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ʻO Chromatin Immunoprecipitation Sequencing (ChIP-seq)
Hāʻawi ʻo ChIP-Seq i ka genome-wide profiling o nā pahuhopu DNA no ka hoʻololi ʻana i ka histone, nā kumu transcription, a me nā protein e pili ana i ka DNA.Hoʻohui ia i ke koho ʻana o ka chromatin immuno-precipitation (ChIP) e hoʻihoʻi i nā paʻakikī protein-DNA kikoʻī, me ka mana o ka sequencing hanauna hou (NGS) no ke kaʻina hana kiʻekiʻe o ka DNA i hoʻihoʻi ʻia.Hoʻohui ʻia, no ka loaʻa ʻana o nā paʻina protein-DNA mai nā cell ola, hiki ke hoʻohālikelike ʻia nā wahi paʻa i nā ʻano cell like ʻole a me nā ʻiʻo, a i ʻole ma lalo o nā kūlana like ʻole.Loaʻa nā noi mai ka hoʻoponopono transcriptional i nā ala hoʻomohala i nā mīkini maʻi a ma waho.
Papahana: Illumina NovaSeq Platform
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Ke Kaʻina Metagenomic -NGS
ʻO ka Metagenome e pili ana i ka hōʻiliʻili ʻana o ka nui o nā mea moʻo o kahi kaiāulu hui o nā mea ola, e like me ka metagenome kaiapuni, metagenome kanaka, a me nā mea ʻē aʻe.ʻO ka metagenomic sequencing he mea hana molecular i hoʻohana ʻia e kālailai i nā mea genomic hui ʻia i unuhi ʻia mai nā laʻana kaiapuni, e hāʻawi ana i ka ʻike kikoʻī i ka ʻano like ʻole a me ka nui o nā ʻano, ke ʻano o ka heluna kanaka, ka pilina phylogenetic, nā genes hana a me ka pilina pili me nā mea kaiapuni.
Papahana:ʻO Illumina NovaSeq Platform
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ʻO ke Kaʻina Metagenomic-Nanopore
ʻO ka Metagenomics kahi mea hana molekala i hoʻohana ʻia e kālailai i nā mea genomic hui pū ʻia i unuhi ʻia mai nā laʻana kaiapuni, e hāʻawi ana i ka ʻike kikoʻī i ka ʻano like ʻole a me ka nui o nā ʻano, ka hoʻonohonoho ʻana o ka heluna kanaka, ka pilina phylogenetic, nā genes hana a me ka ʻoihana correlation me nā mea kaiapuni, a pēlā aku. i nā haʻawina metagenomic.ʻO kāna hana koʻikoʻi i ka lōʻihi heluhelu i hoʻonui nui ʻia i ke kahawai metagenomic analysis, ʻoi aku ka metagenome hui.ʻO ka loaʻa ʻana o ka pono o ka heluhelu-lōʻihi, hiki i ka Nanopore-based metagenomic study ke hoʻokō i ka hui mau ʻana i ka hoʻohālikelike ʻana me nā metagenomics pana-gun.Ua paʻi ʻia ʻo Nanopore-based metagenomics i hoʻopuka maikaʻi i nā genomes bacterial piha a pani ʻia mai nā microbiomes (Moss, EL, et. al,Nature Biotech, 2020)
Papahana:Nanopore PromethION P48
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ʻO ke kaʻina hana bisulfite genome holoʻokoʻa
ʻO ka methylation DNA ma ka pae ʻelima o ka cytosine (5-mC) he mana koʻikoʻi i ka hōʻike ʻana o ka gene a me ka hana kelepona.Hoʻopili ʻia nā ʻano methylation maʻamau me kekahi mau maʻi a me nā maʻi, e like me ke kanesa.Ua lilo ʻo WGBS i kumu gula no ke aʻo ʻana i ka genome-wide methylation ma ka hoʻonā kumu hoʻokahi.
Papahana: Illumina NovaSeq Platform
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ʻIke no ka Transposase-Accessible Chromatin me ke Kiʻekiʻe Throughput Sequencing (ATAC-seq)
ʻO ATAC-seq kahi ala hoʻokaʻina kiʻekiʻe no ka nānā ʻana i ka hiki ke komo i ka chromatin genome-ākea, he mea nui ia no ka mana epigenetic honua o ka hōʻike gen.Hoʻokomo ʻia nā mea hoʻopili sequencing i nā ʻāpana chromatin ākea e ka hyperactive Tn5 transposase.Ma hope o ka hoʻonui ʻia ʻana o PCR, kūkulu ʻia kahi waihona sequencing.Hiki ke loaʻa nā ʻāpana chromatin hāmama a pau ma lalo o kahi kūlana manawa-manawa kikoʻī, ʻaʻole i kaupalena ʻia i nā wahi paʻa o kahi mea transcription, a i ʻole kekahi ʻāpana histone i hoʻololi ʻia.
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16S/18S/ITS Amplicon Sequencing-PacBio
ʻO ka subunit ma 16S a me 18S rRNA i loaʻa nā ʻāpana ʻelua i mālama nui ʻia a me nā ʻāpana hyper-variable he manamana lima molekala kūpono no ka ʻike ʻana i nā mea ola prokaryotic a me eukaryotic.Ma ka hoʻohana ʻana i ka hoʻonohonoho ʻana, hiki ke hoʻopaʻa ʻia kēia mau amplicons ma muli o nā ʻāpana i mālama ʻia a hiki ke hōʻike piha ʻia nā ʻāpana hyper-variable no ka ʻike microbial e hāʻawi ana i nā haʻawina e pili ana i ka nānā ʻana i ka microbial diversity analysis, taxonomy, phylogeny, etc. ) ka hoʻonohonoho ʻana o ka paepae PacBio hiki ke loaʻa nā heluhelu lōʻihi pololei loa, hiki ke uhi i nā amplicons lōʻihi piha (ma kahi o 1.5 Kb).ʻO ka ʻike ākea o ke kahua genetic i hoʻomaikaʻi nui i ka hoʻonā ʻana i ka hōʻike ʻana i nā ʻano i loko o ke kaiāulu bacteria a i ʻole nā haʻo.
Papahana:PacBio Sequel II
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16S/18S/ITS Amplicon Sequencing-NGS
16S/18S/ITS amplicon sequencing e hōʻike ana i ka phylogeny, taxonomy, a me ka nui o nā ʻano mea i loko o kahi kaiāulu microbial ma o ka noiʻi ʻana i nā huahana PCR o nā hōʻailona genetic housekeeping i loaʻa nā ʻāpana kamaʻilio nui a me nā ʻāpana hypervariable.ʻO ka hoʻokomo ʻana i kēia mau manamana lima molekala maikaʻi e Woeses et al, (1977) e hoʻoikaika i ka hoʻokaʻawale ʻana i ka microbiome profiling.ʻO ke kaʻina o 16S (bacteria), 18S (fungi) a me Internal transcribed spacer (ITS, fungi) hiki ke ʻike i nā ʻano nui ʻelua a me nā ʻano mea ʻike ʻole ʻia.Ua lilo kēia ʻenehana i mea hoʻohana ākea a me ka mea nui i ka ʻike ʻana i ka haku mele microbial ʻokoʻa i nā ʻano like ʻole, e like me ka waha o ke kanaka, nā ʻōpū, nā feces, etc.
Papahana:ʻO Illumina NovaSeq Platform
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ʻO ka hoʻopaʻa ʻana i ka genome holoʻokoʻa i ka maʻi bacteria a me ka fungal
He mea paahana koʻikoʻi ka hoʻopaʻa ʻana i ka genome holoʻokoʻa bacteria a fungal no ka hoʻopau ʻana i nā genomes o nā huakini a me nā haʻani i ʻike ʻia, a me ka hoʻohālikelike ʻana i nā genomes lehulehu a i ʻole ka palapala ʻana i nā genomes o nā mea ola hou.He mea koʻikoʻi ka hoʻonohonoho ʻana i nā genomes holoʻokoʻa o ka hua bacteria a me nā haʻi i mea e hana ai i nā genome kuhikuhi pololei, e hana i ka ʻike microbial a me nā haʻawina genome hoʻohālikelike.
Papahana: Illumina NovaSeq Platform
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PacBio-Ka lōʻihi piha 16S/18S/ITS Amplicon Sequencing
Hoʻokumu ʻia ka paepae Amplicon (16S/18S/ITS) me nā makahiki o ka ʻike ʻana i ka noiʻi papahana microbial diversity, kahi i hoʻopaʻa ʻia i ka nānā ʻana maʻamau a me ka loiloi pilikino: uhi ʻia ka loiloi kumu i ka ʻike loiloi kumu o ka noiʻi microbial o kēia manawa, waiwai a piha ka ʻikepili. a hōʻike ʻia nā hopena o ka nānā ʻana ma ke ʻano o nā hōʻike papahana;He ʻokoʻa ka ʻike o ka loiloi pilikino.Hiki ke koho ʻia nā laʻana a hiki ke hoʻonohonoho pono ʻia nā ʻāpana e like me ka hōʻike loiloi kumu a me ke kumu noiʻi, e ʻike ai i nā koi pilikino.ʻO ka ʻōnaehana hana Windows, maʻalahi a wikiwiki.
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PacBio-Full-lōʻihi Transcriptome (Non-Reference)
Ke lawe nei i ka ʻikepili hoʻokaʻina Isoform i ka Pacific Biosciences (PacBio) ma ke ʻano he hoʻokomo, hiki i kēia App ke ʻike i nā kaʻina transcript lōʻihi (me ka ʻole o ka hui ʻana).Ma ka palapala ʻana i nā kaʻina holoʻokoʻa kūʻē i ka genome kuhikuhi, hiki ke hoʻopaʻa ʻia nā transcripts e nā genes i ʻike ʻia, transcripts, coding regions, etc.ʻO ka loiloi hui pū me ka NGS transcriptome sequencing data e hiki ai i ka hōʻike kikoʻī a me ka helu pololei ʻana i ka hōʻike ʻana ma ka pae transcript, ka mea e pōmaikaʻi nui ai i ka hōʻike ʻokoʻa a me ka loiloi hana.
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Hoʻemi ʻia ka hoʻohālikelike Bisulfite Sequencing (RRBS)
ʻO ka noiʻi DNA methylation he kumuhana wela i ka noiʻi maʻi, a pili pili i ka hōʻike gene a me nā ʻano pheno-typic.ʻO RRBS kahi ala pololei, kūpono a me ka waiwai no ka noiʻi DNA methylation.ʻO ka hoʻonui ʻia ʻana o ka mea hoʻolaha a me nā ʻāina mokupuni CpG e ka enzymatic cleavage (Msp I), i hui pū ʻia me ka Bisulfite sequencing, hāʻawi i ka ʻike methylation DNA kiʻekiʻe.
Papahana: Illumina NovaSeq Platform
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ʻO ke kaʻina hana mRNA prokaryotic
Hāʻawi ka mRNA sequencing i ka hōʻike piha ʻana o nā transcripts mRNA āpau i loko o nā cell ma lalo o nā kūlana kikoʻī.Ke hana nei kēia ʻenehana ʻokiʻoki ma ke ʻano he mea hana ikaika, e wehe ana i nā profile hōʻike gene paʻakikī, nā hana gene, a me nā mīkini molekala e pili ana i nā kaʻina olaola like ʻole.Hoʻohana nui ʻia i ka noiʻi koʻikoʻi, nā diagnostics clinical, a me ka hoʻomohala ʻana i ka lāʻau lapaʻau, hāʻawi ʻo mRNA sequencing i nā ʻike i ka paʻakikī o ka dynamics cellular a me ka hoʻoponopono genetic.Hoʻopili ʻia kā mākou prokaryotic mRNA sample process no prokaryotic transcriptomes, e pili ana i ka hoʻopau ʻana o rRNA a me ka hoʻomākaukau ʻana i ka waihona kuhikuhi.
Papahana: Illumina NovaSeq X
