run_metadata: 28507
This data as json
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| 28507 | SRR26321423 | SRX22029491 | SRS19102273 | SRP465132 | PRJNA1025903 | Zebrafish cryoinjury regeneration Raw sequence reads | PRJNA1025903 | Whole Genome Sequencing | Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury | 7dpci 1 | R9 | strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal | RNA seq of zebrafish liver 7 dpci | R9 | R9 | ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample. | RNA-Seq | TRANSCRIPTOMIC | PCR | SINGLE | ILLUMINA | NextSeq 500 | SRP465132 | R9.fastq | fastq | 23400.0 | 312.0 | R9.fastq | 0:75 | A:8130;C:4537;G:4809;T:5917;N:7 | 75 | 8130 | 4537 | 4809 | 5917 | 7 | SRX22029491 | SRS19102273 | SRA1727674 | Peter MacCallum Cancer Centre|Organogenesis and Cancer | Peter MacCallum Cancer Centre | 1 | 0.83588 | 0.05725 | 0.99801 | 0.68586 | 75 | B | usable mapping rate | illumina | nextseq | unknown | random_priming | unknown | bulk | bulk | bulk | Australia | 2023-10-11 | Adult | Adult | Liver | Liver and Biliary System |