Illumina HiSeq 2500 paired end sequencing; GSM2838045: oep_p0_S10; Danio rerio; RNA-Seq

oep_p0_S10

SMART-seq2 was performed on single cells isolated from visually staged zebrafish embryos. Overall design: Samples were all sequenced in one batch. Some were generated with a 5'' UMI-tagged method, and others are full-length SMART-seq2.

Single-cell RNAseq (SMART-seq2) of wild-type (TLAB) and MZoep (tz57) zebrafish embryos at 50% epiboly stage

Submitted on 28-APR-2018

50% epiboly embryos were manually deyolked and mechanically dissociated. Single cells were manually picked under a dissecting microscope and flash frozen on dry ice in 4uL lysis buffer. Libraries were prepared using a SMART-seq2 protocol (Picelli et al., 2014) with custom TSO oligos and indexing adapters (Satija et al., 2015). Reaction volumn for tagmentation steps were reduced to 15% of the volumn indicated in the protocol. 88 MZoep libraries were built with customized indices for 5'-enriched transcripts with unique molecular identifiers (UMIs). The remaining libraries were built without UMIs, and contained fragments along full-length transcripts.

Single-cell RNAseq (SMART-seq2) of wild-type (TLAB) and MZoep (tz57) zebrafish embryos at 50% epiboly stage

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Samples