run_metadata: 59300
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 59300 | SRR11814652 | SRX8365667 | SRS6681523 | SRP262372 | PRJNA633905 | Effects of Pseudoloma neurophilia infection on the brain transcriptome in zebrafish Danio rerio | PRJNA633905 | Other | Zebrafish Danio rerio have become an increasingly important animal model in biomedical research over the last few centuries. Unfortuntaley the brain infecting microsporidian parasite Pseudoloma neurophilia has been detected in approximately 70% of all zebrafish facilities examined through the Zebrafish International Resource Centre ZIRC. Pseudoloma neurophilia can infects the zebrafish either horizontally or vertically making it difficult to get rid of when first found in a population. The clinical disease caused by the parasite includes skeletal deformities lethargy and emaciation however most infections are subclinical. The impact caused on zebrafish by subclinical infections have not been very well studied and such infections can possibly create unwanted bias results. By studying the behavior neurochemistry respirometry and genetics we will try to understand possible implications of P. neurophilia in zebrafish. | BC 1 | strain:AB|age:1 year|sex:not applicable|tissue:Brain stem|health state:Uninfected|treatment:Brain stem uninfected 1|BioSampleModel:Model organism or animal | RNA Seq of zebrafish brain | BC 1 | BC 1 | mRNA extracted with oligodT magnetic beads. cDNA synthesized with M MuLV reverse transcriptase. Complementary strands were synthesized by nick translation. | RNA-Seq | TRANSCRIPTOMIC | PCR | PAIRED | ILLUMINA | Illumina HiSeq 2500 | SRP262372 | BC_1.fq.gz BC_2.fq.gz | fastq fastq | 6526344600.0 | 21754482.0 | BC 1.fq.gz | 0:150 1:150 | A:1838952986;C:1435206004;G:1446578320;T:1805489595;N:117695 | 150 | 150 | 1838952986 | 1435206004 | 1446578320 | 1805489595 | 117695 | SRX8365667 | SRS6681523 | SRA1077155 | Norwegian University of Life Sciences|Nutrition | Norwegian University of Life Sciences | 2 | 0.91429 | 0.91584 | 0.10822 | 0.10786 | 0.71725 | 0.71685 | 0.51793 | 0.51793 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | random_priming | unknown | bulk | unknown | unknown | Norway | 2020-05-19 | Adult | Adult | Brain | Nervous System |