run_metadata: 33317
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 33317 | SRR29927551 | SRX25421499 | SRS22081655 | SRP521592 | PRJNA1139127 | Laser capture microdissection RNA sequencing of zebrafish optic nerve regeneration | PRJNA1139127 | Other | Zebrafish have the ability to successfully regenerate the connection from the eye to the brain following optic nerve injury in adult. To identify differentially expressed genes in the affected tissues we performed laser capture mRNA sequencing of the retinal ganglion cell layer inner nuclear layer outer nuclear layer and bulk optic nerve in 3 day post optic nerve injury versus naive control animals. The 3 xxx post injury time point was chosen as a time when axons are actively regenerating throughout the optic nerve to the optic chiasm. These data provide a resource for identifying genes expressed in each tissue and their differential expression during optic nerve regeneration. | ON Control rep1 | MCWR 2019 000146 | strain:wild type|dev stage:adult|collection date:2019 10 18|geo loc name:USA: Wisconsin Milwaukee|sex:female|tissue:optic nerve|treatment:ON Control rep1|BioSampleModel:Model organism or animal | RNA Seq of Danio rerio: naive optic nerve | ON Control rep1 | ON Control rep1 | SMART Seqv4 | RNA-Seq | TRANSCRIPTOMIC | Oligo-dT | PAIRED | ILLUMINA | Illumina HiSeq 2000 | SRP521592 | MCWR_2019_000146_S17_L002_R2_001.fastq.gz MCWR_2019_000146_S17_L002_R1_001.fastq.gz MCWR_2019_000146_S17_L001_R2_001.fastq.gz MCWR_2019_000146_S17_L001_R1_001.fastq.gz | fastq fastq fastq fastq | 10264964293.0 | 34089023.0 | MCWR 2019 000146 S17 L001 R1 001.fastq.gz | 0:150.56 1:150.56 | A:2551033720;C:2573448189;G:2588121299;T:2552234053;N:127032 | 150 | 150 | 2551033720 | 2573448189 | 2588121299 | 2552234053 | 127032 | SRX25421499 | SRS22081655 | SRA1930690 | Medical College of Wisconsin|Cell Biology, Neurobiology, and Anatomy | Medical College of Wisconsin | 2 | 0.95724 | 0.95715 | 0.07005 | 0.07059 | 0.75637 | 0.75732 | 0.42392 | 0.41384 | 151 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | poly_a | unknown | sc | single_cell_plate | smartseq | United States | 2024-07-23 | Adult | Adult | Brain | Nervous System |