{"database": "metadata", "table": "run_metadata", "rows": [[49896, "SRR8883783", "SRX5669585", "SRS4612454", "SRP166782", "PRJNA498309", "Functional heterogeneity within the developing zebrafish epicardium", "GSE121750", "Transcriptome Analysis", "The epicardium is essential during cardiac development  homeostasis and repair and yet fundamental insights into its underlying cell biology  notably epicardium formation  lineage heterogeneity and functional cross talk with other cell types in the heart  is currently lacking. In this study  we investigated epicardial heterogeneity and the functional diversity of discrete epicardial subpopulations in the developing zebrafish heart. Single cell RNA sequencing uncovered three epicardial subpopulations with specific genetic programmes and distinctive spatial distribution within the developing heart. Perturbation of unique gene signatures uncovered distinct functions associated with each subpopulation and established novel epicardial roles in cell adhesion  migration  and chemotaxis as a mechanism for recruitment of leukocytes into the heart. This work elucidates the mutual spatiotemporal relationships between different epicardial subpopulations and assigns unique function to each during cardiac development. Understanding which mechanisms cells employ to establish a functional epicardium and to communicate with other cardiovascular cell types during development will bring us closer to repairing cellular relationships that are disrupted during cardiovascular disease. Overall design: Single cell RNA sequencing of FACS purified larval cardiac zebrafish cells", null, "pubmed:32084358", null, "008 1 A10 KOsema3fb tbx18 1 reseq", "GSM3719011", null, "tissue:Heart|transgenic reporter:tbx18:myr Citrine|cell fluorescence:myr Citrine|age:5 dpf", "008 1 A10 KOsema3fb tbx18 1 reseq", "Alignment to GRCz10 91 with STAR v2.4.2a outSJfilterCountUniqueMin  1  1  1  1   outSJfilterCountTotalMin 30 10 10 10   outSAMstrandField intronMotif   outFilterIntronMotifs RemoveNoncanonical BAM files with samtools v1.3 view  bS Sorting of BAM files with samtools v1.3 sort Removal of PCR duplicates from BAM files with samtools v1.3 rmdup Read counting with featureCounts v1.4.5 p1  p  B  a  t exon  g gene id Genome build: GRCz10 91 Supplementary files format and content: Tab delimited text files of raw counts on gene level Supplementary files format and content: featureCounts KOsema3fb.txt: Tab delimited text file raw counts before QC  Column 1 = Ensembl gene ID  column 2 = gene length in basepairs  column 3 = gene name  columns 4 151 = counts for each cell  colnames = gene id  gene length  gene name  cell names 1 151 Supplementary files format and content: featureCounts KOsema3fb reseq.txt: Tab delimited text file of resequenced samples raw counts before QC", "Heart", null, "Larvae were physically disrupted  hearts collected and dissociated using Trypsin/collagenase. Single cells were purified via FACS. Smartseq2  Illumina Nextera XT", null, "transgenic reporter:tbx18:myr Citrine|cell fluorescence:myr Citrine|age:5 dpf", "GSM3719011", "GSM3719011: 008 1 A10 KOsema3fb tbx18 1 reseq; Danio rerio; RNA Seq", "GSM3719011", null, "1", "Larvae were physically disrupted  hearts collected and dissociated using Trypsin/collagenase. Single cells were purified via FACS. 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