run_metadata: 71713
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 71713 | SRR21966822 | SRX17950287 | SRS15467715 | SRP403321 | PRJNA891767 | RNA seq of retina of zebrafish | PRJNA891767 | Other | We performed bulk RNA sequencing on the zebrafish in an aim to identify the differential expression genes between retinal inflammation and normal group. | saline 12hpi 1 | saline 12hpi 1 | isolate:not applicable|age:6 month|sex:not applicable|tissue:retina|replicate:saline 12hpi biological replicate1|BioSampleModel:Model organism or animal | RNA seq of retina | saline 12hpi 1 | saline 12hpi 1 | RNA Extraction library construction and sequencingTotal RNA was extracted using Trizol reagent kit Invitrogen Carlsbad CA USA according to the manufacturers protocol. RNA quality was assessed on an Agilent 2100 Bioanalyzer Agilent Technologies Palo Alto CA USA and checked using RNase free agarose gel electrophoresis. post total RNA was extracted eukaryotic mRNA was enriched by OligodT beads. Then the enriched mRNA was fragmented into short fragments using fragmentation buffer and reverse transcripted into cDNA with random primers. Second strand cDNA were synthesized by DNA polymerase I RNase H dNTP and buffer. Then the cDNA fragments were purified with QiaQuick PCR extraction kitQiagen Venlo The Netherlands end repaired polyA added and ligated to Illumina sequencing adapters. The ligation products were size selected by agarose gel electrophoresis PCR amplified and sequenced using Illumina Novaseq6000 by Gene Denovo Biotechnology Co. Guangzhou China. | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP403321 | saline_12hpi_1_1.fq.gz saline_12hpi_1_2.fq.gz | fastq fastq | 13424687400.0 | 44748958.0 | saline 12hpi 1 1.fq.gz | 0:150 1:150 | A:3721315477;C:2980358472;G:3018026284;T:3704553827;N:433340 | 150 | 150 | 3721315477 | 2980358472 | 3018026284 | 3704553827 | 433340 | SRX17950287 | SRS15467715 | SRA1523113 | The First Affiliated Hospital of Zhengzhou University, Henan Province Eye Hospital|Henan International Joint Research Laboratory for | The First Affiliated Hospital of Zhengzhou University, Henan Province Eye Hospital | 2 | 0.93225 | 0.93342 | 0.13753 | 0.13795 | 0.70806 | 0.70668 | 0.49478 | 0.49461 | 150 | 150 | B | B | biological fallback assumption | illumina | novaseq_era | unknown | poly_a | unknown | bulk | bulk | bulk | China | 2022-10-19 | Adult | Adult | Eye | Sensory System |