run_metadata: 38443
This data as json
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| 38443 | SRR1821796 | SRX893397 | SRS859570 | SRP055573 | PRJNA276667 | RNA seq of zebrafish brain liver and skin during perturbation with rotenone at young and old age | GSE66362 | Transcriptome Analysis | Zebrafish of two different age groups 12 month and 36 month were treated with low amounts of rotenone mild stress and compared to untreated zebrafish. Two different durations were used 3 and 8 weeks. Illumina sequencing HiSeq2000 was applied to generate 50bp single end reads. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 68 sample: 3 tissues brain liver skin; 2 age groups 12 month and 36 month; controls and rotenone treated samples; 2 6 biological replicates for each group | pubmed:27135165 | brain168 36m 3.75nM roten1 3w rep1 | GSM1620943 | source name:total RNA extracted from brain|tissue:brain|age:36 month|treatment:3.75nM roten1|duration:3 weeks | brain168 36m 3.75nM roten1 3w rep1 | FASTQ files were extracted using Illumina Casava software v1.8.2. | total RNA extracted from brain | Tanks with male zebrafish were supplemented with 3.75 nM rotenone or DMSO control for 3 weeks and 8 weeks respectively. 50% tank water was changed twice a week and fresh Rotenone and DMSO was added to the tanks. | Total RNA was isolated using QIAzol Qiagen Hilden Germany based on the phenol/chloroform extraction method. postwards the RNA was quantified photometrically with a NanoDrop 1000 PeqLab Erlangen Germany and stored at 80 °C until use. For library preparation an amount of around 2.5 ug of total RNA per sample was processed using Illumina's TruSeqTM RNA Sample Prep Kit Illumina; San Diego; CA USA following the manufacturer's instruction. | Zebrafish Danio rerio were raised under standard conditions. | tissue:brain|age:36 month|treatment:3.75nM roten1|duration:3 weeks | GSM1620943 | GSM1620943: brain168 36m 3.75nM roten1 3w rep1; Danio rerio; RNA Seq | GSM1620943 | 1 | Total RNA was isolated using QIAzol Qiagen Hilden Germany based on the phenol/chloroform extraction method. postwards the RNA was quantified photometrically with a NanoDrop 1000 PeqLab Erlangen Germany and stored at 80 °C until use. For library preparation an amount of around 2.5 ug of total RNA per sample was processed using Illumina's TruSeqTM RNA Sample Prep Kit Illumina; San Diego; CA USA following the manufacturer's instruction. | GEO Accession:GSM1620943 | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina HiSeq 2000 | SRP055573 | Brain168.fastq.gz | fastq | 2080177550.0 | 41603551.0 | GSM1620943 r1 | 0:50 | A:581188271;C:463464308;G:451483040;T:583963411;N:78520 | 50 | 581188271 | 463464308 | 451483040 | 583963411 | 78520 | SRX893397 | SRS859570 | SRA244883 | GEO | Leibniz Institute for Age Research - Fritz Lipmann Institute | 1 | 0.91585 | 0.1671 | 0.69487 | 0.51506 | 50 | B | usable mapping rate | illumina | hiseq_era | unknown | cdna_unspecified | unknown | bulk | unknown | unknown | Germany | 2015-02-27 | Adult | Adult | Brain | Nervous System |