中国科学院北京基因组研究所研究生导师简介-阮 珏

点赞(0) 反对(0) 北京基因组研究所 免费考研网 2013-11-30 22:14:48 阅读(0)
    简介研究方向发表论著承担科研项目项目组情况招生信息

阮珏(JueRuan)
硕士生导师,副研究员
E-Mail:ruanj@big.ac.cn
研究领域:生物信息学
导师简介:学习经历:
2000年9月-2004年6月南开大学生物科学本科2004年9月-2009年6月中国科学院北京基因组研究所生物信息学博士
工作经历:
2009年7月-2011年12月中国科学院北京基因组研究所助理研究员2012年1月-至今中国科学院北京基因组研究所副研究员
学术兼职:

获奖及荣誉:

1.生物信息学(Bioinformatics)序列比对,关注于短序列与参考基因组比对以及短序列之间的联配;基因组组装,早期主要从事短序列的大基因组组装开发,目前关注于复杂基因组的解决;序列聚类,主要研究RAD序列的高效聚类及组装;基因的系统发生关系。2.DNA测序技术相关研发(DNASequencingtechnology)低频突变检测、大片段序列全长测序、单细胞基因组扩增。
近期主要学术成果:
1.Gong,Qiang,YongTao,Jian-RongYang,JunCai,YunfeiYuan,JueRuan,JinYang,HailiangLiu,WanghuaLi,andXuemeiLu.“IdentificationofMedium-sizedGenomicDeletionswithLowCoverage,Mate-pairedRestrictedTags.”BMCGenomics14,no.1(2013):51.2.Chong,Zechen,JueRuan#,andChung-IWu.“Rainbow:AnIntegratedToolforEfficientClusteringandAssemblingRAD-seqReads.”Bioinformatics28,no.21(2012):2732–2737.3.Kua,Chai-Shian,JueRuan,JohnHarting,Cheng-XiYe,MatthewRHelmus,JunYu,andCharlesHCannon.“Reference-FreeComparativeGenomicsof174Chloroplasts.”PloSOne7,no.11(2012):e48995.4.Zhou,Qi,Hong-meiZhu,Quan-feiHuang,LiZhao,Guo-jieZhang,ScottWRoy,BeatrizVicoso,Zhao-linXuan,JueRuan,andYueZhang.“DecipheringNeo-sexandBChromosomeEvolutionbytheDraftGenomeofDrosophilaAlbomicans.”BMCGenomics13,no.1(2012):109.5.Tao,Yong,JueRuan*,Shiou-HweiYeh,XuemeiLu,YuWang,WeiweiZhai,JunCai,ShaopingLing,QiangGong,andZechengChong.“RapidGrowthofaHepatocellularCarcinomaandtheDrivingMutationsRevealedbyCell-populationGeneticAnalysisofWhole-genomeData.”ProceedingsoftheNationalAcademyofSciences108,no.29(2011):12042.6.Li,Ruiqiang,HongmeiZhu,JueRuan*,WubinQian,XiaodongFang,ZhongbinShi,YingruiLi,etal.“DeNovoAssemblyofHumanGenomeswithMassivelyParallelShortReadSequencing.”GenomeResearch20,no.2(2010):265–72.doi:10.1101/gr.097261.109.7.Li,Ruiqiang,WeiFan,GengTian,HongmeiZhu,LinHe,JingCai,QuanfeiHuang,QingleCai,BoLi,andYinqiBai.“TheSequenceanddeNovoAssemblyoftheGiantPandaGenome.”Nature463,no.7279(2009):311–317.8.Huang,Sanwen,RuiqiangLi,ZhonghuaZhang,LiLi,XingfangGu,WeiFan,WilliamJLucas,XiaowuWang,BingyanXie,andPeixiangNi.“TheGenomeoftheCucumber,CucumisSativusL.”NatureGenetics41,no.12(2009):1275–1281.9.Li,Heng,BobHandsaker,AlecWysoker,TimFennell,JueRuan,NilsHomer,GaborMarth,GoncaloAbecasis,andRichardDurbin.“TheSequenceAlignment/MapFormatandSAMtools.”Bioinformatics(Oxford,England)25,no.16(2009):2078–9.doi:10.1093/bioinformatics/btp352.10.Li,Heng,JueRuan,andRichardDurbin.“MappingShortDNASequencingReadsandCallingVariantsUsingMappingQualityScores.”GenomeResearch18,no.11(2008):1851–1858.11.Wang,Jun,WeiWang,RuiqiangLi,YingruiLi,GengTian,LaurieGoodman,WeiFan,JunqingZhang,JunLi,andJuanbinZhang.“TheDiploidGenomeSequenceofanAsianIndividual.”Nature456,no.7218(2008):60–65.12.Ruan,Jue*,HengLi,ZhongzhongChen,AvrilCoghlan,LachlanJamesMCoin,YiranGuo,Jean-KarimHériché,YafengHu,KarstenKristiansen,andRuiqiangLi.“TreeFam:2008Update.”NucleicAcidsResearch36,no.suppl1(2008):D735–D740.13.Ruan,Jue*,YiranGuo,HengLi,YafengHu,FeiSong,XinHuang,KarstenKristiensen,LarsBolund,andJunWang.“PigGIS:PigGenomicInformaticsSystem.”NucleicAcidsResearch35,no.Databaseissue(2007):D654–7.doi:10.1093/nar/gkl808.14.Li,Heng,AvrilCoghlan,JueRuan*,LachlanJamesCoin,Jean-KarimHériché,LaraOsmotherly,RuiqiangLi,TaoLiu,ZhangZhang,andLarsBolund.“TreeFam:aCuratedDatabaseofPhylogeneticTreesofAnimalGeneFamilies.”NucleicAcidsResearch34,no.suppl1(2006):D572–D580.15.Wang,Jing,QingyouXia,XimiaoHe,MingtaoDai,JueRuan,JieChen,GuoYu,etal.“SilkDB:aKnowledgebaseforSilkwormBiologyandGenomics.”NucleicAcidsResearch33,no.Databaseissue(2005):D399–402.doi:10.1093/nar/gki116.16.Wang,Jing,XimiaoHe,JueRuan,MingtaoDai,JieChen,YongZhang,YafengHu,etal.“ChickVD:aSequenceVariationDatabasefortheChickenGenome.”NucleicAcidsResearch33,no.Databaseissue(2005):D438–41.doi:10.1093/nar/gki092.17.Wong,GaneKa-Shu,BinLiu,JunWang,YongZhang,XuYang,ZengjinZhang,QingshunMeng,etal.“AGeneticVariationMapforChickenwith2.8MillionSingle-nucleotidePolymorphisms.”Nature432,no.7018(December2004):717–22.doi:10.1038/nature03156.
1、国家自然科学基金青年科学基金项目,31000588,二代测序技术下转录组组装软件,2010-10-012014-12-31,在研,课题组长2、国家自然科学基金重大研究计划微进化过程中的多基因作用机制重点项目,91131904,金丝猴属物种高海拔和食性适应,2012-01-012016-12-31,在研,参与

欢迎熟悉分子生物学实验技术的生物专业或者具有较好编程能力的计算机专业的学生报考。


工作经历:
2009年7月-2011年12月中国科学院北京基因组研究所助理研究员2012年1月-至今中国科学院北京基因组研究所副研究员

主要研究领域:
1.生物信息学(Bioinformatics)序列比对,关注于短序列与参考基因组比对以及短序列之间的联配;基因组组装,早期主要从事短序列的大基因组组装开发,目前关注于复杂基因组的解决;序列聚类,主要研究RAD序列的高效聚类及组装;基因的系统发生关系。2.DNA测序技术相关研发(DNASequencingtechnology)低频突变检测、大片段序列全长测序、单细胞基因组扩增。

承担科研项目情况:
1、国家自然科学基金青年科学基金项目,31000588,二代测序技术下转录组组装软件,2010-10-012014-12-31,在研,课题组长2、国家自然科学基金重大研究计划微进化过程中的多基因作用机制重点项目,91131904,金丝猴属物种高海拔和食性适应,2012-01-012016-12-31,在研,参与

代表论著:
1.Gong,Qiang,YongTao,Jian-RongYang,JunCai,YunfeiYuan,JueRuan,JinYang,HailiangLiu,WanghuaLi,andXuemeiLu.“IdentificationofMedium-sizedGenomicDeletionswithLowCoverage,Mate-pairedRestrictedTags.”BMCGenomics14,no.1(2013):51.2.Chong,Zechen,JueRuan#,andChung-IWu.“Rainbow:AnIntegratedToolforEfficientClusteringandAssemblingRAD-seqReads.”Bioinformatics28,no.21(2012):2732–2737.3.Kua,Chai-Shian,JueRuan,JohnHarting,Cheng-XiYe,MatthewRHelmus,JunYu,andCharlesHCannon.“Reference-FreeComparativeGenomicsof174Chloroplasts.”PloSOne7,no.11(2012):e48995.4.Zhou,Qi,Hong-meiZhu,Quan-feiHuang,LiZhao,Guo-jieZhang,ScottWRoy,BeatrizVicoso,Zhao-linXuan,JueRuan,andYueZhang.“DecipheringNeo-sexandBChromosomeEvolutionbytheDraftGenomeofDrosophilaAlbomicans.”BMCGenomics13,no.1(2012):109.5.Tao,Yong,JueRuan*,Shiou-HweiYeh,XuemeiLu,YuWang,WeiweiZhai,JunCai,ShaopingLing,QiangGong,andZechengChong.“RapidGrowthofaHepatocellularCarcinomaandtheDrivingMutationsRevealedbyCell-populationGeneticAnalysisofWhole-genomeData.”ProceedingsoftheNationalAcademyofSciences108,no.29(2011):12042.6.Li,Ruiqiang,HongmeiZhu,JueRuan*,WubinQian,XiaodongFang,ZhongbinShi,YingruiLi,etal.“DeNovoAssemblyofHumanGenomeswithMassivelyParallelShortReadSequencing.”GenomeResearch20,no.2(2010):265–72.doi:10.1101/gr.097261.109.7.Li,Ruiqiang,WeiFan,GengTian,HongmeiZhu,LinHe,JingCai,QuanfeiHuang,QingleCai,BoLi,andYinqiBai.“TheSequenceanddeNovoAssemblyoftheGiantPandaGenome.”Nature463,no.7279(2009):311–317.8.Huang,Sanwen,RuiqiangLi,ZhonghuaZhang,LiLi,XingfangGu,WeiFan,WilliamJLucas,XiaowuWang,BingyanXie,andPeixiangNi.“TheGenomeoftheCucumber,CucumisSativusL.”NatureGenetics41,no.12(2009):1275–1281.9.Li,Heng,BobHandsaker,AlecWysoker,TimFennell,JueRuan,NilsHomer,GaborMarth,GoncaloAbecasis,andRichardDurbin.“TheSequenceAlignment/MapFormatandSAMtools.”Bioinformatics(Oxford,England)25,no.16(2009):2078–9.doi:10.1093/bioinformatics/btp352.10.Li,Heng,JueRuan,andRichardDurbin.“MappingShortDNASequencingReadsandCallingVariantsUsingMappingQualityScores.”GenomeResearch18,no.11(2008):1851–1858.11.Wang,Jun,WeiWang,RuiqiangLi,YingruiLi,GengTian,LaurieGoodman,WeiFan,JunqingZhang,JunLi,andJuanbinZhang.“TheDiploidGenomeSequenceofanAsianIndividual.”Nature456,no.7218(2008):60–65.12.Ruan,Jue*,HengLi,ZhongzhongChen,AvrilCoghlan,LachlanJamesMCoin,YiranGuo,Jean-KarimHériché,YafengHu,KarstenKristiansen,andRuiqiangLi.“TreeFam:2008Update.”NucleicAcidsResearch36,no.suppl1(2008):D735–D740.13.Ruan,Jue*,YiranGuo,HengLi,YafengHu,FeiSong,XinHuang,KarstenKristiensen,LarsBolund,andJunWang.“PigGIS:PigGenomicInformaticsSystem.”NucleicAcidsResearch35,no.Databaseissue(2007):D654–7.doi:10.1093/nar/gkl808.14.Li,Heng,AvrilCoghlan,JueRuan*,LachlanJamesCoin,Jean-KarimHériché,LaraOsmotherly,RuiqiangLi,TaoLiu,ZhangZhang,andLarsBolund.“TreeFam:aCuratedDatabaseofPhylogeneticTreesofAnimalGeneFamilies.”NucleicAcidsResearch34,no.suppl1(2006):D572–D580.15.Wang,Jing,QingyouXia,XimiaoHe,MingtaoDai,JueRuan,JieChen,GuoYu,etal.“SilkDB:aKnowledgebaseforSilkwormBiologyandGenomics.”NucleicAcidsResearch33,no.Databaseissue(2005):D399–402.doi:10.1093/nar/gki116.16.Wang,Jing,XimiaoHe,JueRuan,MingtaoDai,JieChen,YongZhang,YafengHu,etal.“ChickVD:aSequenceVariationDatabasefortheChickenGenome.”NucleicAcidsResearch33,no.Databaseissue(2005):D438–41.doi:10.1093/nar/gki092.17.Wong,GaneKa-Shu,BinLiu,JunWang,YongZhang,XuYang,ZengjinZhang,QingshunMeng,etal.“AGeneticVariationMapforChickenwith2.8MillionSingle-nucleotidePolymorphisms.”Nature432,no.7018(December2004):717–22.doi:10.1038/nature03156.

社会任职:


获奖及荣誉:


发表评论 已经有0条评论 查看全部评论

关键字

头条信息