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Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (NG Capture-C)

ABSTRACT: Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (NG Capture-C)

PROVIDER: PRJNA517961 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8509460_1.fastq.gz	Fastqsanger.gz
	SRR8509460_2.fastq.gz	Fastqsanger.gz
	SRR8509470_1.fastq.gz	Fastqsanger.gz
	SRR8509470_2.fastq.gz	Fastqsanger.gz
	SRR8509461_1.fastq.gz	Fastqsanger.gz

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Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (NG Capture-C)

Project description:Genome Wides Association Studies (GWAS) have identified tens of thousands of associations between human genetic variation and common disease. Despite the abundance of GWAS associations, functional identification and characterization of causative variants and effector genes remains a challenging prospect. Human erythropoiesis provides a highly tractable model system for the development of tools for GWAS analysis. We have developed a three-phase protocol for differentiation of peripheral CD34+ Haematopoietic Stem Cells (HSC) into mature enucleating erythrocytes. This protocol has been characterized for it’s the changes observed morphologically, immunologically (by FACS) and epigenetically (by ATAC-seq, ChIP-seq, and RNA-seq). We have used this protocol to study the effects of common GWAS variants affecting red blood cell traits, and more severe mutations causing Type-1 Congenital Dyserythropoietic Anemia (CDA-I).

2023-01-21 | GSE125925 | GEO

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC

Project description:Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC

| PRJNA517958 | ENA

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (RNA-seq)

2022-06-22 | GSE125924 | GEO

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ATAC-seq)

2021-05-28 | GSE125922 | GEO

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ChIP-seq)

2023-01-21 | GSE125923 | GEO

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ATAC-seq)

Project description:Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ATAC-seq)

| PRJNA517962 | ENA

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (RNA-seq)

Project description:Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (RNA-seq)

| PRJNA517960 | ENA

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ChIP-seq)

Project description:Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC (ChIP-seq)

| PRJNA517963 | ENA

Transcription profiling of mouse HSC(CD34-KSL cells) and progenitors (CD34+KSL cells)

Project description:Gene expression profile between HSC(CD34-KSL cells) and Progenitors(CD34+KSL cells) were compared.

2010-06-18 | E-MEXP-2223 | biostudies-arrayexpress

Characterization of Transcription Factor Networks Involved in Umbilical Cord Blood CD34+ Stem Cells-Derived Erythropoiesis

Project description:The characteristics of global gene expression patterns during umbilical cord blood (UCB)-CD34+ stem cell-derived erythropoiesis are not clearly elucidated. In this study, UCB-stem cells were grown in liquid culture as a model for this process. We observed a high proliferative capacity of UCB-stem cells producing over 10 billion viable cells in culture. Normal erythroid maturation was confirmed by increased expression of CD71 and CD235a biomarkers. Furthermore, the gamma- to beta-globin gene switch was observed around day 45 indicating extended gamma-globin gene expression in fetal erythroid cells. To study global gene expression patterns, microarray analysis was performed on days 21, 42, 49 and 56. Forty-five transcription factors were silenced during the culture period (Profile-1) including CUX1 and HES5 among others. Conversely, 30 transcription factors were activated by day 56 (Profile-2) such as KLF1, GATA1, and MAFB. Both datasets were analyzed further using the MIMI Cytoscape platform which defined transcription factor networks around KLF4 and GATA2 from Profile-1 genes and KLF1 and GATA1 for Profile-2 genes. The characteristics of UCB-CD34+ stem cells including high proliferative capacity and prolonged gamma-globin expression combined with novel transcription factor networks suggest novel mechanisms of fetal UCB-stem cell-derived erythropoiesis. Cd34 cell from umbilical cord blood were grown in three independent cultures using the one-phase protocol. Cells were cultured in aMEM containing 30% fetal bovine serum, 1% deionized BSA with penicillin (100 U/mL) and streptomycin (0.1 mg/mL) at 37°C and 5% CO2. The following growth factors were added on day 0: stem cell factor (50 ng/mL), interleukin-3 (10 ng/mL) and erythropoietin (4 U/mL). Approximately 1.5 million cells were harvested from each culture (triplicate samples) on day 21, 42, 49 and 56 for microarray analysis on the whole-genome Illumina HumanWG-12 V4 Expression BeadChip.

2013-08-02 | E-GEOD-49438 | biostudies-arrayexpress

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