run_metadata: 40219
This data as json
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| 40219 | SRR3143916 | SRX1474053 | SRS1200114 | SRP067229 | PRJNA305621 | Modulation of tissue repair by regeneration enhancer elements. | GSE75894 | Other | We compared transcriptional and chromatin profiles of regenerating zebrafish hearts following genetic ablation with profiles from uninjured zebrafish hearts. Overall design: Examination of whole heart transcriptional profiles from ablated hearts 2 pools of 10 hearts and uninjured hearts 2 pools of 10 hearts. Examination of differential H3K27Ac marks following genetic ablation of cardiomyocytes regenerating hearts and uninjured hearts. | pubmed:27049946 | ZF Uninjured Hearts 2 PG 2 | GSM1969523 | tissue:Whole uninjured hearts|strain:EK/AB|line:gbactin2:loxP mCherry STOP loxP DTA176; cmlc2:CreER|treatment:Propylene glycol | ZF Uninjured Hearts 2 PG 2 | Base calling with Casava Alignment with TopHat Counts summarized with R using TopHat output Analysis performed with EdgeR package of Bioconductor Genome build: Zv9 Supplementary files format and content: "Reads cpms.txt" is tab delimited text file. CPMs were calculated using edgeR. Supplementary files format and content: "Raw read counts.txt" is a tab delimited text file containing summarized counts for each transcript. This was the dataset entered into edgeR. | Whole uninjured hearts | Animals were treated with Tamoxifen of propylene glycol | Hearts were collected 7 days post treatment. 10 ventricles were dissected rinsed in heparin placed in Trizol and homogenized. RNA was then extracted. Illumina RNA Seq 50 bp Single end libraries | strain:EK/AB|line:gbactin2:loxP mCherry STOP loxP DTA176; cmlc2:CreER|treatment:Propylene glycol | GSM1969523 | GSM1969523: ZF Uninjured Hearts 2 PG 2; Danio rerio; RNA Seq | GSM1969523 | 1 | Hearts were collected 7 days post treatment. 10 ventricles were dissected rinsed in heparin placed in Trizol and homogenized. RNA was then extracted. Illumina RNA Seq 50 bp Single end libraries | GEO Accession:GSM1969523 | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina Genome Analyzer II | SRP067229 | PG2_TGACCA_L005_R1.gz | fastq | 2681585050.0 | 53631701.0 | GSM1969523 r11 | 0:50 | A:725724149;C:626158732;G:607690303;T:721904776;N:107090 | 50 | 725724149 | 626158732 | 607690303 | 721904776 | 107090 | SRX1474053 | SRS1200114 | SRA316081 | GEO | Poss, Cell Biology, Duke | 1 | 0.9015 | 0.07041 | 0.7625 | 0.50968 | 50 | B | usable mapping rate | illumina | early_illumina | full_length | random_priming | unknown | bulk | unknown | unknown | United States | 2015-12-10 | Undetermined | Undetermined | Heart | Cardiovascular System |