run_metadata: 61841
This data as json
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| 61841 | SRR12999692 | SRX9450937 | SRS7663851 | SRP291443 | PRJNA675087 | MicroRNAs involved in regeneration of adult zebrafish brain. | GSE160992 | Transcriptome Analysis | For its remarkable ability to heal injuries of the adult central nervous system the zebrafish has become an important model to investigate neural regeneration. Despite big progresses in our understanding of some of the underlying key processes a comprehensive analysis of the changes of the transcriptome has not been reported yet. We analysed here the transcriptome of the regenerating telencephalon for changes in the expression of microRNAs and their putative targets. Overall design: small RNA sequencing of injured and control adult zebrafish telencephalic hemisphere | pubmed:34054419;pubmed:35204047 | healthy telencephalic hemisphere 2 | GSM4887525 | source name:telencephalic hemisphere|tissue:telencephalon|treatment:no treatment | healthy telencephalic hemisphere 2 | Run was demultiplexed with bcl2fasq Adaptor sequence was trimmed from reads with cutadapt Reads were mapped with bwa Raw level of expression was computed with HTSeq Genome build: GRCz11 Supplementary files format and content: raw count per gene | telencephalic hemisphere | Trizol Invitrogen From 1µg of total RNAs we prepared libraries with the TruSeq Total RNA library preparation kit from Illumina and following Illumina's recommendations. We then selected molecule of libraries according to their size with a migration on a polyacrylamide gel. Quality of input RNAs and libraries were both assessed with a BioAnalyzer 2100. The libraries were prepared in triplicates for both conditions control and injured. | tissue:telencephalon|treatment:no treatment | GSM4887525 | GSM4887525: healthy telencephalic hemisphere 2; Danio rerio; RNA Seq | GSM4887525 | 1 | Trizol Invitrogen TrueSeq RNA Illumina | GEO Accession:GSM4887525 | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina HiSeq 1500 | SRP291443 | CTRL2.fastq.gz | fastq | 533253402.0 | 24364720.0 | GSM4887525 r1 | 0:21.89 1:0 | A:125553872;C:106408524;G:133237076;T:168053930;N:0 | 21 | 0 | 125553872 | 106408524 | 133237076 | 168053930 | 0 | SRX9450937 | SRS7663851 | SRA1155190 | GEO | UMR1064, Centre de recherche en transplantation et immunologie | 1 | 0.92261 | 0.08906 | 0.97881 | 0.55986 | 21 | B | usable mapping rate | illumina | hiseq_era | unknown | small_rna | trueseq | bulk | bulk | bulk | Canada | 2020-11-06 | Undetermined | Adult | Brain | Nervous System |