{"database": "metadata", "table": "run_metadata", "rows": [[51883, "SRR8922967", "SRX5704266", "SRS4643328", "SRP192854", "PRJNA533283", "RNA seq of erythroid cells from 24 hpf sf3b1 mutant and sibling zebrafish", "GSE129952", "Transcriptome Analysis", "The purpose of the experiment was to define the gene expression and splicing alterations occurring when the levels of the splicing factor Sf3b1 are lowered in embryonic zebrafish. Results provide insight the role of Sf3b1 in erythropoietic development. Overall design: mRNA profiling of gata1 positive erythroid cells isolated from 24 hpf sf3b1 mutant and sibling zebrafish using Illumina NextSeq500. Five samples were sequenced for each.", null, null, null, "erythroid cells: Mut4", "GSM3728526", null, "tissue:erythroid cells|age:24 hpf type:gata1 positive erythroid cells|genotype/variation:sf3b1 mutant", "erythroid cells: Mut4", "basecalling was done with the Picard module IlluminaBasecallsToFastq Reads were trimmed using TRIM GALORE software to check for quality of 150bp reads. These paired end reads were mapped using STAR aligner version 2.4.2a to the reference genome. Differential expression analysis was done using DESeq220 and EdgeR21 Bioconductor packages. To calculate FPKM  Cufflinks version 2.2.1 was used. Genome build: GRcz10 Supplementary files format and content: tab delimited text file includeS FPKM values for each Sample", "erythroid cells", null, "Gata1 positive cells were isolated from zebrafish embryos. RNA was extracted with the quick RNA microprep Zymo. Ribosomal RNA was depleted with Ribogone Clontech. Libraries were made following the protocol and using the reagents from the SMARTer Stranded RNA Seq Kit Clontech.", null, "age:24 hpf type:gata1 positive erythroid cells|genotype/variation:sf3b1 mutant", "GSM3728526", "GSM3728526: erythroid cells: Mut4; Danio rerio; RNA Seq", "GSM3728526", null, "1", "Gata1 positive cells were isolated from zebrafish embryos. RNA was extracted with the quick RNA microprep Zymo. Ribosomal RNA was depleted with Ribogone Clontech. 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