Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Epigenetic profile of early T cell development

ABSTRACT: Using a stromal cell free system, we described the gene expression and two genome wide epigenetic profiles of a unique population of undifferentiated bone marrow cells selectively driven towards the T cell differentiation pathway Undifferentiated bone marrow cells, transduced with NUP98-HOXB4 fusion protein, in vitro expanded with IL6 and SCF represents the hematopoietic stem cells (HSC); when grown in the presence of DLL4 (Notch1 ligand) and IL7, they are directed towards the T cell lineage (ProT); these in vitro generated ProT cells injected in a Rag2-/- mouse give rise to mature double positive T cells (DP). 2 replica for each population

ORGANISM(S): Mus musculus

SUBMITTER: maria alessandra vigano

PROVIDER: E-GEOD-47995 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Profile of early T cell development

Project description:Using a stromal cell free system, we described the gene expression and two genome wide epigenetic profiles of a unique population of undifferentiated bone marrow cells selectively driven towards the T cell differentiation pathway Undifferentiated bone marrow cells, transduced with NUP98-HOXB4 fusion protein, in vitro expanded with IL6 and SCF represents the hematopoietic stem cells (HSC); when grown in the presence of DLL4 (Notch1 ligand) and IL7, they are directed towards the T cell lineage (ProT); these in vitro generated ProT cells injected in a Rag2-/- mouse give rise to mature double positive T cells (DP). 2 replica for each population

2013-12-25 | E-GEOD-47940 | biostudies-arrayexpress

An epigenetic profile of early T-cell development from multipotent progenitors to committed T-cell descendants.

2013-12-25 | GSE47995 | GEO

An epigenetic profile of early T-cell development from multipotent progenitors to committed T-cell descendants.

2013-12-25 | GSE47940 | GEO

Gene expression in BM niche populations

Project description:We report transcriptome profiling of bone marrow niche subsets at the population level. Additionally, we report trascriptional changes in lymphoid -primed multipotential progenitors in the absence of vascular DLL4.

2019-04-11 | GSE108885 | GEO

A genome-wide RNAi screen identifies genes and networks governing hematopoietic stem cell development [Illumina_Expression]

Project description:We report a genome-wide microarray analysis of gene expression in mouse embryonic stem cell (ESC) and in vitro ES-derived cells. iHoxB4 ESCs were transduced with a library of shRNAs targeting >15,000 genes, and were differentiated towards hematopoietic stem and progenitor cells by forcing HoxB4 expression in the cells. Five cell populations were isolated on differentiation days 6 and 20. Differentiated mesodermal/endothelium cell population D6F (Ssea1-Flkl+Cxcr4-), endodermal cell population D6C (Ssea1-Flkl-Cxcr4+), D20LS (Lin-Sca1+c-Kit–), D20LK (Lin–Sca1–c-Kit+), and D20LSK (Lin–Sca1+c-Kit+) cells were purified by FACS. Transduced iHoxB4 cells were analyzed as undifferentiated control cells. The experiment was performed three times independently.

2016-12-31 | GSE86853 | GEO

Gene expression profiling of HOXB4-transduced murine hematopoietic stem cells

Project description:Overexpression of HOXB4 in hematopoietic stem cells (HSCs) leads to increased self-renewal without causing hematopoietic malignancies in transplanted mice. The molecular basis of HOXB4-mediated benign HSC expansion in vivo is not well understood. To gain further insight into the molecular events underlying HOXB4-mediated HSC expansion, we analyzed gene expression changes at multiple time points in Lin-Sca1+c-kit+ (LSK) cells from mice transplanted with bone marrow (BM) cells transduced with a MSCV-HOXB4-ires-YFP vector. A distinct HOXB4 transcriptional program was reproducibly induced and stabilized by 12 weeks after transplant. Dynamic expression changes were observed in genes critical for HSC self-renewal as well as genes involved in myeloid and B cell differentiation. Prdm16, a transcription factor associated with human acute myeloid leukemia (AML), was markedly repressed by HOXB4 but upregulated by HOXA9 and HOXA10, suggesting that Prdm16 downregulation was involved in preventing leukemia in HOXB4 transplanted mice. Functional evidence to support this mechanism was obtained by enforcing co-expression of sPrdm16 and HOXB4, which led to enhanced self-renewal, myeloid expansion, and leukemia. Altogether, these studies define the transcriptional pathways involved in HOXB4 HSC expansion in vivo and identify repression of Prdm16 transcription as a mechanism by which expanding HSCs avoid leukemic transformation. 5-FU treated bone marrow cells from female C57Bl/6L mice were transduced with concentrated supernatant from GPE+86-derived producer cells containing MSCV-HOXB4-ires-YFP or MSCV-ires-GFP retroviral vectors. Transduced cells were transplanted into lethally irradiated C57Bl/6L mice. HOXB4-YFP or GFP expressing LSK cells were sorted from transplanted mice at 6, 12 and 24 weeks post transplantation, of which RNA was extracted for microarray.

2014-10-01 | E-GEOD-59804 | biostudies-arrayexpress

CD54+BP1+YFP- bone marrow stromal cells from IL7 reporter mice

Project description:Hematopoiesis in adult mammals involves cognate interactions between developing hematopoietic cells and bone marrow stromal cell niches. SCF and CXCL12 play key roles in the maintenance of HSC, while early B cell differentiation requires CXCL12 and IL7. In this study, we characterized mouse BM stromal cells expressing IL7 by performing a transcriptomic analysis. We found that SCF, CXCL12 and IL7 were co-expressed by a unique peri-sinusoidal stromal cell subset.

2019-03-01 | GSE90584 | GEO

CD54+CD31-BP1+ and CD54-CD31+ bone marrow cells from wild type mice

2019-03-01 | GSE90586 | GEO

Mus musculus

Project description:CD54+BP1+YFP- bone marrow stromal cells from IL7 reporter mice

| PRJNA355212 | ENA

Peri-sinusoidal stromal cells form a unique multispecific niche for hematopoietic stem cells and early B cells

Project description:In the bone marrow, CXCL12 and IL7 are essential for B cell differentiation whereas hematopoietic stem cells (HSC) maintenance requires SCF and CXCL12. Previous studies, including ours, indicate that peri-sinusoidal stromal (PSS) cells are heterogeneous and that part of them express and are the main source of IL7. Our single cell qPCR and transcriptomic analysis demonstrate that SCF, CXCL12 and IL7 are co-expressed by a unique peri-sinusoidal stromal cell subset.

2019-03-01 | GSE121568 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data