run_metadata: 30775
This data as json
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| 30775 | SRR28357669 | SRX23962905 | SRS20762620 | SRP495490 | PRJNA1088483 | Mechanistic Studies of the Regulation of Cardiomyocytes Spatial Distributions by Heterogeneous Erbb2 Expression [scRNA Seq] | GSE261718 | Other | Purpose: To explore the endogenous expression pattern of Erbb2. Methods: Approximately 1000 hearts dissected from 72 hpf Tgmyl7:mCherry embryos were digested in 0.25% trypsin EDTA solution for single cell RNA sequencing. Results: We found that ventricular Erbb2 expression was highly enriched in subcluster 0 and 2 but weakly expressed in subcluster 3 10 and 12. Conclusions: Erbb2 exhibits heterogeneous expression during trabeculation. Overall design: 72 hpf Tgmyl7:mCherry zebrafish hearts were collected for single cell RNA sequencing. | pubmed:40053597 | S72hpf trunks | GSM8149579 | source name:zebrafish hearts|tissue:zebrafish hearts|cell line:Tgmyl7:mCherry heart cells|cell type:zebrafish heart cells|geo loc name:missing|collection date:missing | S72hpf trunks | Illumina sequencing reads were aligned to the zebrafish mRNA reference genome GRCz11 using the 10x Genomics CellRanger pipeline version 3.0.2 with default parameters. Assembly: GRCz11 Supplementary files format and content: zip compressed files include filtered gene bc matrices post running CellRanger pipeline | zebrafish hearts | A total of 1000 hearts dissected from Tgmyl7:mCherry embryos at 72 hpf were digested in 0.25% trypsin EDTA solution at 37 °C for 30 min. Single cell RNA seq library construction was performed using a droplet based library prep platform Chromium 10x Genomics with a Chromium Single Cell Reagent Kit according to the manufacturer’s instructions. Single cell RNA Seq 10x | Dechorionated zebrafish embryos were maintained in 0.3x Danieau’s Buffer at 28 °C with a photoperiod of 14/10 h light/dark. | tissue:zebrafish hearts|cell line:Tgmyl7:mCherry heart cells|cell type:zebrafish heart cells | GSM8149579 | GSM8149579: S72hpf trunks; Danio rerio; RNA Seq | GSM8149579 r1 | GSM8149579 | 1 | A total of 1000 hearts dissected from Tgmyl7:mCherry embryos at 72 hpf were digested in 0.25% trypsin EDTA solution at 37 °C for 30 min. Single cell RNA seq library construction was performed using a droplet based library prep platform Chromium 10x Genomics with a Chromium Single Cell Reagent Kit according to the manufacturer's instructions. Single cell RNA Seq 10x | RNA-Seq | TRANSCRIPTOMIC SINGLE CELL | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP495490 | zebrafish_heart_72h_R1_fastq.gz zebrafish_heart_72h_R2_fastq.gz | fastq fastq | 155978889600.0 | 519929632.0 | GSM8149579 r1 | 0:150 1:150 | A:63302225780;C:28042347630;G:26792086978;T:37838422350;N:3806862 | 150 | 150 | 63302225780 | 28042347630 | 26792086978 | 37838422350 | 3806862 | SRX23962905 | SRS20762620 | SRA1825277 | Institute of genetics, Zhejiang University | Institute of genetics, Zhejiang University | 2 | 0.0 | 0.92044 | 0.0 | 0.11022 | 1.0 | 0.80996 | 0.54499 | 150 | 150 | T | B | mate1 technical by mapping diff | illumina | novaseq_era | unknown | cdna_unspecified | unknown | sc | single_cell_droplet | 10x | China | 2024-03-15 | Larval | Larval | Heart | Cardiovascular System |