miRNA目標(biāo)位點(diǎn)預(yù)測(cè)工具介紹徐輝用于預(yù)測(cè)miRNA目標(biāo)位點(diǎn)的工具TargetScanmiRandaPicTarMicrocosmmicroT-ANNmiRDBMirgen一、TargetScan介紹TargetScan本地運(yùn)行版本介紹1、需要2個(gè)輸入文件 1)包含了miRNAseedsequences的tab-delimited文件 該文件包含了3列數(shù)據(jù)：NameofthemiRNAfamilyThe7nucleotidelongseedregionsequenceSpeciesIDofthismiRNAfamily例子：let-7/98 GAGGUAG 10090let-7/98 GAGGUAG 10116let-7/98 GAGGUAG 9031let-7/98 GAGGUAG 9606let-7/98 GAGGUAG 96152)包含了所需基因3‘UTRs多重比對(duì)結(jié)果的tab-delimited文件該文件包含了3列數(shù)據(jù)：GenesymbolortranscriptIDSpecies/taxonomyIDSequence例子：CDC2L6 10090 CCCACUCCCU---CU------------…….CDC2L6 9615 CCG-CCACGG--------------------…….LPHN1 10090 GGGGC-CUCAUGGACCCGA…….ZNF197 9606 A-AGACACCACGAGAAACAG……2、運(yùn)行命令行targetscan_50.plmiR_Family_info_sample.txtUTR_Sequences_sample.txtTargetScan_50_output.txt3、輸出文件包含以下13列數(shù)據(jù)：GeneID、miRNA_family_ID、species_ID、MSA_start、MSA_end、UTR_start、UTR_end、Group_ID、Site_type、miRNAinthisspecies、Group_type、Species_in_this_group、Species_in_this_group_with_this_site_type實(shí)例如下：TargetScan網(wǎng)頁接口界面TargetScan網(wǎng)頁接口運(yùn)行結(jié)果在UCSC上顯示TargetScan運(yùn)行結(jié)果二、miRandaTargetDetection介紹miRandaTargetDetection本地地運(yùn)運(yùn)行行版版本本介介紹紹1、、需需要要2個(gè)個(gè)輸輸入入文文件件包含含了了miRNA序序列列的的fasta文文件件包含含了了目目標(biāo)標(biāo)基基因因3’’UTR序序列列的的fasta文文件件2、、運(yùn)運(yùn)行行miRandamirandafile1file2[options……]常用用參參數(shù)數(shù)：：[-scscore][-enenergy][-goX][-geY][-outfileout][-quiet][-trimT]miRandaTargetDetection本本地地運(yùn)運(yùn)行行結(jié)結(jié)果果實(shí)實(shí)例例miRandaTargetDetection網(wǎng)頁頁接接口口界界面面miRNAsearchTargetmRNAsearchmiRandaTargetDetection查詢?cè)兘Y(jié)結(jié)果果界界面面miRandaTargetDetection結(jié)果果詳詳情情界界面面三、、PicTar介介紹紹http://pictar.mdc-berlin.de/PicTar用用戶戶界界面面一一PicTar搜搜索索結(jié)結(jié)果果界界面面一一PicTar搜搜索索結(jié)結(jié)果果界界面面二二PicTar用用戶戶界界面面二二PicTar搜搜索索結(jié)結(jié)果果界界面面三三PicTar結(jié)結(jié)果果在在UCSC上上的的數(shù)數(shù)據(jù)據(jù)展展示示從UCSC批批量量下下載載PicTar結(jié)結(jié)果果四、、MicrocosmMicrocosmSearch界界面面MicrocosmEnter界界面面MicrocosmDownload界界面面五、、microT-ANNhttp://diana.cslab.ece.ntua.gr/microT_v4/index.phpmicroT-ANN結(jié)結(jié)果果界界面面TarBase:miRNA目目標(biāo)標(biāo)基基因因的的可可靠靠數(shù)數(shù)據(jù)據(jù)庫庫，，數(shù)數(shù)據(jù)據(jù)有有實(shí)實(shí)驗(yàn)驗(yàn)支支持持。。http://diana.cslab.ece.ntua.gr/tarbase/六、、miRDB/miRDB/miRDB結(jié)結(jié)果果界界面面miRDB結(jié)結(jié)果果界界面面根據(jù)據(jù)具具體體的的