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PacBio-Yakazara-kureba 16S/18S/ITS Amplicon Sequencing
Amplicon (16S/18S/ITS) papuratifomu inogadzirwa nemakore ehunyanzvi mukuongororwa kweprojekiti yakasiyana-siyana, iyo ine yakajairwa ongororo yekuongorora uye ongororo yemunhu: ongororo yekutanga inovhara iyo huru yekuongorora zvirimo yezvino hutachiona tsvakiridzo, iyo yekuongorora yemukati yakapfuma uye yakazara, uye mhedzisiro yekuongorora inoratidzwa muchimiro chemishumo yeprojekiti;Izvo zvemukati ongororo yemunhu zvakasiyana.Masamples anogona kusarudzwa uye ma paramita anogona kusetwa achichinjika zvinoenderana neiyo yekutanga ongororo rondedzero uye chinangwa chekutsvagisa, kuti uwane zvinodiwa nemunhu.Windows operating system, iri nyore uye inokurumidza.
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PacBio-Yakazara-kureba Transcriptome (Isiri Reference)
Kutora Pacific Bioscience (PacBio) Isoform yekuteedzera data seyekuisa, iyi App inokwanisa kuona yakazara-yakareba zvinyorwa zvinoteedzana (pasina kuungana).Nekuita mepu yakazara-yakareba sequence inopesana nereferenzi genome, zvinyorwa zvinogona kugadziridzwa neanozivikanwa majini, zvinyorwa, matunhu ekodhi, nezvimwewo. Muchiitiko ichi, kunyatsozivikanwa kwemRNA zvimiro, seimwe nzira yekubatanidza, nezvimwewo, inogona kuwanikwa.Kuongororwa kwakabatana neNGS transcriptome sequencing data inogonesa chirevo chakazara uye chakanyanya kurongeka mukutaura padanho rekunyora, iro rinobatsira zvakanyanya kudzika kwemusiyano kutaura uye ongororo yekushanda.
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Toolkits
BMKCloud inotungamira bioinformatic chikuva inopa imwe-stop mhinduro yezvirongwa zve genomic, iyo inovimbwa zvakanyanya nevaongorori munzvimbo dzakasiyana siyana dzinosanganisira yekurapa, yekurima, yezvakatipoteredza, nezvimwe. , zviwanikwa zvekombuta, dhatabhesi yeruzhinji, bioinformatic online makosi, nezvimwe. BMKCloud ine akasiyana anowanzo shandiswa bioinformatic maturusi anosanganisira gene annotation, evolutionary genetic maturusi, ncRNA, data quality control, kusangana, kurongeka, kutorwa kwedata, shanduko, nhamba, jenareta, kutevedzana. kuongorora, nezvimwewo.
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diki RNA
Madiki maRNA imhando yepfupi isiri-coding RNA ine avhareji urefu hwe18-30 nt, kusanganisira miRNA, siRNA uye piRNA.Aya maRNA madiki akave akashumwa zvakanyanya kuve akabatanidzwa mune zvakasiyana-siyana zvipenyu maitiro akadai semRNA degradation, dudziro inhibition, heterochromatin formation, nezvimwewo sequencing yekuongorora chikuva ine yakajairwa ongororo uye yepamusoro data migodhi.Pahwaro hweRNA-seq data, ongororo yakajairwa inogona kuwana miRNA kuzivikanwa uye kufanotaura, miRNA yakananga gene kufanotaura, rondedzero uye ongororo yekutaura.Kuongorora kwepamberi kunogonesa yakagadziridzwa miRNA yekutsvaga uye kudhirowa, Venn dhiyabhorosi chizvarwa, miRNA uye chinangwa gene network kuvaka.
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NGS-WGS (Illumina/BGI)
NGS-WGS izere genome re-sequencing yekuongorora chikuva, iyo inogadzirwa pahwaro hwehupfumi ruzivo muBiomarker Technologies.Iyi yekureruka-kushandisa-puratifomu inobvumira kukurumidza kuendesa kweyakasanganiswa yekuongorora mafambiro nekungoisa mashoma ekutanga parameter, inokodzera DNA yekuteedzera data inogadzirwa kubva kune ese Illumina papuratifomu uye BGI yekuteedzera chikuva.Iyi puratifomu inoiswa pane yakakwira performance computing server, iyo inopa simba rakanyanya hunyanzvi hwekuongorora data munguva shoma shoma.Yakasarudzika dhata migodhi inowanikwa pahwaro hwekuongororwa kwakajairwa, kusanganisira mutated gene query, PCR primer dhizaini, nezvimwe.
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mRNA(Reference)
Transcriptome inobatanidza pakati pe genomic genetic information uye proteome ye biological function.Transcriptal level regulation ndiyo inonyanya kukosha uye yakanyanya kudzidzwa zvakanyanya maitiro ezvipenyu.Transcriptome sequencing inogona kuteedzera transcriptome chero nguva kana pasi pemamiriro chero api zvawo, ine chigadziro chakarurama kune imwechete nucleotide.Inogona dynamically kuratidza mwero we gene transcription, panguva imwe chete kuona uye kuverenga zvisingawanzo uye zvakajairika zvinyorwa, uye kupa ruzivo rwechimiro che sampuli yezvinyorwa zvakananga.
Parizvino, tekinoroji yekutevedzanisa tekinoroji yakashandiswa zvakanyanya muagronomy, mushonga uye dzimwe nzvimbo dzekutsvagisa, kusanganisira kudzora kwemhuka nezvirimwa, kugadzirisa kwezvakatipoteredza, kupindirana kwekudzivirira, gene localization, marudzi ekushanduka kwemajini uye bundu uye genetic chirwere chekuongorora.
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Metagenomics (NGS)
Ichi chikuva chekuongorora chakagadzirirwa pfuti metagenomic data kuongororwa pahwaro hwemakore echiitiko.Inosanganisira kufambiswa kwebasa kwakabatanidzwa kune zvakasiyana-siyana zvinowanzodiwa zvemetagenomics kuongororwa kunosanganisira kushandiswa kwedata, zvidzidzo zvemhando-yemhando, zvidzidzo zvegene function-level zvidzidzo, metagenome binning, nezvimwewo. Pamusoro pezvo, maturusi ekuchera data akagadziridzwa anowanikwa pane chiyero chekuongorora mafambiro, kusanganisira gene uye mhando yemubvunzo. , parameter kumisikidza, yakasarudzika nhamba inogadzira, nezvimwe.
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LncRNA
Marefu asina kukodha maRNA (lncRNA) imhando yezvinyorwa zvinoreba kupfuura 200 nt, izvo zvisingakwanisi kunyora mapuroteni.Humbowo hwekuwedzera hunoratidza kuti mazhinji elncRNA anogona kunge ari kushanda.Yakakwira-kuburikidza kutevedzanisa matekinoroji uye bioinformatic yekuongorora maturusi anotipa simba rekuburitsa lncRNA kutevedzana uye yekumisikidza ruzivo zvakanyanya uye zvinotitungamira kuti tiwane lncRNAs ane akakosha ekutonga mabasa.BMKCloud inodada nekupa vatengi vedu lncRNA sequencing yekuongorora chikuva kuti iwane nekukurumidza, yakavimbika uye inoshanduka lncRNA kuongororwa.
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GWAS
Genome-wide association study (GWAS) ine chinangwa chekutsvaga mazita akasiyana-siyana (genotype) ane hukama nemaitiro chaiwo (phenotype).Zvidzidzo zveGWA zvinoongorora ma genetic markers anoyambuka genome yenhamba huru yevanhu uye inofanotaura genotype-phenotype kushamwaridzana nekuongorora kwenhamba pahuwandu hwevanhu.Whole-genome resequencing inogona kuwana ese mageneti akasiyana.Kubatana ne data phenotypic, GWAS inogona kugadziriswa kuti ione phenotype ine chekuita neSNPs, QTLs uye majini evamiriri, ayo anotsigira zvakasimba kubereka kwemazuva ano kwemhuka / zvirimwa.SLAF inzira yakazvimisikidza yakapfava genome sequencing, iyo inowana genome-yakaparadzirwa mamakisi, SNP.Aya maSNP, semamolecular genetic mamaki, anogona kugadziriswa kuti asanganisire zvidzidzo neakatariswa hunhu.Iri nzira inodhura-inoshanda pakuona hunhu hwakaoma hunoenderana nekusiyana kwemajini.
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Nanopore Yakazara-kureba transcriptomics
Yakaoma uye yakasiyana-siyana isoforms mune zvipenyu inokosha genetic nzira dzekugadzirisa gene expression uye mapuroteni akasiyana.Kunyatsozivikanwa kwezvimiro zvezvinyorwa ndiyo hwaro hwekudzidza kwakadzama kwemaitiro ekugadzirisa maitiro ejini.Nanopore sequencing chikuva yakabudirira kuunza transcriptomic kudzidza kune isoform-level.Ichi chikuva chekuongorora chakagadzirirwa kuongorora RNA-Seq dhata inogadzirwa paNanopore papuratifomu pahwaro hwereferensi genome, iyo inowana hunhu uye huwandu hwekuongorora mune ese gene nhanho uye zvinyorwa zvinyorwa.
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circ-RNA
Circular RNA (circRNA) imhando yeRNA isiri-coding, iyo ichangobva kuwanikwa inobata basa rinokosha mukugadzirisa masangano anobatanidzwa mukuvandudza, kudzivirira kwezvakatipoteredza, nezvimwewo. migumo ye circRNA inobatanidzwa pamwe chete kuti iite denderedzwa chimiro, iyo inovaponesa kubva pakugayiwa kwe exonuclease uye yakagadzikana kupfuura yakawanda yemutsara RNA.CircRNA yakawanikwa iine mabasa akasiyana-siyana mukugadzirisa mataurirwo ejene.CircRNA inogona kuita se ceRNA, inosunga miRNA mumakwikwi, inozivikanwa semiRNA sponge.CircRNA sequencing yekuongorora chikuva inopa simba circRNA chimiro uye ongororo yekutaura, kufanotaura kwechinangwa uye kuongororwa kwakabatana nemamwe marudzi emamorekuru eRNA.
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BSA
Bulked Segregant Analysis chikuva chine nhanho imwe-yakajairwa ongororo uye ongororo yepamberi ine yakagadziridzwa paramende.BSA inzira inoshandiswa kukurumidza kuona phenotype yakabatana genetic mamaki.Main workflow yeBSA ine: 1. kusarudza mapoka maviri evanhu vane phenotypes anopesana zvakanyanya;2. kubatanidza DNA, RNA kana SLAF-seq(Yakagadziridzwa neBiomarker) yevanhu vese kuti vaumbe zvikamu zviviri zveDNA;3. kudoma mitsara yakasiyana maererano nereferensi genome kana pakati, 4. kufanotaura matunhu akabatanidzwa neED uye SNP-index algorithm;5. Kuongorora kwekushanda uye kupfumisa pamajini munzvimbo dzevamiriri, nezvimwewo. Kunyanya kucherwa kwepamusoro mu data kusanganisira genetic marker screening uye primer design inowanikwawo.
