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Jingfa Xiao
Jingfa Xiao

Professor

Administration

Email: xiaojf (AT) big.ac.cn

Tel: +86 108409-7443

PROFESSIONAL EXPERIENCE

  • Professor, Beijing Institute of Genomics, Chinese Academy of Sciences, China, 2012−Present

  • Associate Professor, Beijing Institute of Genomics, Chinese Academy of Sciences, China, 2007−2012

  • Postdoctoral Associate, Department of Chistry, Utah University, United States of America, 2005−2007

  •  Postdoctoral Associate, Institute of Materia Medica, Chinese Academy of Medical Sciences, 2003−2005


EDUCATION

  • PhD in Computational Chemistry and Biology, Jilin University, China, 1998−2003

  • BS in Department of Biology, Sichuan University, China, 1991−1995


RESEARCH INTERESTS

  • Large-scale Genome Variation in Health and Disease

  • Omics Data Integration and Mining

  • Genome Informatics for Precision Medicine


PROJECTS & RESOURCES

  •  ProPan: a comprehensive database for profiling prokaryotic pan-genome dynamics. https://ngdc.cncb.ac.cn/propan

  • TWAS Atlas: a curated knowledgebase of transcriptome-wide association studies. https://ngdc.cncb.ac.cn/twas

  • TSomVar: a tumor-only somatic and germline variant identification method with random forest. https://ngdc.cncb.ac.cn/biocode/tools/BT007299.

  • CancerSCEM: a database of single-cell expression map across various human cancers. https://ngdc.cncb.ac.cn/cancerscem

  • RefRGim: an intelligent reference panel reconstruction method for genotype imputation. https://github.com/shishuo16/RefRGim 

  • PADS Arsenal: a database of prokaryotic defense systems related genes. https://bigd.big.ac.cn/padsarsenal

  • NucMap: a database of genome-wide nucleosome positioning map across species. https://bigd.big.ac.cn/nucmap

  • VCGDB: a dynamic genome database of Chinese population. http://vcg.cbi.ac.cn/index.html

  • MTD: a mammalian transcriptomic database to explore gene expression regulation. http://mtd.cbi.ac.cn/

  • WikiCell: a unified resource platform for human transcriptomics research. http://wikicell.big.ac.cn/index.php/Human

  • PGAP: Pan-genomes Analysis Pipeline https://sourceforge.net/projects/pgap/files/

  • PanGP: A tool for quick analyzing bacterial pan-genome profile. https://pangp.zhaopage.com/faq.html

  • GAAP: Genome-organization-framework-Assisted Assembly Pipeline for the Prokaryotic Genome. http://gaap.big.ac.cn/

  • PGAP-X: Extension on pan-genome analysis pipeline. https://pgapx.zhaopage.com/

  • PGAweb: a web server for bacterial pan-genome analysis. http://pgaweb.vlcc.cn/


ACADEMIC ACTIVITIES

  • Academic Editor: Genomics, Proteomics & Bioinformatics 2012 -

  • Academic Editor: Frontiers of Data & Computing 2019 -

  • Academic Editor: MDPI Biology 2021 -

  • Associate Editor: Frontiers in Plant Science 2016 - 2018

  • Academic Editor: PLoS ONE 2013 - 2018

  • Academic Editor: China Science & Technology Resources Review 2018 -

  • Review Editor: Peer J 2013 -

  • Journal Reviewer: National Science Review, Communications Biology, Nucleic Acids Research, Bioinformatics, Briefings in Bioinformatics, Genomics, Database, BMC Microbiology, BMC Genomics, BMC Bioinformatics, Infection Genetics and Evolution, Frontiers in Genetics, Frontiers in Pharmacology, Frontiers in Microbiology, Frontiers in Plant Science, Chinese Bulletin of Life Sciences, Zoological Research, Genomics Proteomics & Bioinformatics, Journal of Plant Growth Regulation, Molecular Genetics and Genomics, PLoS ONE

  • Grant Referee: NSFC, CPSF, BSNF, Austrian Science Fund

  • Membership: Genetics Society of China, Computational Systems Biology Society of ORSC, Technical Committee on Biometric and Quality Control, Beijing Bioinformatics Research Society


PUBLICATIONS

  1. Lu M#, Zhang Y#, Yang F#, Mai J#, Gao Q, Shang Y, Qian Q, Jiang M, Zhang H, Liu J, Wang J, Zhang Z, Zhang Z, Zeng J*, Li J*, Xiao J*, TWAS Atlas: a curated knowledgebase of transcriptome-wide association studies. Nucleic Acids Res. 2023, 51:D1179-D1187.

  2. Zhang Y#, Zhang H#, Zhang Z, Qian Q, Zhang Z*, Xiao J*, ProPan: A comprehensive database for profiling prokaryotic pan-genome dynamics. Nucleic Acids Res. 2023, 51:D767-D776.

  3. Jiang S#, Qian Q#, Zhu T#, Zong W, Shang Y, Jin T, Zhang Y, Chen M, Wu Z, Chu Y, Zhang R, Luo S, Jing W, Zou D, Bao Y, Xiao J*, Zhang Z*, Cell Taxonomy: a curated repository of cell types with multi-faceted characterization. Nucleic Acids Res. 2023, 51:D853-D860.

  4. Xue Y*, Bao Y*, Zhang Z*, Zhao W*, Xiao J*, He S*, Zhang G*, Li Y*, Zhao G*, Chen R*, in CNCB-NGDC Members and Partners, Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2023. Nucleic Acids Res. 2023, 51:D18-D28.

  5. Li Z#, Liu L#, Feng C#, Qin Y, Xiao J, Zhang Z*, Ma L*, LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations. Nucleic Acids Res. 2023, 51:D186-D191.

  6. Duan G#, Wu G#, Chen X, Tian D, Li Z, Sun Y, Du Z, Hao L, Song S, Gao Y, Xiao J, Zhang Z, Bao Y, Tang B*, Zhao W*, HGD: an integrated homologous gene database across multiple species. Nucleic Acids Res. 2023, 51:D994-D1002.

  7. Shi S#, Wang Q#, Shang Y#, Bu C, Lu M, Jiang M, Zhang H, Yu S, Zeng J, Zhang Z, Du Z*, Xiao J*, TSomVar: a tumor-only somatic and germline variant identification method with random forest. Briefings in Bioinformatics. 2022, 23(5): bbac381.

  8. He L, Liu Q, Zhang B, Xiao J*, Jin Z*, Biomedical Applications Community Based on China High-Performance Computing Environment. CCF Transactions on High Performance Computing. 2022, 4:75-85. 

  9. Zheng X#, Zong W#, Li Z#, Ma Y, Sun Y, Xiong Z, Wu S, Bu C, Du Z, Xiao J*, Bao Y*, CCAS: One-stop and comprehensive interpretation server for somatic cancer genome. Frontiers in Genetics. 2022, 13:956781.

  10. Wu C#, Zhang Z#, Kang C, Zhang Q, Zhu W, Zhang Y, Zhang H, Xiao J*, Jin M*, The C-terminal repeat units of SpaA mediate adhesion of Erysipelothrix rhusiopathiae to host cells and regulate its virulence. MDPI Biology. 2022, 11:1010.

  11. Zeng J#, Zhang Y#, Shang Y#, Mai J, Shi S, Lu M, Bu C, Zhang Z, Zhang Z, Li Y, Du Z, Xiao J*, CancerSCEM: A database of single-cell expression map across various human cancers. Nucleic Acids Res. 2022, 50: D1147-D1155.

  12. Xue Y*, Bao Y*, Zhang Z*, Zhao W*, Xiao J*, He S*, Zhang G*, Li Y*, Zhao G*, Chen R*, in CNCB-NGDC Members and Partners, Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Res. 2022, 50: D27-D38.

  13. Zhang Y#, Zou D#, Zhu T#, Xu T#, Chen M#, Niu G, Zong W, Pan R, Jing W, Sang J, Liu C, Xiong Y, Sun Y, Zhai S, Chen H, Zhao W, Xiao J, Bao Y, Hao L*, Zhang Z*, Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels. Nucleic Acids Res. 2022, 50: D1016-D1024.

  14. Li R, Zhang X, Song S, Zou D, Xiao J, Zhao W, Zhang Z, Bao Y, Safety Management and Application of Genomics Data. Big Data Research. 2022, 8(1): 37-45.

  15. Shi S, Qian Q, Yu S, Wang Q, Wang J, Zeng J, Du Z*, Xiao J*, RefRGim: an intelligent reference panel reconstruction method for genotype imputation with convolutional neural networks. Briefings in Bioinformatics. 2021, 22(6):bbab326.

  16. Kang Y#, Yuan L#, Shi X#, Chu Y#, He Z#, Jia X, Lin Q, Ma Q, Wang J, Xiao J, Hu S, Gao Z*, Chen F*, Yu J*, A Fine-scale Map of Genome-wide Recombination in Population Divergence of Escherichia coli. Briefings in Bioinformatics. 2021, 22(4):bbaa335.

  17. Jiang M#, Bu C#, Zeng J, Du Z*, Xiao J*, Applications and challenges of high performance computing in genomics. CCF Transactions on High Performance Computing. 2021, 3:344-352.

  18. Teng X#, Li Q#, Li Z#, Zhang Y#, Niu G, Xiao J, Yu J*, Zhang Z*, Song S*, Compositional Variability and Mutation Spectra of Monophyletic SARS-CoV-2 Clades. Genomics, Proteomics & Bioinformatics. 2021,18:648-663.

  19. Zhang S#, Chen X#, Chen T#, Zhu J, Tang B, Wang A, Dong L, Zhang Z, Sun Y, Yu C, Zhai S, Sun Y, Chen H, Du Z, Xiao J, Zhang Z, Bao Y, Wang Y*, Zhao W*, Genome Sequence Archive for Human. Hereditas(Beijing). 2021, 43(10):988-993.

  20. Song S#, Ma L#, Zou D#, Tian D#, Li C#, Zhu J#, Chen M, Wang A, Ma Y, Li M, Teng X, Cui Y, Duan G, Zhang M, Jin T, Shi C, Du Z, Zhang Y, Liu C, Li R, Zeng J, Hao L, Jiang S, Chen H, Han D, Xiao J, Zhang Z*, Zhao W*, Xue Y*, Bao Y*, The global landscape of SARS-CoV-2 genomes, variants, and haplotypes in 2019nCoVR. Genomics, Proteomics & Bioinformatics. 2021, 18:749-959.

  21. Xue Y*, Bao Y*, Zhang Z*, Zhao W*, Xiao J*, He S*, Zhang G*, Li Y*, Zhao G*, Chen R*, in CNCB-NGDC Members and Partners, Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Res. 2021, 49: D18-D28.

  22. Li Z, Liu L, Jiang S, Li Q, Feng C, Du Q, Zou D, Xiao J, Zhang Z*, Ma L*, LncExpDB: an expression database of human long non-coding RNAs. Nucleic Acids Res. 2021, 49: D962-D968.

  23. Lyu W, Meng Q, Xiao J, Li J, Wang J, Qiu Z, Song X, Zhu H, Shao C, Chu Y, Zhou Q, Li T, Pierre R, Yu J, Han Y*, Kang Y*, Gut lactate-producing Bacteria Promote CD4 T Cell Recovery on Anti-retroviral Therapy in HIV-infected Patients, Computational and Structural Biotechnology Journal. 2021, 19:2928-2937.

  24. Gong Z, Zhu J, Li C, Jiang S, Ma L, Tang B, Zou D, Chen M, Sun Y, Song S, Zhang Z, Xiao J, Xue Y, Bao Y, Du Z*, Zhao W*, An online coronavirus analysis platform from the National Genomics Data Center, Zoological Research. 2020, 41(6): 705-708.

  25. Zhang Z*, Song S, Yu J, Zhao W, Xiao J, Bao Y, The Elements of Data Sharing. Genomics, Proteomics & Bioinformatics. 2020, 18:1-4.

  26. Zhang Z*, Zhao W*, Xiao J*, Bao Y*, He S*, Zhang G*, Li Y*, Zhao G*, Chen R*, in National Genomics Data Center Members and Partners, Database Resources of the National Genomics Data Center in 2020. Nucleic Acids Res. 2020, 48: D24-D33.

  27. Zhang Y, Zhang Z*, Zhang H, Zhao Y, Zhang Z, Xiao J*, PADS Arsenal: a database of prokaryotic defense systems related genes. Nucleic Acids Res. 2020, 48: D590-D598.

  28. Guan Y, Chen M, Ma Y, Du Z, Yuan N, Li Y, Xiao J*, Zhang Y*, Genome and Dual-RNA-Seq Data Analyses Reveal the Inter-action between Ilyonectria destructans CD-56 and Ginseng. Scientific Reports. 2020, 10:1586.

  29. Zhao Y, Wang J, Liang F, Liu Y, Wang Q, Zhang H, Jiang M, Zhang Z, Zhao W, Bao Y, Zhang Z, Wu J, Asmann Y*, Li R*, Xiao J*, NucMap: a database of genome-wide nucleosome positioning map across species. Nucleic Acids Res. 2019, 47: D163-D169.

  30. Du Z, Ma L, Qu H, Chen W, Zhang B, Lu X, Weibo W, Sheng X, Sun Y, Li W, Lei M, Qi Q, Yuan N, Shi S, Zeng J, Wang J, Yang Y, Liu Q, Hong Y, Dong L, Zhang Z, Zou D, Wang Y, Song S, Liu F, Fang X, Chen H, Liu X, Xiao J*, Zeng C*, Whole genome analyses of Chinese population and the de novo assembly of a northern Han genome. Genomics, Proteomics & Bioinformatics. 2019, 17:229-247.

  31. Zhang Z*, Zhao W*, Xiao J*, Bao Y*, in BIG Data Center Members, Database Resources of the BIG Data Center in 2019. Nucleic Acids Res. 2019, 47: D8-D14.

  32. Tang B, Zhou Q, Dong L, Li W, Zhang X, Lan L, Zhai S, Xiao J, Zhang Z, Bao Y, Zhang Y, Wang G*, Zhao W*, iDog: an integrated resource for domestic dogs and wild canids. Nucleic Acids Res. 2019, 47: D793-D800. 

  33. Chen X, Zhang Y, Zhang Z, Zhao Y, Sun C, Yang M, Wang J, Liu Q, Zhang B, Chen M, Yu J, Wu J, Jin Z*, Xiao J*, PGAweb: a web server for bacterial pan-genome analysis. Frontiers in Microbiology. 2018, 9:fmicb.2018.01910.

  34. Zhao Y, Sun C, Zhao D, Zhang Y, You Y, Jia X, Yang J, Wang L, Wang J, Fu H, Kang Y, Chen F, Yu J*, Wu J, Xiao J*, PGAP-X: Extension on pan-genome analysis pipeline. BMC Genomics. 2018, 19Suppl 1:36.

  35. Shi S, Yuan N, Yang M, Du Z, Wang J, Sheng X, Wu J*, Xiao J*, Comprehensive assessment of genotype imputation performance. Human Heredity, 2017/2018, 83:107-116.

  36. Song S, Teng X, Xiao J*, Database resources of the reference genome and genetic variation maps for the Chinese population. Hereditas. 2018, 4011:1048-1054.

  37. Li R, Liang F, Li W, Zou D, Sun S, Zhao Y, Zhao W, Bao Y, Xiao J, Zhang Z, MethBank 3.0: a database of DNA methylomes across a variety of species. Nucleic Acids Res. 2018, 46: D288-D295.

  38. Song S, Tian D, Li C, Tang B, Dong L, Xiao J, Bao Y, Zhao W, He H, Zhang Z, Genome Variation Map: a data repository of genome variations in BIG Data Center. Nucleic Acids Res. 2018, 46: D121-D126.  

  39. Zhang Z*, Zhao W*, Xiao J*, Bao Y*, in BIG Data Center Members, Database Resources of the BIG Data Center in 2018. Nucleic Acids Res. 2018, 46: D14-D20.

  40. Sang J, Wang Z, Li M, Cao J, Niu G, Xia L, Zou D, Wang F, Xu X, Han X, Fan J, Yang Y, Zuo W, Zhang Y, Zhao W, Bao Y, Xiao J, Hu S, Hao L, Zhang Z, ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalization. Nucleic Acids Res. 2018, 46: D121-D126.

  41. Sheng X, Wu J, Sun Q, Xian F, Li X, Sun M, Fang W, Chen M, Yu J*, Xiao J*, MTD: A mammalian transcriptomic database to explore gene expression regulation. Briefings in Bioinformatics. 2017, 18:28-36.

  42. Su W, Li X, Chen M, Dai W, Sun S, Wang S, Sheng X, Sun S, Gao C, Hou A, Zhou Y, Sun B, Gao F, Xiao J, Zhang Z, Jiang C, Synonymous Codon Usage Analysis of Hand, Foot and Mouth Disease Viruses: a Comparative Study on Coxsackievirus A6, A10, A16, and Enterovirus 71 from 2008 to 2015. Infection, Genetics and Evolution. 2017, 53: 212-217.

  43. Zhang Z*, Zhao W*, Xiao J*, et al, The BIG Data Center: from deposition to integration to translation. Nucleic Acids Research. 2017, 45:D18-D24.

  44. Wang Y, Song F, Zhu J, Zhang S, Yang Y, Chen T, Tang B, Dong L, Ding N, Zhang Q, Bai Z, Dong X, Chen H, Sun M, Zhai S, Sun Y, Yu L, Lan L, Xiao J, Fang X, Lei H, Zhang Z, Zhao W. GSA: Genome Sequence Archive. Genomics, Proteomics & Bioinformatics. 2017, 15:14-18.

  45. Yuan L, Yu Y, Zhu Y, Li Y, Li C, Li R, Ma Q, Siu G, Yu Y, Xiao J*, Kang Y*, GAAP: Genome-organization-framework-Assisted Assembly Pipeline for the Prokaryotic Genome. BMC Genomics. 2017, 18Suppl 1:952.

  46. Jin J, Li R, Jiang C, Zhang R, Ge X, Liang F, Sheng X, Dai W, Chen M, Wu J, Xiao J*, Su W*, Transcriptome Analysis Reveals Dynamic Changes in Coxsackievirus A16 Infected HEK 293T Cells. BMC Genomics. 2017, 18Suppl 1:933.

  47. Liang F, Wang J, Shi S, Xiao J*, Li R*, BS-RNA: An efficient mapping and annotation tool for RNA bisulfite sequencing data. Comput Biol Chem. 2016, 65:173-177.

  48. Xue Y, Lameijer E, Ye K, Zhang K, Chang S, Wang X, Wu J, Gao G, Zhao F, Li J, Han C, Xu S, Xiao J, Yang X, Ying X, Zhang X, Chen W, Liu Y, Zhang Z, Huang K, Yu J, Precision Medicine: What Challenges Are We Facing? Genomics, Proteomics & Bioinformatics. 2016, 14:253-261.

  49. Sun S, Xiao J, Zhang H, Zhang Z, Pangenome evidence for higher codon usage bias and stronger translational selection in core genes. Frontiers in Microbiology. 2016, 7: fmicb.2016.01180.

  50. Tian X, Zhang Z, Yang T, Chen M, Li J, Chen F, Yang J, Li W, Zhang B, Zhang Z, Wu J, Zhang C, Long L*, Xiao J*, Comparative genomics analysis of Streptomyces species reveals their adaptation to the marine environment and their diversity at the genomic level. Frontiers in Microbiology. 2016 7: fmicb.2016.00998.

  51. Zhu L, Zhong J, Jia X, Liu G, Kang Y, Dong M, Zhang X, Li Q, Yue L, Li C, Xie J, Zhang B, Lei M, Xiao J, Yan J, Chen S, Lv L, Zhu B, Huang H, Chen F, Precision methylome characterization of Mycobacterium tuberculosis complex MTBC using PacBio Single-Molecule Real-Time SMRT Technology. Nucleic Acids Res. 2016, 44:730-743.

  52. The IC4R Project Consortium*, Information Commons for Rice IC4R. Nucleic Acids Res. 2016, 44: D1172-D1180.

  53. Chen M, Hu Y, Liu J, Wu Q, Zhang C, Yu J, Xiao J*, Wei F*, Wu J*, Improvement of genome assembly completeness and identification of novel full-length protein-coding genes by RNA-seq in the giant panda genome. Scientific Reports. 2015, 5:18019.

  54. Wang X, Chen M, Xiao J, Hao L, Crowley D, Zhang Z, Yu J, Huang N, Wu J, Naphthenic Acid Degradation and Metal Resistance in Cupriavidus gilardii CR3. PLoS ONE. 2015, 108: e0132881.

  55. Xiao J*, Zhang Z, Wu J and Yu J, A Brief Review of Online Software Packages for Pangenomics. Genomics, Proteomics & Bioinformatics. 2015, 13:73-76.

  56. Jia X, Yu J, Wu J, Xiao J*. A Systematic Bioinformatics Research of Small Proteins in Plants. Plant Omics Journal. 2015, 82:112-121.

  57. Zhao Y, Yin J, Guo H, Zhang Y, Xiao W, Sun C, Wu J, Qu X, Yu J, Wang X*, Xiao J*, The complete chloroplast genome provides insight into the evolution and polymorphism of Panax ginseng. Frontiers in Plant Science. 2015, 5:696.

  58. Kang Y, Gu C, Yuan L, Wang Y, Zhu Y, Li X, Luo Q, Xiao J, Jiang D, Qian M, Khan A, Chen F, Zhang Z, Yu J, Flexibility and Symmetry of Prokaryotic Genome Rearrangement Reveal Lineage-Associated Core-Gene-Defined Genome Organizational Frameworks. mBio. 2014, 5: e01867-14.

  59. Xu P, Zhang X, Wang X, et al., Xiao J, Wu J, Zhang Z, Yu J, Sun X, Genome sequence and genetic diversity of the common carp, Cyprinus carpio. Nature Genetics. 2014, 46:1212-1221.

  60. Wang W#, Feng B#, Xiao J#, Xia Z, et al, Peng M, Cassava Genome from a Wild Ancestor to Cultivated Varieties. Nature Communications. 2014, DOI:10.1038/ncomms6110.

  61. Wu J, Xiao J, Zhang Z, Wang X, Hu S, Yu J. Ribogenomics: the Science and Knowledge of RNA. Genomics, Proteomics & Bioinformatics. 2014, 12:57-63.

  62. Zhao Y, Jia X, Yang J, Ling Y, Zhang Z, Yu J, Wu J, Xiao J*, PanGP: A tool for quick analyzing bacterial pan-genome profile. Bioinformatics. 2014, 30:1297-1299.

  63. Zhang Z, Jin Z, Zhao Y, Zhang Z, Li R, Xiao J, Wu J, A systematic study on GPCR prototypes: did they really evolve from prokaryotic genes?. IET System Biology. 2014, 84:154-161.

  64. Ling Y, Jin Z, Su M, Zhong J, Zhao Y, Yu J*, Wu J*, Xiao J*, VCGDB: a dynamic genome database of Chinese population. BMC genomics. 2014, 15:265.

  65. Wang X, Zhang Z, Hao Q, Wu J, Xiao J*, Jing H*, Complete Genome Sequence of Acinetobacter baumannii ZW85-1. Genome Announcement. 2014, 2: e01083-13.

  66. Zhou Y, Gong W, Xiao J, Wu J, Pan L, Li X, Wang X, Wang W, Hu S, Yu J, Transcriptomic analysis reveals key regulators of mammogenesis and the pregnancy-lactation cycle. Sci China Life Sci. 2014, 573:340-355.

  67. Sun J, Wang L, Wu S, Wang X, Xiao J, Chi S, Liu C, Ren L, Zhao Y, Liu T, Yu J, Transcriptome-wide evolutionary analysis on essential brown algae (Phaeophyceae) in China. Acta Oceanologica Sinica. 2014, 332:13-19.

  68. Choo S, Wee W, Ngeow Y, Mitchell W, Tan J, Wong G, Zhao Y, Xiao J, Genomic reconnaissance of multiple, clinically derived isolates of the emerging human pathogen Mycobacterium abscessus reveals high evolutionary potential. Scientific Reports. 2014, 4:4061.

  69. Wang F, Zhong J, Zhao Y, Xiao J, Liu J, Dai M, Zheng G, Zhang L, Yu J, Wu J, Duan B, Genome sequencing of high-penicillin producing industrial strain of Penicillium chrysogenum. BMC genomics. 2014, 15 Suppl 1, S11.

  70. Zhang Z, Sang J, Ma L, Wu G, Wu H, Huang D, Zou D, Liu S, Li A, Hao L, Tian M, Xu C, Wang X, Wu J, Xiao J, Dai L, Chen L, Hu S, Yu J, RiceWiki: a wiki-based database for community curation of rice genes. Nucleic Acids Res, 2014, 42: D1222-D1228.

  71. Su M, Ling Y, Yu J, Wu J, Xiao J*, Small proteins: untapped area of potential biological importance. Frontiers in Genetics, 2013, 4:286.

  72. Wu J#, Xiao J#, Wang L, Zhong J, Yin H, Wu S, Yu J, Systematic Analysis of Intron Length and Size Parameters in Different Taxa. Sci China Life Sci, 2013, 56:1-7.

  73. Zhang R, Hao L, Wang L, Chen M, Wen Li, Li R, Yu J, Xiao J*, Wu J*, Gene expression analysis of induced pluripotent stem cells from aneuploidy chromosomal syndromes. BMC Genomics. 2013, Suppl 6, S8.

  74. Chen M#, Xiao J#, Zhang Z, Liu J, Wu J, Yu J, Identification of Human HK Genes and Gene Expression Regulation Study in Cancer from Transcriptomics Data Analysis. PLoS ONE. 2013, 8:e54082.

  75. Dai L, Tian M, Wu J, Xiao J, Wang X, Cheung K, Townsend J, Zhang Z, Increasing participation in biological knowledge wikis through contribution quantification and explicit authorship. Bioinformatics. 2013, 29:1837-1839.

  76. Dai L, Xu C, Tian M, Shang J, Zou D, Ang Li, Liu G, Chen F, Wu J, Xiao J, Wang X, Yu J, Zhang Z, Community intelligence in knowledge curation: an application to managing scientific nomenclature. PLoS ONE. 2013, 8:e56961.

  77. Zhang Z, Wu J, Yu J, Xiao J*, A mini-review on the evolution of GPCR: conservation and diversification. Open Journal of Genetics. 2012, 2:11-17.

  78. Dai L, Gao X, Marchand B, Guo Y, Xiao J, Zhang Z. Bioinformatics clouds for big data manipulation. Biology Direct. 2012, 7:143.

  79. Yang L, Liu W, Tang Z, Xiao J, Hu S, Deng H, Feng Q, Evolutional and Functional analysis of Chymotrysin protease in Spodoptera litura. Archives of insect Biochemistry and Physiology. 2012, 81:121-135.

  80. Liang W, Zhao Y, Chen C, Cui X, Yu J, Xiao J*, Kan B*, Pan-genome provides insights into genome variation and evolution in Salmonella Paratyphi A. PLoS ONE. 2012, 7: e45346.

  81. Wu J#, Xiao J#, Yu J, Latest notable achievements in genomics. Sci China Life Sci, 2012, 55, 645-648.

  82. Zhao D, Wu J, Zhou Y, Gong W, Xiao J*, Yu J*, WikiCell: a unified resource platform for human transcriptomics research. OMICS: A Journal of Integrative Biology. 2012, 166:357-362.

  83. Ge Y, Wu J, Xia Y, Yang M, Xiao J*, Yu J*, Molecular Dynamics Simulation of the Complex PBP-2x with Drug Cefuroxime to Explore the Drug Resistance Mechanism of Streptococcus suis R61. PLoS ONE. 2012, 7:e35941.

  84. Zhao Q, Xiao J*, Yu J*. An Integrated Analysis of Lineage-specific Small Proteins across Eight Eukaryotes Reveals Functional and Evolutionary Significance. Progress in Biochemistry and Biophysics. 2012, 39:359-367.

  85. Zhang Z, Xiao J, Wu J, Zhang H, Liu G, Wang X, Lin Dai, ParaAT: a parallel tool for constructing multiple protein-coding DNA alignments. Biochemical and Biophysical Research Communications. 2012, 419:779-781.

  86. Zhao Y, Wu J, Yang J, Sun S, Xiao J*, Yu J*, PGAP: Pan-genomes Analysis Pipeline. Bioinformatics. 2012, 28:416-418.

  87. Chen C, Zhang Z, Ding A, Wu J, Xiao J, Sun Y, Bar-Coded Pyrosequencing Reveals the Bacterial Community during Microcystis water Bloom in Guanting Reservoir, Beijing. Procedia Engineering. 2011, 18:341-346.

  88. Zhang A, Yang M, Hu P, Wu J, Chen B, Hua Y, Yu J, Chen H, Xiao J*, Jin M*, genomic analysis of Streptococcus suis reveals significant genomic diversity among different serotypes. BMC Genomics. 2011, 12:523.

  89. Hu P, Yang M, Zhang A, Wu J, Chen B, Hua Y, Yu J, Chen H, Xiao J*, Jin M*, Comparative genomics study of multi-drug-resistance mechanisms in the antibiotic-resistant Streptococcus suis R61 strain. PLoS ONE. 2011, 6: e24988.

  90. Yan Ge, Wu J, Xiao J*, Yu J*. Exploration of the binding mode of α/β-type small acid soluble proteins SASPs with DNA, J. Mol. Model. 2011, 17:3183-3193.

  91. Du Z, Zhang Z, Miao T, Wu J, Lü G, Yu J, Xiao J*, and Chen G, Draft Genome Sequence of a Novel Agar-Digesting Marine Bacterium HQM9. Journal of Bacteriology. 2011, 193:4557-4558.

  92. Hu P, Yang M, Zhang A, Wu J, Chen B, Hua Y, Yu J, Chen H, Xiao J*, Jin M*, Complete Genome Sequence of Streptococcus suis Serotype 3 Strain ST3. Journal of Bacteriology. 2011, 193:3428-3429.

  93. Yang M, Ge Y, Wu J, Xiao J*, Yu J*, study of mitochondria respiratory chain proteins: Toward the understanding of protein-protein interaction. Journal of Genetics and Genomics. 2011, 38:201-207.

  94. Hu P, Yang M, Zhang A, Wu J, Chen B, Hua Y, Yu J, Xiao J*, Jin M*, Complete Genome Sequence of Streptococcus suis serotype 14 Strain JS14. Journal of Bacteriology. 2011, 193:2375-2376.

  95. Wu J, Xiao J, Zhang R, Yu J, DNA sequencing leads to genomics progress in China. Science in China Series C, 2011, 54:290-292.

  96. Zhao Y, Xiao J*, Homology Modeling and Molecular Dynamics Simulation Studies of Human Type 1 3-Hydroxysteroid Dehydrogenase: Toward the Understanding of Cofactor Specificity. J. Comp. Chem. 2011, 32:33-42.

  97. Zhu J, He F, Wang D, Liu K, Huang D, Xiao J, Wu J, Hu S, Yu J, A Novel Role for Minimal Introns: Routing mRNAs to the Cytosol. PLoS ONE. 2010, 5:e10144.

  98. Xiao J, Yu J, On the Genetic Code and Its Origin. Science in China Series C, 2009, 39:717-726.

  99. Wang F, Xiao J*, Pan L, Yang M, Zhang G, Yu J*, A Systematic Study of Mini-proteins in Bacterial and Archaea. PLoS ONE. 2008, 3:e4027.

  100. Xiao J, Yu J, A Scenario on the Stepwise Evolution of the Genetic Code. Genomics, Proteomics & Bioinformatics. 2007, 5:1.

  101. Xiao J, Guo Z, Guo Y, et al, Computational Study of Human Phosphomannose Isomerase: Insights from Homology Modeling and Molecular Dynamics Simulation of Enzyme Bound Substrate. J. Mol. Graph. Model. 2006, 25, 289.

  102. Xiao J, Guo Z, Guo Y, et al, Inhibitory mode of pyrazolo[1,5-b]pyridazin series derivatives against GSK-3: molecular docking and 3D-QSAR analyses. Protein. Eng. Des. Sel. 2006, 19, 47.

  103. Guo C, Guo Y, Guo Z, Xiao J, Chu F, Design, Synthesis and in vitro Evaluation of Thiazole Derivatives of Naproxen as Cyclooxygenase-2 Inhibitors. Acta Chimica Sinica. 2006, 64, 1559.

  104. Xiao J, Guo Z, Guo Y, Chu F, Sun P, Quantitative Structure-Activity Relationship of Dipeptidyl Peptidase IV Inhibitors. Acta Chimica Sinica. 2005, 63, 757.

  105. Zhang Y, Li Z, Xiao J, Sun M, Li T, Sun C, On the homology modeling and docking studies for hepatitis B surface antigen fragment. Chemical Journal of Chinese University. 2005, 26, 102.

  106. Guo Y, Xiao J, Guo Z, et al, Exploration of a binding mode of indole amide analogues as potent histone deacetylase inhibitors and 3D-QSAR analyses. Bioorganic. Med. Chem. 2005, 13, 5424.

  107. Zhen Q, Li Z, Xiao J, et al, Homology modeling and PAPS ligand cofactor binding study of bovine phenol sulfotransferase. J. Mol. Model. 2005, 11, 97.

  108. Xiao J, Li Z, Sun M, et al, Homology modeling and molecular dynamics study of GSK3/SHAGGY-like kinase. Comp. Bio. Chem. 2004, 3, 179.

  109. Xiao J, Li Z, Sun C, Homology modeling and molecular dynamics studies of a novel C3-like ADP-ribosyltransferase. Bioorganic. Med. Chem. 2004, 12, 2035.