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Chromatin Immunoprecipitation Sequencing (ChIP-seq)
Chip-Seq muab genome-wide profileing ntawm DNA lub hom phiaj rau kev hloov kho histone, hloov pauv cov ntsiab lus, thiab lwm cov proteins uas cuam tshuam nrog DNA.Nws muab cov kev xaiv ntawm chromatin immuno-precipitation (ChIP) kom rov qab tau cov protein-DNA complexes, nrog lub zog ntawm cov tiam tom ntej sequencing (NGS) rau high-throughput sequencing ntawm cov DNA zoo.Tsis tas li ntawd, vim hais tias cov protein-DNA complexes tau zoo los ntawm cov hlwb nyob, cov chaw sib txuas tuaj yeem muab piv rau ntau hom cell thiab cov ntaub so ntswg, lossis nyob rau hauv cov xwm txheej sib txawv.Cov ntawv thov sib txawv los ntawm kev tswj hwm kev hloov pauv mus rau txoj hauv kev loj hlob mus rau kab mob mechanisms thiab dhau mus.
Platform: Illumina NovaSeq Platform
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Metagenomic Sequencing -NGS
Metagenome yog hais txog kev sau tag nrho cov khoom siv caj ces ntawm cov zej zog sib xyaw ntawm cov kab mob, xws li ib puag ncig metagenome, tib neeg metagenome, thiab lwm yam. Nws muaj cov genomes ntawm ob qho tib si cultivatable thiab uncultivatable microorganisms.Metagenomic sequencing yog cov cuab yeej molecular siv los txheeb xyuas cov khoom sib xyaw genomic muab rho tawm los ntawm ib puag ncig cov qauv, uas muab cov ncauj lus kom ntxaws txog hom kev sib txawv thiab kev nplua nuj, cov qauv pej xeem, kev sib raug zoo ntawm phylogenetic, cov noob caj noob ces thiab kev sib raug zoo nrog ib puag ncig.
Platform:Illumina NovaSeq Platform
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Metagenomic Sequencing-Nanopore
Metagenomics yog cov cuab yeej molecular siv los tshuaj xyuas cov khoom sib xyaw genomic muab rho tawm los ntawm ib puag ncig cov qauv, uas muab cov ncauj lus kom ntxaws txog hom kev sib txawv thiab kev nplua nuj, cov qauv pejxeem, kev sib raug zoo ntawm cov noob caj noob ces thiab kev sib raug zoo nrog ib puag ncig, thiab lwm yam. Nanopore sequencing platforms tau qhia tsis ntev los no. rau kev tshawb fawb metanomic.Nws qhov kev ua tau zoo tshaj plaws hauv kev nyeem ntev tau txhim kho cov dej ntws ntsuas metagenomic, tshwj xeeb tshaj yog kev sib dhos metagenome.Siv qhov zoo ntawm kev nyeem-ntev, Nanopore-based metaagenomic txoj kev tshawb no muaj peev xwm ua tiav kev sib dhos txuas ntxiv piv nrog cov phom phom metagenomics.Nws tau raug luam tawm tias Nanopore-based metagenomics tau ua tiav tiav thiab kaw cov kab mob genomes los ntawm microbiomes (Moss, EL, et. al,Ntuj Biotech, 2020)
Platform:Nanopor PromethION P48
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Tag nrho genome bisulfite sequencing
DNA methylation ntawm txoj haujlwm thib tsib hauv cytosine (5-mC) muaj qhov cuam tshuam tseem ceeb ntawm cov noob qhia thiab kev ua haujlwm ntawm tes.Cov qauv methylation txawv txav tau cuam tshuam nrog ntau yam mob thiab kab mob, xws li mob qog noj ntshav.WGBS tau dhau los ua tus qauv kub rau kev kawm genome-wide methylation ntawm ib qho kev daws teeb meem.
Platform: Illumina NovaSeq Platform
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Kev ntsuam xyuas rau Transposase-Accessible Chromatin nrog High Throughput Sequencing (ATAC-seq)
ATAC-seq yog ib txoj hauv kev zoo tshaj plaws rau kev soj ntsuam ntawm genome-wide chromatin accessibility, uas yog ib qho tseem ceeb rau ntiaj teb no epigenetic tswj ntawm noob qhia.Sequencing adapters yog muab tso rau hauv qhib chromatin cheeb tsam los ntawm hyperactive Tn5 transposase.Tom qab PCR amplification, lub tsev qiv ntawv sib txuas tau tsim.Tag nrho cov cheeb tsam qhib chromatin tuaj yeem tau txais nyob rau hauv ib qho chaw tshwj xeeb-lub sijhawm, tsis yog tsuas yog txwv rau qhov chaw sib txuas ntawm qhov kev hloov pauv, lossis qee thaj tsam histone hloov kho.
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16S/18S/ITS Amplicon Sequencing-PacBio
Lub subunit ntawm 16S thiab 18S rRNA uas muaj ob qho tib si kev txuag thiab cov cheeb tsam hyper-variable yog ib qho zoo meej molecular ntiv tes rau kev txheeb xyuas cov kab mob prokaryotic thiab eukaryotic.Ua kom zoo dua ntawm kev sib txuas, cov amplicons tuaj yeem raug tsom raws li qhov chaw khaws cia thiab cov cheeb tsam hyper-variable tuaj yeem ua tus yam ntxwv zoo rau kev txheeb xyuas cov kab mob microbial uas ua rau muaj kev tshawb fawb txog kev tsom xam microbial ntau haiv neeg, taxonomy, phylogeny, thiab lwm yam. Ib leeg-molecule real-time (SMRT ) sequencing ntawm PacBio platform ua rau kom tau txais kev nyeem ntawv ntev heev, uas tuaj yeem npog tag nrho-ntev amplicons (kwv yees li 1.5 Kb).Kev nthuav dav ntawm cov noob caj noob ces zoo heev txhim kho qhov kev daws teeb meem hauv hom lus piav qhia hauv cov kab mob lossis cov kab mob fungi.
Platform:PacBio Sequel II
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16S/18S/ITS Amplicon Sequencing-NGS
16S / 18S / ITS amplicon sequencing aims ntawm kev nthuav tawm phylogeny, taxonomy, thiab tsiaj abundance nyob rau hauv ib tug microbial zej zog los ntawm kev soj ntsuam PCR cov khoom ntawm tsev tu cov noob caj noob ces cov cim uas muaj ob qho tib si sib tham thiab hypervariable qhov chaw.Kev taw qhia ntawm cov ntiv tes zoo meej molecular los ntawm Woeses et al, (1977) txhawb nqa kev sib cais-dawb microbiome profiling.Sequencing ntawm 16S (cov kab mob), 18S (fungi) thiab Internal transcribed spacer (ITS, fungi) tso cai rau kev txheeb xyuas ntawm ob qho tib si ntau hom nrog rau cov hom tsis tshua muaj thiab tsis muaj npe.Cov cuab yeej siv no tau dhau los ua cov cuab yeej siv dav thiab tseem ceeb hauv kev txheeb xyuas qhov sib txawv ntawm cov kab mob microbial nyob rau hauv ntau qhov chaw, xws li tib neeg lub qhov ncauj, txoj hnyuv, quav, thiab lwm yam.
Platform:Illumina NovaSeq Platform
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Cov kab mob thiab cov kab mob fungal tag nrho genome Re-Sequencing
Cov kab mob thiab cov kab mob fungal tag nrho cov genome re-sequencing yog ib qho cuab yeej tseem ceeb los ua kom tiav cov genomes ntawm cov kab mob paub cov kab mob thiab cov fungi, nrog rau kev sib piv ntau cov genomes los yog daim ntawv qhia genomes ntawm cov kab mob tshiab.Nws yog ib qho tseem ceeb heev kom ua raws li tag nrho cov genomes ntawm cov kab mob thiab cov fungi txhawm rau tsim kom raug cov genomes siv, ua cov cim microbial thiab lwm yam kev tshawb fawb genome sib piv.
Platform: Illumina NovaSeq Platform
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PacBio-Full-ntev 16S / 18S / ITS Amplicon Sequence
Amplicon (16S / 18S / ITS) platform yog tsim los nrog ntau xyoo ntawm kev paub nyob rau hauv microbial ntau haiv neeg qhov kev tsom xam, uas muaj cov qauv kev tshuaj ntsuam xyuas thiab kev txheeb xyuas tus kheej: kev tshuaj xyuas yooj yim npog cov ntsiab lus tseem ceeb ntawm kev tshawb fawb microbial tam sim no, cov ntsiab lus tsom xam yog nplua nuj thiab ua tiav, thiab kev soj ntsuam cov txiaj ntsig tau nthuav tawm hauv daim ntawv qhia txog qhov project;Cov ntsiab lus ntawm kev txheeb xyuas tus kheej muaj ntau yam.Cov qauv tuaj yeem xaiv tau thiab tsis tuaj yeem teeb tsa tau yooj yim raws li daim ntawv qhia kev txheeb xyuas thiab kev tshawb fawb lub hom phiaj, kom paub txog cov kev xav tau ntawm tus kheej.Windows operating system, yooj yim thiab ceev.
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PacBio-Full-length Transcriptome (Tsis Siv Neeg)
Noj Pacific Biosciences (PacBio) Isoform sequencing cov ntaub ntawv raws li kev tawm tswv yim, App no muaj peev xwm txheeb xyuas cov ntaub ntawv sau ua ntu zus (tsis muaj kev sib dhos).Los ntawm daim ntawv qhia tag nrho-ntev ib ntus tawm tsam kev siv genome, cov ntawv sau tuaj yeem ua kom zoo dua los ntawm cov noob caj noob ces, cov ntawv sau tseg, cov cheeb tsam coding, thiab lwm yam. Nyob rau hauv rooj plaub no, kev txheeb xyuas qhov tseeb dua ntawm mRNA cov qauv, xws li lwm txoj kev sib txuas, thiab lwm yam, tuaj yeem ua tiav.Kev sib koom ua ke nrog NGS cov ntaub ntawv teev cov ntaub ntawv sib txuas ua kom muaj ntau cov lus piav qhia thiab kev txheeb xyuas qhov tseeb ntau dua hauv kev qhia ntawm qib ntawv sau, uas feem ntau tau txais txiaj ntsig zoo hauv nqe lus sib txawv thiab kev tshuaj xyuas ua haujlwm.
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Txo Cov Neeg Sawv Cev Bisulfite Sequencing (RRBS)
Kev tshawb fawb DNA methylation yeej ib txwm yog lub ntsiab lus kub hauv kev tshawb fawb kab mob, thiab muaj feem cuam tshuam nrog cov noob qhia thiab pheno-typic zoo.RRBS yog ib txoj hauv kev zoo, muaj txiaj ntsig thiab kev lag luam rau kev tshawb fawb DNA methylation.Kev txhawb nqa ntawm cov neeg txhawb nqa thiab CpG cov koog pov txwv los ntawm enzymatic cleavage (Msp I), ua ke nrog Bisulfite sequencing, muab kev daws teeb meem DNA methylation nrhiav pom.
Platform: Illumina NovaSeq Platform
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Prokaryotic mRNA sequencing
mRNA sequencing txhawb nqa cov kev qhia dav dav ntawm txhua mRNA cov ntawv teev lus hauv cov hlwb hauv cov xwm txheej tshwj xeeb.Qhov kev siv thev naus laus zis no ua haujlwm zoo li cov cuab yeej muaj zog, nthuav tawm cov kab lus sib txawv ntawm cov noob caj noob ces, cov qauv noob, thiab cov txheej txheem molecular cuam tshuam nrog ntau yam txheej txheem lom neeg.Kev siv dav dav hauv kev tshawb fawb, kev kuaj mob, thiab kev tsim tshuaj, mRNA sequencing muab kev nkag siab rau hauv kev tsis sib haum xeeb ntawm cellular dynamics thiab kev tswj caj ces.Peb cov qauv prokaryotic mRNA ua qauv yog tsim rau cov ntaub ntawv pov thawj prokaryotic, suav nrog rRNA depletion thiab kev npaj tsev qiv ntawv.
Platform: Illumina NovaSeq X
