Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 1324
Release date: Aug 11 2018
Last update date: Nov 23 2018
Access: Public
Taxon: Homo sapiens, Danio rerio
Dataset link Single-cell RNA sequencing of zebrafish beta-cells from various stages

Experimental Protocol


We used fluorescence-activated cell sorting (FACS) coupled with next generation RNA-Sequencing to profile beta-cells from various stages. Cells were sorted into a 96-well plates and single-cell library prepared using SMART-Seq v4 Ultra Low Input RNA Kit . Sequencing was performed on llumina Nextseq500 aiming at an average sequencing depth of 0.5 million reads per cell. Reads were splice-aligned to the zebrafish genome, GRCz10, using HISAT2. htseq-count was used to assign reads to exons thus eventually getting counts per gene.

Repositories


GEO

GSE109881

ENA

SRP131808

BioProject

PRJNA432257

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Contact


Sumeet Singh