生物信息學(xué)分析方法

1、常用的生物信息學(xué)分析方法第十組生物信息學(xué)是一門在生命科學(xué)的研究中，以計(jì)算機(jī)為工具對(duì)生物信息進(jìn)行儲(chǔ)存、檢索和分析的科學(xué)。生物信息學(xué)Bioinformatics生物信息學(xué)基本上是分子生物學(xué)與信息技術(shù)的結(jié)合體。研究材料和結(jié)果是各種各樣的生物學(xué)數(shù)據(jù)研究工具是計(jì)算機(jī)研究方法包括對(duì)生物學(xué)數(shù)據(jù)的搜索（收集和篩選）、處理（編輯、整理、管理和顯示）及利用（計(jì)算、模擬）節(jié)律基因Timeless數(shù)據(jù)庫(kù)MGIhttp:/數(shù)據(jù)庫(kù)NCBI/Blast.cgi數(shù)據(jù)庫(kù)TAIR/http:/多序列比對(duì)MEGAhttp:/系統(tǒng)發(fā)育樹MEGAhttp:/tools/meme保守基序分析MEMEhttp:/基因結(jié)構(gòu)GSDShttp:

2、/bioinformatics.psb.ugent.be/webtools/plantcare/html/啟動(dòng)子分析PlantCARE基序名稱位置序列特征功能TATA-box254TATAAcore promoter elementCAAT-box260CCAATcommon cis-acting element in promoter and enhancer regions3-AF1 binding site50AAGAGATATTTlight responsive elementCCAAT-box1051CAACGGMYBHv1 binding siteCGTCA-motif1294CG

3、TCAMeJA-responsivenessGA-motif1252ATAGATAAlight responsive elementHSE28AAAAAATTTCheat stress responsivenessLTR414CCGAAAlow-temperature responsivenessMSA-like568CCCAACGGTcell cycle regulationTGA-element289AACGACauxin-responsive elementhttp:/轉(zhuǎn)錄因子結(jié)合位點(diǎn)分析JASPARMatrix IDNameScoreRelative scoreStartEndStra

4、ndPredicted sequenceMA0940.1AP112.570.9011628+acaaaaatgaaatMA0934.1AHL2512.51691328335+aattaattMA0951.1ATHB-1612.24230.964352359+taatgattMA0933.1AHL2012.0060.979328335+aattaattMA0943.1ARF511.84490.97410171024+GCCGACAGMA0947.1ARR1411.81320.965707714+AGATCCGCMA0934.1AHL2511.81260.984333340+atttaatthtt

5、p:/bar.utoronto.ca/可視化基因組學(xué)BARhttp:/suba.live亞細(xì)胞定位SUBAAGISUBAconPredictionsAT5G52910.1nucleusnucleuscytosolmitochondrionhttp:/www.sbg.bio.ic.ac.uk/phyre/三級(jí)結(jié)構(gòu)預(yù)測(cè)Phyre16-464 replication643-747 protein bindinghttp:/www.cbs.dtu.dk/services/SignalP/信號(hào)肽預(yù)測(cè)SignalPAT5G52910AT1G01070http:/www.cbs.dtu.dk/service

6、s/TMHMM-2.0/跨膜結(jié)構(gòu)域預(yù)測(cè)TMHMMhttp:/string.embl.de蛋白互作網(wǎng)絡(luò)STRINGDNA repairpolymerasehelicase序列分析雙序列比對(duì)MEGA/Bioedit/bioedit/bioedit.htmlNCBI/GenBank/MEME/tools/meme多序列比對(duì)（系統(tǒng)進(jìn)化樹、保守基序）基因分析ORF(OpenReadingFrame)分析NBCI /orffinder/基因結(jié)構(gòu)分析（外顯子、內(nèi)含子）GSDS/啟動(dòng)子分析PlantCAREhttp:/bioinformatics.psb.ugent.be/webtools/plantcare

7、/html/PLACEhttps:/sogo.dna.affrc.go.jp/cgi-bin/sogo.cgi?sid=&lang=en&pj=640&action=page&page=newplace轉(zhuǎn)錄因子結(jié)合位點(diǎn)分析TFSEARCHhttp:/diyhpl.us/bryan/irc/protocol-online/protocol-cache/TFSEARCH.htmlJASPAR/表達(dá)模式分析bar http:/bar.utoronto.ca/蛋白分析結(jié)構(gòu)分析二級(jí)PredictProtein/PSIPREDhttp:/bioinf.cs.ucl.ac.uk/psipred三級(jí)Phyrehttp:/www.sbg.bio.ic.ac.uk/phyre/SWISS-MODEL/亞細(xì)胞定位PSORTSUBA http:/suba.live信號(hào)肽預(yù)測(cè)SignalPhttp:/www.cbs.dtu.dk/services/SignalP/跨膜結(jié)構(gòu)預(yù)測(cè)TMHMMhttp:/www.cbs.dtu.dk/serv