run_metadata: 56167
This data as json
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| 56167 | SRR10887543 | SRX7556524 | SRS5993910 | SRP241937 | PRJNA601204 | Epithelial planar bipolarity emerges from Notch mediated asymmetric inhibition of Emx2 | GSE143663 | Transcriptome Analysis | This dataset consists of single cell RNA seq mcSCRBseq data of neuromast hair cells from wild type and Emx2 mutant zebrafish larvae. Posterior lateral line neuromast hair cells were isolated by fluorescence activated cell sorting FACS from the dissociated trunks of wild type and Emx2 mutant Tg[myo6b:actb1 EGFP] transgenic zebrafish larvae expressing the green fluorescent protein EGFP in hair cells and unipotent hair cell progenitors UHCPs. Overall design: mcSCRB seq experiment of hair cells from wild type and Emx2 mutant larvae. | pubmed:32109392 | TGTAAA: hair cells wt 2C12 | GSM4271723 | source name:zebrafish neuromast hair cells|genotype:Tg[myo6b:actb1 EGFP] wild type|tissue:zebrafish neuromast hair cells|developmental day:6 dpf | TGTAAA: hair cells wt 2C12 | Fastq reads were processed with the zUMIs pipeline version 0.2.0 Parekh et al. 2018 cDNA reads were aligned to the Zebrafish Genome GRCZ11 with STAR 2.6.0a Quantification was done with ENSEMBL gene model GRCz11.94 Genome build: Zebrafish: GRCz11 Ensembl 94 Supplementary files format and content: cell columns and gene rows wise UMI expression table | zebrafish neuromast hair cells | none | Enzymatic dissociation of larval trunks and isolation of green fluorescent protein expressing cells by FAC sorting. mcSCRB seq Bagnoli et al. 2018 | Standardized conditions at 28.5°C in the 0 3 x Danieau’s solution. | genotype:Tg[myo6b:actb1 EGFP] wild type|tissue:zebrafish neuromast hair cells|developmental day:6 dpf | GSM4271723 | GSM4271723: TGTAAA: hair cells wt 2C12; Danio rerio; RNA Seq | GSM4271723 | 1 | Enzymatic dissociation of larval trunks and isolation of green fluorescent protein expressing cells by FAC sorting. mcSCRB seq Bagnoli et al. 2018 | GEO Accession:GSM4271723 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 1500 | SRP241937 | GEO_TGTAAA_r1.fq.gz GEO_TGTAAA_r2.fq.gz | fastq fastq | 36393456.0 | 551416.0 | GSM4271723 r1 | 0:16 1:50 | A:10494740;C:6916737;G:8340339;T:10629953;N:11687 | 16 | 50 | 10494740 | 6916737 | 8340339 | 10629953 | 11687 | SRX7556524 | SRS5993910 | SRA1026350 | GEO | Research Unit Sensory Biology and Organogenesis, Helmholtz Zentrum München | 2 | 0.0 | 0.88673 | 0.0 | 0.07491 | 1.0 | 0.9867 | 0.42572 | 16 | 50 | T | B | sc-like readlen | illumina | hiseq_era | unknown | cdna_unspecified | unknown | sc_generic | single_cell_generic | generic-scrnaseq-only | Germany | 2020-01-14 | Multi-stage | Multi-stage | Lateral Line | Sensory System |