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Ruihua Wang*, Shengfeng Huang*, Xianan Fu, Guangrui Huang, Xinyu Yan, Zirui Yue, Shangwu Chen, Yingqiu Li & Anlong Xu. The conserved ancient role of chordate PIAS as a multilevel repressor of the NF-κB pathway. Scientific Reports. Sci Rep. 2017 Dec 6;7(1):17063. https://doi.org/10.1038/s41598-017-16624-7. *co-first author 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. https://doi.org/10.1093/bioinformatics/btx220. #corresponding author Jose Ricardo Poole*, ShengFeng Huang*, Anlong Xu, Justine Bayet and Pontarotti Pierre. The RAG transposon is active through the deuterostome evolution and domesticated in jawed vertebrates. Immunogenetics. 2017 Jun;69(6):391-400. https://doi.org/10.1007/s00251-017-0979-5. *co-first 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 Jul 7;11(7):e0157494. http://dx.doi.org/10.1371/journal.pone.0157494. #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. http://dx.doi.org/10.1016/j.cell.2016.05.032. *co-first author Jie Li, Rui Li, Leiming You, Anlong Xu#, Yonggui Fu and Shengfeng Huang#. Evaluation of two statistical methods provides insights into the complex patterns of alternative polyadenylation site switching. PLoS ONE. 2015 Apr 14; 10(4):e0124324. http://dx.doi.org/10.1371/journal.pone.0124324. #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. http://dx.doi.org/10.1038/ncomms6896. 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. http://dx.doi.org/10.1073/pnas.1405414111. *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 May; 70C: 54-67. http://dx.doi.org/10.1016/j.freeradbiomed.2014.02.007. *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 Sep 18; 34(12): 1642-1649. http://dx.doi.org/10.1002/humu.22435. *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. http://dx.doi.org/10.1371/journal.pone.0064279. *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 May; 22(8): 1581-1588. http://dx.doi.org/10.1101/gr.133652.111. *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 April 9; 33(7): 1099-1106. http://dx.doi.org/10.1002/humu.22085. *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. 2011 Oct 21; 286(42):36739-48. http://dx.doi.org/10.1074/jbc.M111.245944. *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. http://dx.doi.org/10.4049/jimmunol.1001824. *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. http://dx.doi.org/10.1101/gr.069674.107
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