run_metadata: 71695
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 71695 | SRR21966804 | SRX17950305 | SRS15467733 | 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. | LPS 24hpi 3 | LPS 24hpi 3 | isolate:not applicable|age:6 month|sex:not applicable|tissue:retina|replicate:LPS 24hpi biological replicate3|BioSampleModel:Model organism or animal | RNA seq of retina | LPS 24hpi 3 | LPS 24hpi 3 | 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 | LPS_24hpi_3_1.fq.gz LPS_24hpi_3_2.fq.gz | fastq fastq | 5757291600.0 | 19190972.0 | LPS 24hpi 3 1.fq.gz | 0:150 1:150 | A:1600505453;C:1274738155;G:1290634640;T:1591222631;N:190721 | 150 | 150 | 1600505453 | 1274738155 | 1290634640 | 1591222631 | 190721 | SRX17950305 | SRS15467733 | 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 | 0.93363 | 0.93509 | 0.12986 | 0.13001 | 0.7069 | 0.70741 | 0.51061 | 0.51114 | 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 |