在岗研究生导师情况介绍
所系名称植生生态研究所
性别男
专业名称生物信息学
技术职务研究员
行政职务课题组长
Mail地址lixuan@sippe.ac.cn
指导博士
生总数3指导硕士
生总数3已毕业学生通讯地址中国上海枫林路300号
目前博士
生数2目前硕士
生数1目前在校生邮政编码200032
研究方向生物信息学和系统进化
研究工作生物信息课题组负责植生生态所的生物信息学平台建设。生物信息组研究工作主要包括如下方向：
（1）高通量组学数据整合及Meta分析的算法研究
（2）模式动植物的功能基因组分析和系统进化研究
（3）生物系统的基因调控网络及小分子扰动的建模分析
（4）蛋白质三级结构建模和分子动态模拟
获奖情况2007年获上海市“白玉兰”科技人才基金
2010年入选上海市“浦江人才”计划
2010年入选中国科学院“平台百人”计划
2012年获明治乳业生命科学奖
指导研究
生情况
个人简介1988年获北京大学生物系学士学位
1996年获美国StLouisUniversity生物化学博士学位
1997-2000年美国DukeUniversity博士后
2002年获美国NorthCarolinaStateUniversity计算机工程硕士学位
近期论文
PanB,ShengJ,SunW,ZhaoY,HaoP*,LiX*.OrysPSSP:acomparativeplatformforsmallsecretedproteinsfromriceandotherplants.NucleicAcidsRes2012;DOI:10.1093/nar/gks1090.
ZhangXW,JiaLJ,ZhangY,JiangG,LiX,ZhangD,andTangWH.Inplantastage-specificfungalgeneprofilingelucidatesthemolecularstrategiesofFusariumgraminearumgrowinginsidewheatcoleoptiles.PlantCell2012;24(12):5159-76.
WangY,YuY,PanB,HaoP,LiY,ShaoZ,XuX*andLiX*.Optimizinghybridassemblyofnext-generationsequencedatafromEnterococcusfaecium:amicrobewithhighlydivergentgenome.BMCSystemsBiology2012;6(Suppl3):S21.
YuS,ZhengL,YuY,LiY,WangY,MaC,LiY,LiX*andHaoP*.Across-speciesanalysismethodtoanalyzeanimalmodels’similaritytohuman’sdiseasestate.BMCSystemsBiology2012;6(Suppl3):S18.
ShaoW,ZhaoQ-Y,WangXY,XuX-Y,TangQ,LiM,LiX*andXuY-Z*.Alternativesplicingandtrans-splicingeventsrevealedbyanalysisoftheBombyxmoritranscriptome.RNA2012;18(7):1395-407.
PingJ,WangY,YuY,LiYX,LiX*,HaoP*.Acomparativeanalysisoftissuegeneexpressiondatafromhigh-throughputstudies.ChineseScienceBulletin2012;57(22):2920-2927.
WangJ-F,HaoP,LiY-X,DaiJ-L,LiX.Explorationofconformationaltransitioninthearyl-bindingsiteofhumanFXausingmoleculardynamicssimulations.JMolModel2012;18(6):2717-25.
WangYJ,WangJF,PingJ,YuY,WangY,LianP,LiX,LiYX,HaoP.ComputationalStudiesontheSubstrateInteractionsofInfluenzaAVirusPB2Subunit.PLoSOne2012;7(9):e44079.
WangYJ,WangJF,LiX,ShaoZF,LiYX,HaoP.NegativelycooperativebindingpropertiesofhumanCytochromeP4502E1withmonocyclicSubstrates.CurrDrugMetab2012;13(7):1024-31.
ChenY,LiuF,YangB,LuA,WangS,WangJ,LingQZ,LiX,BeerntsenBT,LingE.
SpecificaminoacidsaffectingDrosophilamelanogasterprophenoloxidaseactivityinvitro.DevCompImmunol2012;38(1):88-97
LiuF,ChenY,YangB,WangJ,PengQ,ShaoQ,LiX,BeerntsenBT,XuY,LiJ,YuXQ,LingE.DrosophilamelanogasterprophenoloxidasesrespondinconsistentlytoCu(2+)andhavedifferentactivityinvitro.DevCompImmunol2012;36(3):619-28
ZhaoQ-Y,WangY,KongY-M,LuoD,LiX*andHaoP*.Optimizingdenovotranscriptomeassemblyfromshort-readRNA-Seqdata:acomparativestudy.BMCBioinformatics2011;12(Suppl14):S2.
LiY,TuK,ZhengS,WangJ,LiY-X,HaoP,LiX*.Associationoffeaturegeneexpressionwithstructuralfingerprintsofchemicalcompounds.JBioinformComputBiol2011;9(4):503-19
ZhongY,ChangX,CaoX,ZhangY,ZhengH-J,ZhuY-Z,CaiC-S,LiY-Y,ZhaoG-P,WangS-Y,LiY-X*,ZengR*,LiX*,GuoX-K*.ComparativeProteogenomicAnalysisoftheLeptospirainterrogansVirulenceAttenuatedStrainIPAVagainstthePathogenicStrain56601.CellResearch2011;21(8):1210-29.
HaoP,ZhengH,YuY,DingG,GuW,ChenS,YuZ,RenS,OdaM,KonnoT,WangS,LiX*,JiZ-S*andZhaoG*.Completesequencingandpan-genomicanalysisofLactobacillusdelbrueckiisubsp.bulgaricusrevealitsgeneticbasisforindustrialyogurtproduction.PLoSOne2011;6(1):e15964.
WeiW,LiuF,LiuL,LiZ,ZhangX,JiangF,ShiQ,ZhouX,ShengW,CaiS,LiX*,XuY*,NanP*.DistinctmutationsinMLH1andMSH2genesinHereditaryNon-polyposisColorectalCancer(HNPCC)familiesfromChina.BMBRep2011;44(5):317-22.
LiZ,LiuX,WenJ,XuY,ZhaoX,LiX,LiuL,ZhangX.DRUMS:ahumandiseaserelateduniquegenemutationsearchengine.HumMutat2011;32(10):E2259-65.
YuY,XuT,YuY,HaoP*,LiX*.Associationoftissuelineageandgeneexpression:conservativelyanddifferentiallyexpressedgenesdefinecommonandspecialfunctionsoftissues.BMCBioinformatics2010;11(Suppl11):S1.
XuT,YuY,YuT,YuY,HaoP*,LiX*.RevealingparasiteinfluenceinmetabolicpathwaysinApicomplexainfectedpatients.BMCBioinformatics2010;11(Suppl11):S13.
TangX,ZhangZY,ZhangWJ,ZhaoXM,LiX,ZhangD,LiuQQ,TangWH.Globalgeneprofilingoflaser-capturedpollenmothercellsindicatesmolecularpathwaysandgenesubfamiliesinvolvedinricemeiosis.PlantPhysiol2010;154(4):1855-70.
韦雯倩,南蓬,陈燕,张晓艳,李轩,刘雷,李作峰.Protégé的文本标注工具在药物知识表示中的应用及其比较.复旦学报2009;48（1):127-133.
LiY,HaoP,ZhengS,TuK,FanH,ZhuR,DingG,DongC,WangC,LiX,ThiesenHJ,ChenYE,JiangH,LiuL,LiY.GeneExpressionModulebasedChemicalFunctionSimilaritySearch.NucleicAcidsRes2008;36(20):e137.
LiX,TuL,MurphyPG,KadonoT,SteeberDA,TedderTF.CHST1andCHST2sulfotransferaseexpressionbyvascularendothelialcellsregulatesshear-resistantleukocyterollingviaL-selectin.JLeukocBiol2001;69:565-574.
LiXandTedderTF.CHST1andCHST2sulfotransferasesexpressedbyhumanvascularendothelialcells:cDNAcloning,expression,andchromosomallocalization.Genomics1999;55:345-347.
TuL,MurphyPG,LiX,TedderTF.L-selectinligandsexpressedbyhumanleukocytesareHECA-452antibody-definedcarbohydrateepitopespreferentiallydisplayedbyP-selectinglycoproteinligand-1.JImmunol1999;163:5070-5078.
LiX,SteeberDA,TangMLK,FarrarMA,PerlmutterRM,andTedder,TF.RegulationofL-Selectin-mediatedRollingthroughReceptorDimerization.JExpMed1998;188:1385-1390.
TedderTF,LiX,andSteeberDA.Theselectinsandtheirligands:adhesionmoleculesofthevasculature.AdvMolCellBiol1998;28:65-111.
LiX,ChangY-H.Evidencethatthehumanhomologueofaratinitiationfactor-2associatedprotein(p67)isamethionineaminopeptidase.BiochemBiophyResCommun1996;227:152-159.
LiX,ChangY-H.Amino-terminalproteinprocessinginSaccharomycescerevisiaeisanessentialfunctionthatrequirestwodistinctmethionineaminopeptidases.ProcNatlAcadSciUSA1995;92(26):12357-12361.
LiX,ChangY-H.MolecularcloningofahumancomplementaryDNAencodinganinitiationfactor2-associatedprotein(p67).BiochimBiophysActa1995;1260(3):333-336.
