run_metadata: 40221
This data as json
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| 40221 | SRR3143897 | SRX1474051 | SRS1200116 | 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 Ablated Hearts 2 TAM 2 | GSM1969521 | tissue:Whole hearts 7d post ablation|strain:EK/AB|line:gbactin2:loxP mCherry STOP loxP DTA176; cmlc2:CreER|treatment:Tamoxifen | ZF Ablated Hearts 2 TAM 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 hearts 7d post ablation | 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:Tamoxifen | GSM1969521 | GSM1969521: ZF Ablated Hearts 2 TAM 2; Danio rerio; RNA Seq | GSM1969521 | 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:GSM1969521 | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina Genome Analyzer II | SRP067229 | TAM2_CCGTCC_L005_R1.gz | fastq | 2751574250.0 | 55031485.0 | GSM1969521 r11 | 0:50 | A:748951871;C:632985067;G:617593198;T:751936222;N:107892 | 50 | 748951871 | 632985067 | 617593198 | 751936222 | 107892 | SRX1474051 | SRS1200116 | SRA316081 | GEO | Poss, Cell Biology, Duke | 1 | 0.90799 | 0.09785 | 0.72799 | 0.49426 | 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 |