphioxus suggests the emergence of a MyD88-independent pathway in basal chordates. Cell Research. 2011; 21(10):1410-23.
•Jun Li, Shaochun Yuan, Ling Qi, Shengfeng Huang, Guangrui Huang, Manyi Yang, Liqun Xu, Yuxing Li, Renwei Zhang, Yingcai Yu, Shangwu Chen, Anlong Xu. Functional conservation and innovation of amphioxus RIP1-mediated signaling in cell fate determination. Journal of Immunology. 2011; 187(8):3962-71.
•Shaochun Yuan, Huiling Liu, Ming Gu, Liqun Xu, Shengfeng Huang, Zhenhua Ren, and Anlong Xu. Characterization of the extrinsic apoptotic pathway in the basal chordate amphioxus. Science Signaling. 2010 Sep; 3(139):ra66.
•Shaochun Yuan, Kui Wu, Manyi Yang, Liqun Xu, Ling Huang, Huiling Liu, Xin Tao, Shengfeng Huang, and Anlong Xu. Amphioxus SARM Involved in Neural Development May Function as a Suppressor of TLR Signaling. Journal of Immunology. 2010 Jun; 184(12):6874-81.
•Juyong Zhang, Shengfeng Huang, Wei Wang, Anlong Xu, Yiquan Wang. 白氏文昌魚單個體基因組BAC文庫的構建 [Construction of genome BAC library for single Branchiostoma belcheri individual]遺傳[Yi Chuan]. 2010 Jan;32(1):67-72. In Chinese.
•Shaochun Yuan, Tong Liu, Shengfeng Huang, Tao Wu, Ling Huang, Huiling Liu, Xing Tao, Manyi Yang, Kui Wu, Yanhong Yu, Meiling Dong, Anlong Xu. Genomic and functional uniqueness of the TNF receptor-associated factor gene family in amphioxus, the basal chordate.Journal of Immunology. 2009 Oct;183(7):4560-8.
•Yanhong Yu, Huiqing Huang, Yan Wang, Yingcai Yu, Shaochun Yuan, Shengfeng Huang, Minming Pan, Kaixia Feng, Anlong Xu. A novel C1q family member of amphioxus was revealed to have a partial function of vertebrate C1q molecule. Journal of Immunology. 2008 Nov;181(10):7024-32.
•Shan Fan, Shangwu Chen, Yanhui Liu, Yiqun Lin, Hui Liu, Lei Guo, Bin Lin, Shengfeng Huang, Anlong Xu. Zebrafish TRIF, a Golgi-localized protein, participates in IFN induction and NF-kappaB activation. Journal of Immunology. 2008 Apr;180(8):5373-83.
•Yanghong Yu, Yingcai Yu, Huiqing Huang, Kaixia Feng, MingMing Pan, Shaochun Yuan, Shengfeng Huang, Tao Wu, Meiling Dong, Lei Guo, Shangwu Chen, Anlong Xu. A Short-Form C-Type Lectin from Amphioxus Acts as a Direct Microbial Killing Protein via Interaction with Peptidoglycan and Glucan.Journal of Immunology. 2007 Dec; 179(12):8425-34.
•Yu Yanhong, Yuan Shaochun, Yingcai Yu, Huiqing Huang, Kaixia Feng, Mingming Pan, Shengfeng Huang, Meiling Dong, Shangwu Chen and Anlong Xu. Molecular and biochemical characterization of galectin from amphioxus: primitive galectin of chordates participated in the infection processes. Glycobiology. 2007 Jul;17(7):774-783.
•Shaochun Yuan, Yanhong Yu, Shengfeng Huang, Tong Liu, Tao Wu, Meiling Dong, Shangwu Chen, Yingcai Yu, Anlong Xu. Bbt-TNFR1 and Bbt-TNFR2, two tumor necrosis factor receptors from Chinese amphioxus involve in host defense. Molecular Immunology. 2007 Feb; 44(5):756-762.
•Cuiling Yu, Meiling Dong, Xiaokun Wu, Shengguo Li, Shengfeng Huang, Jing Su, Jianwen Wei, Yang Shen, Chunyan Mou, Xiaojin Xie, Jianghai Lin, Shaochun Yuan, Xuesong Yu, Yanhong Yu, Jingchun Du, Shicui Zhang, Xuanxian Peng, Mengqing Xiang, Anlong Xu. Genes “waiting” for recruitment by adaptive immune system: The insights from amphioxus. Journal of Immunology. 2005 Mar;174(6):3493-3500.
•Meiling Dong, Yonggui Fu, Cuiling Yu, Jing Su, Shengfeng Huang, Xiaokun Wu, Jianwen Wei, Shaochun Yuan, Yang Shen，Anlong Xu. Identification and characterization of a homolog of an activation gene for the recombination activating gene 1 (RAG 1) in Amphioxus. Fish and Shellfish Immunology. 2005; 19(20:165-174.
