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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mouse embryonic body

ABSTRACT: Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mouse embryonic body

PROVIDER: PRJNA894709 | ENA |

REPOSITORIES: ENA

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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mouse embryonic body

Project description:To evaluate the differential potential affected by SMARCE1 -MD/MD(R42A) , we performed RNA-sequencing (RNA-seq) of Smarce1-MD and control Smarce1-MD (R42A) embrynoic body.

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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs with BMP4 rescue.

Project description:To evaluate the effects of mitotic degradation of SMARCE1 upon gene expression, we performed RNA-sequencing (RNA-seq) of cultures of four independent subclones each of Smarce1-MD and control Smarce1-MD (R42A) mESCs. We found that transcription of the core pluripotency regulatory network was not disrupted. In contrast, GO analysis showed that neural differentiation-associated terms were enriched among genes upregulated in Smarce1-MD mESCs. To better understand the difference in neural fates in the neural induction experiments, we performed differential gene expression analysis and gene set enrichment analysis (GSEA) studies. Mitotic degradation of SMARCE1 resulted in higher expression of GABA receptors and hyper-activation of synaptic signaling on neural induction, indicating the aberrant neural cell fate commitment compared to SMARCE1-MD (R42A) cultures. And then we add back BMP4 to partically rescue the phenotype and very small amount of BMP4 will rescue the phenotype.

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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs, and their derived cell cultures at day 06 after neural induction.

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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs with BMP4 rescue.

Project description:Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs with BMP4 rescue.

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The study of SMARCE1 and SOX2 deposition in DMSO or BRM014 treated Smarce1-MD(R42A) and Smarce1-MD cells at 90 min after releasing from mitosis.

Project description:We executed CUT&RUN-seq for SMARCE1 and SOX2 in BRG1 inhibitor BRM014 treated ,in MD or MD mutatnt mouse embryonic stem cells at 90 min from mitotic release.

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Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs, and their derived cell cultures at day 06 after neural induction.

Project description:Transcription profiling of Smarce1- MD (R42A) and Smarce1- MD mESCs, and their derived cell cultures at day 06 after neural induction.

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The study of SMARCE1 and SOX2 deposition in DMSO or BRM014 treated Smarce1-MD(R42A) and Smarce1-MD cells at 90 min after releasing from mitosis.

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The study of nascent RNA transcripts in asynchronous cells and cells released from mitosis at the indicated timepoints between Smarce1- MD (R42A) and Smarce1- MD mESCs.

Project description:The study of nascent RNA transcripts in asynchronous cells and cells released from mitosis at the indicated timepoints between Smarce1- MD (R42A) and Smarce1- MD mESCs.

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Project description:SMARCE1 binding on mitotic chromatin is required for the timely reinitiation of expression of SMARCE1-bookmarked genes and maintaining identity memory in cell division.

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The study of SWI/SNF subunits and other transcription factors deposition in asynchronous and mitotic mESCs and cells released from mitosis II

Project description:We conduct ATAC-seq in SMARCE1 MD/MD(R42A) after mitotic release 90 min in either DMSO treated or BRG1 inhibitor BRM014 treated conditions

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