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I-PacBio-Full-length 16S/18S/ITS Amplicon Sequencing
Iplathifomu ye-Amplicon (16S/18S/ITS) yathuthukiswa yaba neminyaka yokuhlangenwe nakho ekuhlaziyweni kwephrojekthi ye-microbial diversity, equkethe ukuhlaziya okuyisisekelo okujwayelekile kanye nokuhlaziya komuntu siqu: ukuhlaziya okuyisisekelo kuhlanganisa okuqukethwe kokuhlaziya okujwayelekile kocwaningo lwamanje lwe-microbial, okuqukethwe kokuhlaziya kucebile futhi kubanzi, futhi imiphumela yokuhlaziya yethulwa ngendlela yemibiko yephrojekthi;Okuqukethwe kokuhlaziywa komuntu siqu kuhlukahlukene.Amasampuli angakhethwa futhi amapharamitha angasethwa ngendlela evumelana nezimo ngokuvumelana nombiko wokuhlaziya oyisisekelo kanye nenjongo yocwaningo, ukuze kufezeke izidingo eziqondene nawe.Isistimu yokusebenza yeWindows, elula futhi esheshayo.
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I-PacBio-Full-length Transcriptome (Non-Reference)
Ithatha idatha yokulandelanisa ye-Pacific Biosciences (PacBio) Isoform njengokufakwayo, lolu hlelo lokusebenza luyakwazi ukubona ukulandelana kokulotshiweyo kobude obugcwele (ngaphandle kokuhlanganisa).Ngokwenza imephu ukulandelana kobude obugcwele ngokumelene ne-reference genome, okulotshiweyo kungenziwa ngcono ngezakhi zofuzo ezaziwayo, imibhalo, izifunda zekhodi, njll. Kulokhu, ukuhlonza okunembe kakhudlwana kwezakhiwo ze-mRNA, njengokunye ukuhlanganisa, njll, kungafinyelelwa.Ukuhlaziywa okuhlangene nedatha yokulandelanisa ye-NGS transcriptome kunika amandla isichasiselo esibanzi kanye nokulinganisa okunembe kakhudlwana ekukhulumeni ezingeni lokuloba, okuzuzisa kakhulu ukuvezwa komehluko ongezansi nokuhlaziywa kokusebenza.
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Amathuluzi
I-BMKCloud iyinkundla ehamba phambili ye-bioinformatic ehlinzeka ngesixazululo esisodwa-stop sezinhlelo ze-genomic, ezethenjwa kakhulu abacwaningi emikhakheni eyahlukene okuhlanganisa ezokwelapha, ezolimo, ezemvelo, njll. I-BMKCloud izibophezele ekuhlinzekeni ngezinsizakalo ezididiyelwe, ezinokwethenjelwa neziphumelelayo ezihlanganisa izinkundla zokuhlaziya i-bioinformatic namathuluzi. , izinsiza zekhompiyutha, isizindalwazi somphakathi, izifundo ze-inthanethi ze-bioinformatic, njll. I-BMKCloud inamathuluzi ahlukahlukene asetshenziswa njalo e-bioinformatic afaka isichasiselo sofuzo, amathuluzi ofuzo wokuziphendukela kwemvelo, i-ncRNA, ukulawulwa kwekhwalithi yedatha, ukuhlanganisa, ukuqondanisa, ukukhipha idatha, ukuguqulwa, izibalo, igenerator yezibalo, ukulandelana. ukuhlaziywa, njll.
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I-RNA encane
Ama-RNA amancane awuhlobo lwe-RNA emfushane engafaki ikhodi enobude obuyisilinganiso esingu-18-30 nt, okuhlanganisa i-miRNA, i-siRNA ne-piRNA.Lawa ma-RNA amancane abikwe kakhulu ukuthi ahileleke ezinqubweni ezihlukahlukene zebhayoloji ezifana nokuwohloka kwe-mRNA, ukuvimbela ukuhumusha, ukwakheka kwe-heterochromatin, njll. Ukuhlaziywa kokulandelana kwe-SmallRNA kusetshenziswe kabanzi ezifundweni zokuthuthukiswa kwezilwane/izitshalo, izifo, igciwane, njll. I-RNA encane. inkundla yokuhlaziya ukulandelana iqukethe ukuhlaziywa okujwayelekile kanye nokumbiwa kwedatha okuthuthukisiwe.Ngokwesisekelo sedatha ye-RNA-seq, ukuhlaziya okujwayelekile kungafinyelela ukuhlonza nokubikezela kwe-miRNA, ukubikezela kofuzo okuhlosiwe kwe-miRNA, isichasiselo nokuhlaziywa kwenkulumo.Ukuhlaziywa okuthuthukile kuvumela ukusesha nokukhipha i-miRNA ngendlela oyifisayo, ukukhiqizwa komdwebo we-Venn, i-miRNA kanye nokwakhiwa kwenethiwekhi yofuzo oluqondiwe.
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I-NGS-WGS (Illumina/BGI)
I-NGS-WGS iyinkundla yokuhlaziya yokulandelanisa kabusha kofuzo lonke, ethuthukiswe kusisekelo solwazi olucebile ku-Biomarker Technologies.Le nkundla yokusebenziseka kalula ivumela ukuthunyelwa okusheshayo kokugeleza komsebenzi okuhlanganisiwe kokuhlaziya ngokumane kusethe ipharamitha eyisisekelo embalwa, elingana nedatha yokulandelana kwe-DNA ekhiqizwe kusuka kokubili iplathifomu ye-Illumina kanye neplathifomu yokulandelana kwe-BGI.Le nkundla isetshenziswa kuseva yekhompuyutha esebenza kahle, enika amandla ukuhlaziywa kwedatha okusebenza kahle kakhulu ngesikhathi esilinganiselwe kakhulu.Ukumbiwa kwedatha yomuntu siqu kuyatholakala kusisekelo sokuhlaziya okujwayelekile, okuhlanganisa umbuzo wofuzo oguquliwe, idizayini yokuqala ye-PCR, njll.
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mRNA(Inkomba)
I-Transcriptome isixhumanisi phakathi kolwazi lofuzo lwe-genomic kanye ne-proteome yomsebenzi webhayoloji.Ukulawulwa kwezinga lokubhalwa kwemibhalo kuyindlela yokulawula ebaluleke kakhulu futhi efundwa kabanzi kakhulu yezinto eziphilayo.Ukulandelana kwe-Transcriptome kungalandelanisa i-transcriptome nganoma yisiphi isikhathi noma ngaphansi kwanoma yisiphi isimo, ngesinqumo esinembile ku-nucleotide eyodwa. isampula yokuloba ethize.
Njengamanje, ubuchwepheshe bokulandelana kwe-transcriptome busetshenziswe kabanzi ku-agronomy, imithi kanye neminye imikhakha yocwaningo, okuhlanganisa ukulawulwa kokuthuthukiswa kwezilwane nezitshalo, ukujwayela imvelo, ukusebenzisana kwamasosha omzimba, ukutholakala kwezakhi zofuzo, ukuguquguquka kofuzo kanye nokutholwa kwezifo zofuzo.
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I-Metagenomics (NGS)
Le nkundla yokuhlaziya yakhelwe ukuhlaziya idatha ye-shotgun metagenomic ngokusekelwe eminyakeni yolwazi.Iqukethe ukuhamba komsebenzi okuhlanganisiwe okuqukethe ukuhlaziya okuhlukahlukene okuvame ukudingeka kwe-metagenomics okuhlanganisa ukucutshungulwa kwedatha, izifundo zezinga lezinhlobo zezilwane, izifundo zezinga lokusebenza kwezakhi zofuzo, ukuhlanganisa i-metagenome, njll. Ngaphezu kwalokho, amathuluzi okumba idatha enziwe ngokwezifiso ayatholakala ekuhlaziyweni okujwayelekile kokuhlaziywa, okuhlanganisa umbuzo wofuzo kanye nezinhlobo zezilwane. , ukulungiselelwa kwepharamitha, ukukhiqiza izibalo eziqondene nawe, njll.
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I-LncRNA
Ama-RNA amade angafaki amakhodi (lncRNA) awuhlobo lwemibhalo enobude obude kuno-200 nt, engakwazi ukufaka ikhodi amaprotheni.Ubufakazi obuningi buphakamisa ukuthi iningi lama-lncRNA kungenzeka ukuthi asebenze.Ubuchwepheshe bokulandelana komkhiqizo ophezulu kanye namathuluzi okuhlaziya nge-bioinformatic kusinikeza amandla okuveza ukulandelana kwe-lncRNA nolwazi lokubeka kahle kakhudlwana futhi kusiholele ekutholeni ama-lncRNA anemisebenzi ebalulekile yokulawula.I-BMKCloud iyaziqhenya ngokunikeza amakhasimende ethu inkundla yokuhlaziya ukulandelana kwe-lncRNA ukuze afinyelele ukuhlaziya kwe-lncRNA okusheshayo, okuthembekile nokuguquguqukayo.
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I-GWAS
Ucwaningo lwe-Genome-wide association (GWAS) luhlose ukuhlonza okuhlukile kofuzo (i-genotype) ehlotshaniswa nezici ezithile (i-phenotype).Ucwaningo lwe-GWA luphenya izimpawu zofuzo eziwela lonke i-genome yenani elikhulu labantu futhi zibikezela izinhlangano ze-genotype-phenotype ngokuhlaziywa kwezibalo ezingeni labantu.Ukulandelanisa kabusha kwezakhi zofuzo kungathola zonke izinhlobo zofuzo.Ngokuhambisana nedatha ye-phenotypic, i-GWAS ingacutshungulwa ukuze kuhlonzwe ama-SNP ahlobene ne-phenotype, ama-QTL kanye nezakhi zofuzo zamakhandidethi, okusekela ngokuqinile ukuzalaniswa kwezilwane/izitshalo kwesimanje.I-SLAF isu lokulandelanisa i-genome elenziwe lula, elithola izimpawu ezisatshalaliswe ngofuzo olubanzi, i-SNP.Lawa ma-SNP, njengama-molecular genetic markers, angacutshungulwa ukuze kuhlangatshezwane nezifundo nezici ezihlosiwe.Kuyisu elingabizi kakhulu ekuhlonzeni izici eziyinkimbinkimbi ezihlobene nokuhlukahluka kofuzo.
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I-Nanopore Ubude obugcwele be-transcriptomics
Ama-isoform ayinkimbinkimbi futhi aguquguqukayo ezinto eziphilayo ayizindlela ezibalulekile zofuzo zokulawula ukubonakaliswa kofuzo nokuhlukahluka kwamaprotheni.Ukuhlonza okunembile kwezakhiwo zokulotshwa kuyisisekelo socwaningo olujulile lwamaphethini okulawula isisho sofuzo.Inkundla yokulandelana ye-Nanopore ilethe ngempumelelo isifundo se-transcriptomic ezingeni le-isoform.Le nkundla yokuhlaziya iklanyelwe ukuhlaziya idatha ye-RNA-Seq ekhiqizwe kuplathifomu ye-Nanopore kusisekelo se-reference genome, ezuza ukuhlaziya okunekhwalithi nokwenani kukho kokubili izinga lofuzo kanye nezinga lokulotshwa.
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isiyingi-RNA
I-RNA eyindilinga(circRNA) iwuhlobo lwe-RNA engafakwanga ikhodi, esanda kutholwa inendima ebalulekile kumanethiwekhi okulawula ahilelekile ekuthuthukisweni, ukumelana nemvelo, njll. Ihlukile kuma-molecule e-RNA aqondile, isb mRNA, lncRNA, 3′ kanye no-5′. iziphetho ze-circRNA zihlanganiswe ndawonye ukuze zakhe isakhiwo esiyindilinga, esiwasindisa ekugayeni kwe-exonuclease futhi azinze kakhulu kuneningi le-RNA ewumugqa.I-CircRNA itholwe inemisebenzi eyahlukahlukene ekulawuleni ukubonakaliswa kofuzo.I-CircRNA ingenza njenge-ceRNA, ebopha i-miRNA ngokuncintisana, eyaziwa ngokuthi isipontshi se-miRNA.Inkundla yokuhlaziya ukulandelana kwe-CircRNA inika amandla ukwakheka kwe-circRNA nokuhlaziywa kwenkulumo, ukubikezela okuhlosiwe nokuhlaziya okuhlangene nezinye izinhlobo zama-molecule e-RNA.
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BSA
Iplathifomu yokuhlaziywa kwe-Bulked Segregant iqukethe ukuhlaziya okujwayelekile okuyisinyathelo esisodwa kanye nokuhlaziya okuthuthukile ngokulungiselelwa kwepharamitha engokwezifiso.I-BSA yindlela esetshenziswa ukuhlonza ngokushesha izimpawu zofuzo ezihlobene ne-phenotype.Ukuhamba komsebenzi okuyinhloko kwe-BSA kuqukethe: 1. ukukhetha amaqembu amabili abantu abane-phenotypes ephikisana kakhulu;2. ukuhlanganisa i-DNA, i-RNA noma i-SLAF-seq(Ithuthukiswe yi-Biomarker) yabo bonke abantu ukuze bakhe inqwaba ye-DNA;3. ukuhlonza ukulandelana okuhlukile ngokumelene ne-reference genome noma phakathi, 4. ukubikezela ikhandidethi izifunda ezixhunywe nge-ED kanye ne-SNP-index algorithm;5. Ukuhlaziywa kokusebenza kanye nokunothisa izakhi zofuzo ezifundeni zamakhandidethi, njll. Ukumbiwa kwezimayini okuthuthuke kakhulu kudatha okuhlanganisa nokuhlolwa komaka wofuzo kanye nomklamo wokuqala nakho kuyatholakala.
