Nā huahana

Ka hoʻokaʻina RNA Prokaryotic

Hōʻike ʻia ʻo Prokaryotic RNA sequencing

Hoʻohana ka prokaryotic RNA sequencing i ka hanauna e hiki mai ana (NGS) e hōʻike i ka hele ʻana a me ka nui o RNA i ka manawa i hāʻawi ʻia, ma o ka nānā ʻana i ka transcriptome cellular loli.ʻO ka prokaryotic RNA sequencing o kā mākou hui, pili pono i nā prokaryotes me nā genomes reference, hāʻawi iā ʻoe me ka transcriptome profiling, gene structure analysis, etc.

Papahana: Illumina NovaSeq Platform

Kāhea iā mā˚ou

Nā kikoʻī lawelawe

Papahana: Illumina NovaSeq kahua, PE150

ʻAno waihona: 350bp hoʻokomo i ka waihona cDNA

Hoʻolālā kaʻina hana: Paired-End 150 bp

Manaʻo i ka nui o ka ʻikepili: 2 Gb ʻikepili maka/lapana

Bioinformatics

(1) Sequencing data quality control: Nucleotide distribution, Base quality distribution, rRNA ratio assessment;

(2) Ka nānā 'ana i ka ho'onohonoho 'ana i ke ka'ina hana: Ka 'ikepili hopena o ka ho'onohonoho 'ana, Kekahi o ka ho'onohonoho 'ana, Ka uhi 'ana o ka ho'onohonoho 'ana;

(3) Hōʻike hōʻike genome (NR, Swiss-Prot, Pfam, COG, GO, KEGG);

(4) Hōʻike hōʻike: Hoʻolaha hōʻike (Me ʻelua a ʻoi aʻe paha nā laʻana), Ka nānā ʻana o ka ʻōlelo ma waena o nā laʻana (Venn analysis, Correlation analysis, PCA analysis);

(5) Ka nānā 'ana i ka 'ōlelo 'oko'a (Me nā la'ana 'elua a 'oi aku paha);

(6) Gene set analysis: Venn analysis, Cluster analysis, Function annotation analysis (COG, GO, KEGG), Function enrichment analysis (GO, KEGG), Function enrichment chordal graph, Ipath analysis;

(7) sRNA kālailai: sRNA wanana, sRNA annotation (Blast, sRNAMap, sRNATarBase, SIPHT, Rfam), sRNA papa hana wanana, sRNA target gene prediction;

(8) Ka nānā 'ana i ka 'ano o ka palapala: 'Operon analysis, 'Ōlelo ho'omaka a ho'opau i nā paena wanana, UTR annotation and analysis, Promoter sequence prediction, SNP/InDel analysis (SNP/InDel annotation, SNP/InDel regional distribution, SNP statistics).