run_metadata: 8106
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 8106 | ERR2455364 | ERX2474424 | ERS2327329 | ERP107743 | PRJEB25789 | RNA seq of zebrafish larvae fed with different diets | E-MTAB-6636 | Transcriptome Analysis | We aim to establish NAFLD model of Zebrafish. Zebrafish larvae fed with high cholesterol diet high fructose diet and overfeed diet to induce liver steatosis. RNA seq was employed to analyze the effects of different diets on NAFLD development. | ENA FIRST PUBLIC:2018 12 01|ENA LAST UPDATE:2018 03 29 | Protocols: Total RNAs were extracted from liver tissues of zebrafish larvae. A total amount of 1.5μg RNA per sample was used as input material for the RNA sample preparations. Briefly mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEB. Sequencing libraries were generated using NEBNext® UltraTM RNA Library Prep Kit for Illumina® NEB USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. | Sample 2 | SAMEA104725946 | Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College | ENA FIRST PUBLIC:2018 12 01T17:02:09Z|ENA LAST UPDATE:2018 03 29T12:32:24Z|External Id:SAMEA104725946|INSDC center name:Institute of Medicinal Biotechnology Chinese Academy of Medical Sciences and Peking Union Medical College|INSDC first public:2018 12 01T17:02:09Z|INSDC last update:2018 03 29T12:32:24Z|INSDC status:public|Submitter Id:E MTAB 6636:Sample 2|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|diet:cholesterol|organism part:liver|sample name:E MTAB 6636:Sample 2|scientific name:Danio rerio | Illumina HiSeq 4000 sequencing; RNA seq of zebrafish larvae fed with different diets | E MTAB 6636:Sample 2 s | Sample 2 s | RNA seq of zebrafish larvae fed with different diets | Total RNAs were extracted from liver tissues of zebrafish larvae. A total amount of 1.5μg RNA per sample was used as input material for the RNA sample preparations. Briefly mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEB. Sequencing libraries were generated using NEBNext® UltraTM RNA Library Prep Kit for Illumina® NEB USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. | Experimental Factor: diet:cholesterol | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina HiSeq 4000 | ERP107743 | Illumina HiSeq 4000 sequencing; RNA seq of zebrafish larvae fed with different diets | ENA FIRST PUBLIC:2018 12 01|ENA LAST UPDATE:2018 11 16 | Cho-2_H7MWNALXX_L5_1.fq.gz | fastq | 5636304900.0 | 37575366.0 | E MTAB 6636:Sample 2 | 0:150 1:0 | A:1526862069;C:1295343770;G:1298751994;T:1514766898;N:580169 | 150 | 0 | 1526862069 | 1295343770 | 1298751994 | 1514766898 | 580169 | ERX2474424 | ERS2327329 | ERA1259907 | Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College|European Nucleotide Archive | Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College|European Nucleotide Archive | 1 | 0.91032 | 0.11644 | 0.66649 | 0.47766 | 150 | B | usable mapping rate | illumina | hiseq_era | unknown | cdna_unspecified | nebnext | bulk | unknown | unknown | China | 2018-03-29 | Larval | Larval | Liver | Liver and Biliary System |