HemAtlas
Mapping developmental hematopoiesis across stages, species and models

Mouse Hematopoiesis

In mouse embryos, definitive hematopoietic stem and progenitor cells (HSPCs) are generated from hemogenic endothelial cells via endothelial-to-hematopoietic transition within the aorta–gonad–mesonephros (AGM) region at embryonic days (E) 10.5–11.5. Then, the nascent HSPCs arrive at fetal liver via circulation and undergo maturation, expansion, and differentiation after E12.5. Finally, the fetal HSPCs colonize into the bone marrow to maintain adult hematopoiesis after E15.5.

AGM (aorta-gonad-mesonephros) region is an evolutionarily-conserved hematopoietic site for definitive hematopoietic stem and progenitor cell (HSPC) generation. A specialized population of endothelial cells (ECs) in the ventral wall of dorsa aorta acquire hematopoietic fate to specify into hemogenic endothelial cells (HECs), and then produce HSPCs via endothelial-to-hematopoietic transition. AGM region also consists of perivascular cells, mesenchymal cells, and other niche cells.

Related Dataset(s)

Accession Omics Omics Detail Publication
HemBK00000001 Bulk RNA-seq Bulk RNA-seq OLB-PM-23122293
HemAT00000008 Epigenomics ATAC-seq OLB-PM-29342143
HemSC00000021 Single cell RNA-seq 10x Genomics OLB-PM-32392346
HemBK00000022 Bulk RNA-seq Bulk RNA-seq OLB-PM-32499402
HemCP00000023 Epigenomics ChIP-seq OLB-PM-32499402
HemSC00000045 Single cell RNA-seq 10x Genomics OLB-PM-35414020
HemAT00000062 Epigenomics ATAC-seq OLB-PM-38508181
HemSC00000063 Single cell RNA-seq 10x Genomics OLB-PM-38508181
HemSC01000088 Single cell RNA-seq 10x Genomics OLB-PM-35414020;38508181
HemSC01000091 Single cell RNA-seq 10x Genomics OLB-PM-35414020;38508181;34341490;31871321;30283141

Placenta is an extra-embryonic hematopoietic organ for HSPC development in eutherian mammals. The cell components of placenta include endothelial cells, stromal cells, trophoblast cells, and primitive endodermal cells. The HSPC activity is detected in the vasculature niche after E10 in mouse placenta or 6 weeks in human placenta.

Related Dataset(s)

Accession Omics Omics Detail Publication
HemBK00000001 Bulk RNA-seq Bulk RNA-seq OLB-PM-23122293
HemSC00000034 Single cell RNA-seq 10x Genomics OLB-PM-34197725
HemSC00000035 Single cell RNA-seq 10x Genomics OLB-PM-34197725
HemSC00000036 Single cell RNA-seq Smart seq2 OLB-PM-34197725

FL (fetal liver) is a transient hematopoietic organ for HSPC maturation, expansion, and differentiation in mammalian embryos. Nascent HSPCs reside in the fetal liver functional units, which are constituted by vascular endothelial cells, stromal cells, hepatoblasts, and macrophages and enriched with cytokines, chemokines, and growth factors.

Related Dataset(s)

Accession Omics Omics Detail Publication
HemBK00000001 Bulk RNA-seq Bulk RNA-seq OLB-PM-23122293
HemBK00000018 Bulk RNA-seq Bulk RNA-seq OLB-PM-31851943
HemBK00000022 Bulk RNA-seq Bulk RNA-seq OLB-PM-32499402
HemCP00000024 Epigenomics ChIP-seq OLB-PM-32499402
HemST00000037 Spatial transcriptome 10× Visium OLB-PM-34341490
HemST00000038 Spatial transcriptome 10× Visium OLB-PM-34341490
HemST00000039 Spatial transcriptome 10× Visium OLB-PM-34341490
HemST00000040 Spatial transcriptome 10× Visium OLB-PM-34341490
HemSC00000041 Single cell RNA-seq 10x Genomics OLB-PM-34341490
HemSC01000089 Single cell RNA-seq 10x Genomics OLB-PM-34341490
HemSC01000091 Single cell RNA-seq 10x Genomics OLB-PM-35414020;38508181;34341490;31871321;30283141

BM (bone marrow) is a hematopoietic site for adult HSPC maintenance in mammals. The cell components of bone marrow include endothelial cells, mesenchymal stromal cells, osteoblasts, osteoclasts, hematopoietic cells, and neurons. HSPCs locate at the perivascular niche, which is near trabecular bone and constituted by mesenchymal stromal cells and endothelial cells. In the bone marrow, HSPCs self-renew and differentiate into multilineage hematopoietic cells for the lifetime of the animal.

Related Dataset(s)

Accession Omics Omics Detail Publication
HemBK00000001 Bulk RNA-seq Bulk RNA-seq OLB-PM-23122293
HemSC00000011 Single cell RNA-seq 10x Genomics OLB-PM-29588278
HemBK00000018 Bulk RNA-seq Bulk RNA-seq OLB-PM-31851943
HemBK00000022 Bulk RNA-seq Bulk RNA-seq OLB-PM-32499402
HemCP00000025 Epigenomics ChIP-seq OLB-PM-32499402
HemSC00000049 Single cell RNA-seq 10x Genomics OLB-PM-31871321
HemSC00000068 Single cell RNA-seq 10x Genomics OLB-PM-30283141
HemSC00000069 Single cell RNA-seq Microwell-seq OLB-PM-29474909
HemBK00000072 Bulk RNA-seq Bulk RNA-seq OLB-PM-34706256
HemBK00000073 Bulk RNA-seq Bulk RNA seq OLB-PM-38657191
HemSC00000074 Single cell RNA-seq 10x Genomics OLB-PM-38657191
HemAT00000075 Epigenomics ATAC-seq OLB-PM-34706256
HemCP00000076 Epigenomics ChIP-seq OLB-PM-34706256
HemAT00000077 Epigenomics ATAC-seq OLB-PM-38657191
HemCP00000078 Epigenomics H3K4me3 CUT&Tag OLB-PM-38657191
HemSC01000090 Single cell RNA-seq 10x Genomics OLB-PM-31871321;30283141
HemSC01000091 Single cell RNA-seq 10x Genomics OLB-PM-35414020;38508181;34341490;31871321;30283141