run_metadata: 56774
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 56774 | SRR15813415 | SRX12105519 | SRS10085813 | SRP249509 | PRJNA606682 | CellOracle: Dissecting cell identity via network inference and in silico gene perturbation | GSE145298 | Other | Single cell RNA sequencing analysis of zebrafish embryos with wild type and crispant sample. Overall design: Single cell RNA sequencing was performed on wild type zebrafish embryos or F0 perturbed embryos using CRISPR Cas9 injection method. | pubmed:36755098 | flh control 2 | GSM5567789 | tissue:control of flh mutant|strain:floating head mutant +/+ and +/n1|Stage:10 hpf|experiment:Control embryos were generated by crossing heterozygous and selecting mutants based on their morphology at 10 hpf. | flh control 2 | Generation of fastq files via https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest Alignment to GRCz11 genome build via https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest Genome build: GRCz11 Supplementary files format and content: barcodes.tsv.gz feature.tsv.gz matrix.mtx.gz | control of flh mutant | 10x Genomcis Chromium single cell preparation | strain:floating head mutant +/+ and +/n1|Stage:10 hpf|experiment:Control embryos were generated by crossing heterozygous and selecting mutants based on their morphology at 10 hpf. | GSM5567789 | GSM5567789: flh control 2; Danio rerio; RNA Seq | GSM5567789 | 1 | 10x Genomcis Chromium single cell preparation | GEO Accession:GSM5567789 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | NextSeq 550 | SRP249509 | assembly:GRCz11|intentional duplicate | flh_control_2_possorted_genome_bam.bam | 10X Genomics bam file | 24602487300.0 | 273360970.0 | GSM5567789 r1 | 0:90 | A:7284609077;C:5102535766;G:5760617216;T:6447307892;N:7417349 | 90 | 7284609077 | 5102535766 | 5760617216 | 6447307892 | 7417349 | SRX12105519 | SRS10085813 | SRA1042742 | GEO | Washington University in St Louis | 1 | 0.91331 | 0.19905 | 0.82925 | 0.53189 | 90 | B | usable mapping rate | illumina | nextseq | unknown | cdna_unspecified | unknown | sc | single_cell_droplet | 10x | United States | 2021-09-08 | Gastrula | Embryo | Head | Nervous System |