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Transcriptome profiling of wildtype and E2A knockout embryonic stem cells

ABSTRACT: Transcriptome profiling of wildtype and E2A knockout embryonic stem cells

PROVIDER: PRJNA646463 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12228211.fastq.gz	Fastqsanger.gz
	SRR12228212.fastq.gz	Fastqsanger.gz
	SRR12228213.fastq.gz	Fastqsanger.gz
	SRR12228214.fastq.gz	Fastqsanger.gz
	SRR12228215.fastq.gz	Fastqsanger.gz

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Transcriptome profiling of wildtype and E2A knockout embryonic stem cells

Project description:Background: E2A, encoded by the TCF3 gene locus, belongs to the E protein transcription factor family, which also includes HEB (TCF12) and E2-2 (TCF4), has been suggested to play an important role in leukemogenesis. However, far less is known about the function of E2A in cell-fate regulation of hESCs. Therefore, further understanding of E2A in self-renewal and differentiation of embryonic stem cells may be influenced. Methods: The mRNA profiles of wildtype and E2A knockout embryonic stem cells were generated by RNA-seq technique, in triplicate for each group, using IIIumina Hiseq 2500. Results: A comprehensive human transcriptome map of wild type and E2A knockout embryonic stem cells was provided. Function enrichment, network characteristics and disease association of the differentially expressed genes were analyzed. Conclusion: The dataset could serve as a baseline resource for investigating the potential effects and mechanism of E2A in embryonic stem cells.

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Transcriptome profiling of wildtype and E2A knockout embryonic stem cells and Neural progenitor cells

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Transcriptome profiling of wildtype and E2A knockout embryonic stem cells and Neural progenitor cells

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Genome-wide maps of E2A binding peaks in Embryonic stem cells and Neural progenitor cells

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Genome-wide maps of chromatin state in wild type and E2A knockout neural progenitor cells

Project description:Background: E2A, encoded by the TCF3 gene locus, belongs to the E protein transcription factor family, which also includes HEB (TCF12) and E2-2 (TCF4), has been suggested to play an important role in leukemogenesis. However, far less is known about the function of E2A in cell-fate regulation of hESCs. Therefore, further understanding of E2A in self-renewal and differentiation of embryonic stem cells may be influenced. In the study, we demonstrated E2A knockout exhibited blocked neural differentiation, which is tightly related to histone modification H3K4me3 and H3K27me3. Methods: The genomic DNA of H3K4me3 and H3K27me3 binding peaks in wild type and E2A knockout neural progenitor cells were generated by ChIP-seq technique using IIIumina Hiseq 2500. Results: A comprehensive human chromatin state of H3K4me3 and H3K27me3 in wild type and E2A knockout neural progenitor cells was provided. Function enrichment, network characteristics and disease association of the binding peaks were analyzed. Conclusion: The dataset could serve as a baseline resource for investigating the potential effects and mechanism of H3K4me3/H3K27me3/E2A complex in neural differentiation period of embryonic stem cells

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Project description:We set out to investigate whether overexpression of the bHLH transcription factor, E2A, is sufficient to drive neural differentiation in mouse embryonic stem cells under non-permissive culture conditions. Having identified that overexpression of specifically E2A homodimers, but not E2A monomers, was sufficient to drive neural differentiation, we sought to identify early downstream targets of E2A during the process of neural commitment using RNA-sequencing.

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