Multi-dimensional transcriptome analysis of an intact hematopoietic organ for HSPC expansion [Bulk RNA-seq]

To characterize the distinct features of HSPCs and relevant niche cells, we performed RNA-seq with sorted zebrafish HSPCs and niche cells, based on fluorescent protein labeling from distinct regions at six relatively discrete stages. We used double transgenic line Tg (kdrl:mCherry/CD41:GFP) and sorted HSCs, ECs and NCs from embryonic tails at 36 hpf, 52 hpf, 3 dpf and 4 dpf. And we sorted HSPCs and NCs from CD41: GFP kidney marrow at 3 mpf.