run_metadata: 49091
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 49091 | SRR7666344 | SRX4527573 | SRS3645455 | SRP157045 | PRJNA485433 | Diurnal transcriptome of adult zebrafish eye | PRJNA485433 | Other | Circadian rhythms orchestrate organism physiology to rhythmic changes in the environment with the daily day and night cycle being the most prominent cyclic change occurring. In this regard retina being a light responsive organ shows its vital physiological processes to be regulated by the clock. Here we report the diurnal transcriptome of zebrafish retina at Zt4day and Zt16night. We found 39% and 31% of the known genes to be expressed in retina at Zt4 and Zt16 respectively Reference genome Zv9. Also by applying stringent cutoff of 5FPKM we identified 123 transcripts to be expressed differentially between the two time points which contains few novel transcripts. In future this study will contribute to the understanding of organ and species specific regulation of circadian rhythms and will also provide novel genes involved in the circadian regulation of retina. | ZT4 | strain:Assam wild type|age:>3 month|dev stage:adult|sex:pooled male and female|tissue:eye|BioSampleModel:Model organism or animal | diurnal trancriptome of retina | ZT4 101nt | ZT4 101nt | total transcriptome with Truseq stranded library | RNA-Seq | TRANSCRIPTOMIC | size fractionation | PAIRED | ILLUMINA | Illumina HiSeq 2500 | SRP157045 | ZF_Eye_CT4_gt50_R1_P.fastq ZF_Eye_CT4_gt50_R2_P.fastq | fastq fastq | 4550334348.0 | 22527137.0 | ZF Eye CT4 gt50 R1 P.fastq | 0:101.00 1:101.00 | A:1196463938;C:1068045211;G:1064853438;T:1220233324;N:738437 | 101 | 101 | 1196463938 | 1068045211 | 1064853438 | 1220233324 | 738437 | SRX4527573 | SRS3645455 | SRA756783 | CSIR Insitute of Genomics and Integrative Biology|Functional Genomics | CSIR Insitute of Genomics and Integrative Biology | 2 | 0.92663 | 0.92909 | 0.33125 | 0.32333 | 0.70197 | 0.7013 | 0.55991 | 0.52684 | 101 | 101 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | size_fractionation | trueseq | bulk | unknown | unknown | India | 2018-12-27 | Adult | Adult | Eye | Sensory System |