A secure visualization platform for pathogenic genome analysis with an accurate reference database  

作　　者：Guomei Fan Chongye Guo Qian Zhang Dongmei Liu Qinglan Sun Zhigang Cui Haijian Zhou Yuanchun Zhou Zhibin Guo Juncai Ma Linhuan Wu 

机构地区：[1]Microbial Resource and Big Data Center,Institute of Microbiology,Chinese Academy of Sciences,Beijing 100101,China [2]Chinese National Microbiology Data Center(NMDC),Beijing 100101,China [3]National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases,National Institute for Communicable Disease Control and Prevention,Chinese Center for Disease Control and Prevention,Beijing 102206,China [4]Computer Network Information Center,Chinese Academy of Sciences,Beijing 100190,China [5]State Key Laboratory of Microbial Resources,Institute of Microbiology,Chinese Academy of Sciences,Beijing 100101,China

出　　处：《Biosafety and Health》2024年第4期235-243,共9页生物安全与健康（英文）

基　　金：supported by National Key Research and Development Program of China,China(2021YFC2300900).

摘　　要：Investigating the genetic and developmental characteristics,infection transmission attributes,and epidemiological trends of pathogens using genomic data represents the foundation for pathogen surveillance and is a crucial prerequisite for guaranteeing global health security.To meet the analytical demands of research relating to pathogen prevention and control,we designed a secure visualization system capable of pathogen genome assembly,annotation,species identification,sequence typing,antibiotic resistance and virulence analysis,genomic mobile element and transferable resistance gene annotation,and phylogenetic tree reconstruction.For highly pathogenic organisms requiring complete data protection,we have developed a secure computing tool that utilizes a trusted execution environment,is combined with blockchain and privacy computing technologies,and is specifically designed for nucleotide basic local alignment search tool(BLASTn)comparison analysis.This technological advancement offers scientific support for in‐depth investigations into pathogen transmission and epidemiological mechanisms,environmental adaptability,evolutionary trends,and immune evasion mechanisms,as well as the identification of new or emerging pathogen strains.This,in turn,aids efforts in infectious disease prevention,treatment,and research.

关 键 词：Pathogen surveillance One-stop analysis tools Sequence typing Horizontal transfer Secure computing 

分 类 号：TP311.13[自动化与计算机技术—计算机软件与理论] R-05[自动化与计算机技术—计算机科学与技术]