● Loaʻa nā panela exome ʻelua ma muli o ka hoʻonui ʻia ʻana o ka pahuhopu me nā probes: Sure Select Human All Exon v6 (Agilent) a me xGen Exome Hybridization Panel v2 (IDT).
● Ke kaʻina hana ma Illumina NovaSeq.
● ʻO ka paipu bioinformatic i kuhikuhi ʻia i ka nānā ʻana i nā maʻi a i ʻole ka nānā ʻana i ka tumora.
●Kuhi ʻia i ka ʻāpana hoʻoheheʻe protein: Ma ka hopu ʻana a me ka hoʻonohonoho ʻana i nā ʻāpana coding protein, hoʻohana ʻia ka hWES e hōʻike i nā ʻano like ʻole e pili ana i ke ʻano o ka protein.
●Kūʻai maikaʻi:Hāʻawi ka hWES ma kahi o 85% o nā hoʻololi e pili ana i ka maʻi kanaka mai 1% o ka genome kanaka.
●Pono Kiʻekiʻe: Me ka hohonu o ke kaʻina hana kiʻekiʻe, hoʻomaʻamaʻa ka hWES i ka ʻike ʻana i nā ʻano like ʻole a me nā ʻano like ʻole me nā alapine haʻahaʻa ma mua o 1%.
●Hoʻomalu maikaʻi loa: Hoʻokō mākou i ʻelima mau kumu mana ma nā pae āpau, mai ka laʻana a me ka hoʻomākaukau ʻana i ka waihona a hiki i ka sequencing a me ka bioinformatics. Mālama kēia mākaʻikaʻi ʻana i ka hāʻawi ʻana i nā hopena kiʻekiʻe mau.
●ʻIkepili Bioinformatics piha: ʻO kā mākou pipeline ma mua o ka ʻike ʻana i nā ʻano like ʻole i ka genome reference, no ka mea, ua hoʻokomo ʻia ka loiloi holomua i hoʻolālā ʻia e hoʻoponopono pono i nā nīnau noiʻi e pili ana i nā ʻano genetic o nā maʻi a i ʻole ka nānā ʻana i ka tumor.
●Kākoʻo ma hope o ke kūʻai ʻana:ʻO kā mākou kūpaʻa e ʻoi aku ma mua o ka hoʻopau ʻana o ka papahana me kahi 3 mau mahina ma hope o ke kūʻai aku ʻana. I kēia manawa, hāʻawi mākou i ka hahai ʻana o ka papahana, kōkua hoʻoponopono, a me nā hālāwai Q&A e hoʻoponopono i nā nīnau pili i nā hopena.
Papahana Hopu Exon | Hoʻolālā Sequencing | Manaʻo ʻia ka ʻikepili hoʻopuka |
Pono e koho i ke kanaka All Exon v6 (Agilent) a i ʻole xGen Exome Hybridization Panel v2 (IDT)
| ʻO Illumina NovaSeq PE150 | 5 -10 Gb No nā ma'i mendelian/ma'i kaka'ikahi: > 50x No nā laʻana tumora: ≥ 100x |
ʻAno Laʻana
| Ka nui(Qubit® )
| Hoʻopaʻa ʻana | Volume
| Maʻemaʻe (NanoDrop™ ) |
DNA Genomic
| ≥ 50 ng | ≥ 6 ng/μL | ≥ 15 μL | OD260/280=1.8-2.0 ʻaʻohe degradation, ʻaʻohe haumia
|
ʻO ka loiloi bioinformatic o nā hōʻailona hWES-maʻi me:
● Hoʻokaʻina ʻikepili QC
● Hōʻike Genome Alignment
● Hoʻomaopopo i nā SNP a me InDels
● Hōʻike no nā SNP a me InDels
ʻO ka loiloi bioinformatic o nā laʻana tumor e pili ana:
● Hoʻokaʻina ʻikepili QC
● Hōʻike Genome Alignment
● Identification of SNPs, InDels and somatic variations
● Hoʻomaopopo i nā ʻano ʻano germline
● Kānāwai pūlima hoʻololi
● Ka ʻike ʻana i nā genes drive e pili ana i nā hoʻololi ʻana o ka loaʻa ʻana o ka hana
● Hōʻike hoʻololi i ka pae o ka maʻalahi o ka lāʻau
● Heterogeneity analysis - helu o ka maʻemaʻe a me ka ploidy
ʻIkepili QC - Heluhelu o Exome hopu
ʻIke ʻokoʻa - InDels
ʻIke holomua: ʻike a me ka hāʻawi ʻana i nā SNP / InDels deleterious - Circos plot
Nānā Tumor: ʻike a me ka hāʻawi ʻana i nā mutations somatic - Circos plot
Ka nānā 'ana i ke koko: clonal lineages