Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scRNA-Seq)

ABSTRACT: Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scRNA-Seq)

PROVIDER: PRJEB38334 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scRNA-Seq)

Project description:This is plate-based (SmartSeq2-Seq) single-cell transcriptome data set from 15 human foetal livers and bone marrow (17-22 PCW). It includes 5,867 cells with an average of 3,074 genes per cell before QC and 4,504 cells with an average of 3,642 genes per cell after QC.

2020-05-25 | E-MTAB-9067 | biostudies-arrayexpress

Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scATAC-Seq)

Project description:Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scATAC-Seq)

| PRJEB38346 | ENA

Integrative single-cell RNA-Seq and ATAC-Seq analysis of human foetal liver and bone marrow haematopoiesis (scATAC-Seq)

Project description:This is plate-based chromatin accessibility data set from 3 human foetal livers and bone marrow (18-21 PCW). It includes 4,001 cells before QC and 3,611 cells after QC.

2020-05-26 | E-MTAB-9068 | biostudies-arrayexpress

Quantitative analysis of redox proteome reveals protein thiol switches regulating fundamental processes in developmental haematopoiesis

Project description:Foetal and adult hematopoietic stem and progenitor cells (HSPCs) are characterized by distinct redox homeostasis that may influence their differential cellular behaviour in normal and malignant haematopoiesis. In this work, we have applied a quantitative mass spectrometry-based redox proteomic approach to comprehensively describe reversible cysteine modifications in primary mouse foetal and adult HSPCs. We defined the redox state of 4455 cysteines in foetal and adult HSPCs and demonstrated a higher susceptibility to oxidation of protein thiols in foetal HSPCs. Our data identified ontogenically active redox switches in proteins with a pronounced role in metabolism and protein homeostasis. Additional redox proteomic analysis identified redox switches acting in mitochondrial respiration as well as protein homeostasis to be triggered during onset of MLL-ENL leukemogenesis in foetal HSPCs. Our data has demonstrated that redox signalling contributes to the regulation of fundamental processes of developmental haematopoiesis and has pinpointed potential targetable redox-sensitive proteins in in utero-initiated MLL-rearranged leukaemia.

2022-06-09 | PXD030043 | Pride

Single cell atlas of the mouse foetal liver

Project description:To dissect the early aspects of liver haematopoiesis as well as the development of other liver cell lineages we generated a new single cell RNA-seq (scRNA-seq) atlas of the mouse E12.5 liver

2021-08-18 | GSE180050 | GEO

GATA2 mitotic bookmarking is required for definitive haematopoiesis [ChIP-seq]

Project description:In mitosis, most transcription factors detach from chromatin, but some are retained and bookmark genomic sites. Mitotic bookmarking has been implicated in lineage inheritance, pluripotency and reprogramming. However, the biological significance of this mechanism in vivo remains unclear. Here, we address mitotic retention of the hemogenic factors GATA2, GFI1B and FOS during haematopoietic specification. We show that GATA2 remains bound to chromatin throughout mitosis, in contrast to GFI1B and FOS, via C-terminal zinc finger-mediated DNA binding. GATA2 bookmarks a subset of its interphase targets that are co-enriched for RUNX1 and other regulators of definitive haematopoiesis. Remarkably, homozygous mice harbouring the cyclin B1 mitosis degradation domain upstream Gata2 partially phenocopy knockout mice. Degradation of GATA2 at mitotic exit abolishes definitive haematopoiesis at aorta-gonad-mesonephros, placenta and foetal liver, but does not impair yolk sac haematopoiesis. Our findings implicate GATA2-mediated mitotic bookmarking as critical for definitive haematopoiesis and highlight a dependency on bookmarkers for lineage commitment.

2023-06-27 | GSE207551 | GEO

Foetal and adult HSPCs - Comprehensive Proteomic Characterization of Ontogenic Changes in Hematopoietic Stem and Progenitor Cells

Project description:Haematopoietic stem and progenitor cells (HSPCs) in the foetus and adult possess distinct molecular landscapes that regulate cell fate and change their susceptibility to initiation and progression of haematopoietic malignancies. The proteomic programs that govern these differences remain elusive. In this study, we have utilized a mass spectrometry-based quantitative proteomics approach to comprehensively describe and compare the proteome of foetal and adult HSPCs. We found that the proteome of foetal HSPCs is relatively simple, characterized by proteins involved in cell cycle and cell proliferation, while their adult counterparts are defined by a larger set of proteins that are involved in more diverse cellular processes. These adult characteristics include an arsenal of proteins important for viral and bacterial defence, as well as protection against ROS-induced protein oxidation. Our further analyses of Type I interferon signalling shows that foetal HSPCs are sensitive to Interferon a (IFNa), which impairs their production of mature lymphoid cells, whereas stimulation with IFNa to the pregnant mother enhances the production of early progenitors from foetal HSCs. Our results provide new and important insights into the molecular landscape of foetal and adult haematopoiesis that advance our understanding of normal and malignant haematopoiesis during foetal and adult life.

2017-12-12 | PXD006876 | Pride

Microarray data of foetal liver Lin- cKit+ cells obtained from Fh1-deficient and control 14.5 dpc mouse embryos

Project description:Haematopoiesis-specific Fh1 deletion causes lethal foetal liver haematopoietic defects. To understand the impact of Fh1 deletion on the transcriptome of foetal liver Lin- c-Kit+ cells we preformed microarray analysis. To conditionally delete Fh1 in the foetal liver we used the Vav-iCre recombinase and a Fh1 flox allele. Foetal livers were dissected and used to generate a single cell suspension. Lin- c-Kit+ cells were FACS sorted and lysed for total RNA preparation. We collected samples from 4 experimental animals (Fh1 fl/fl; Vav-iCre/+) and 3 control animals (Fh1 fl/fl).

2017-02-08 | E-MTAB-5425 | biostudies-arrayexpress

ATAC-Seq of foetal blood progenitors

Project description:ATAC-Seq of foetal blood progenitors

| PRJNA707417 | ENA

GATA2 mitotic bookmarking is required for definitive hematopoiesis [scRNA-seq]

2023-06-27 | GSE221691 | GEO