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TCF20 regulates neurogenesis in mice brain

ABSTRACT: Purpose:To gain a deeper insight into how TCF20 regulates neurogenesis in mice brain, RNA-sequencing (RNA-seq) was performed to analyze the genome-wide changes by TCF20 deletion at E13.5. Methods: Total RNA was extracted from E13.5 telencephalic tissue of TCF20 WT HET KO mice. Then total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately one thousand transcripts showed differential expression between the WT and TCF20 KO brain cortex, with a fold change ≥1.5 and p value <0.05. Gene ontology (GO) analysis showed that the down-regulated genes were enriched in the terms related to neurogenesis, neuronal specification, neural differentiation and secretion by cells. Up-regulated genes showed a significant enrichment of terms involved in up regulation of hypersensitivity and up regulation of inflammatory response. These results reflected the importance of TCF20 in cortical neurogenesis. Conclusions: We conclude that RNA-seq based transcriptome characterization would provide a framework for understanding how TCF20 gene contribute to brain cortical development.

ORGANISM(S): Mus musculus

PROVIDER: GSE135483 | GEO | 2019/08/08

REPOSITORIES: GEO

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Human serpina3 modulates cortex expansion and folding

Project description:Purpose:To gain a deeper insight into how Serpina3 regulates neurogenesis and further controling cortex folding in mice brain, RNA-sequencing (RNA-seq) was performed to analyze the genome-wide changes by TCF20 deletion at E15. Methods: Total RNA was extracted from E15 telencephalic tissue of WT and serpina3 cKI mice. Then total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately one thousand transcripts showed differential expression between the WT and Serpina3 knock-in brain cortex, with a fold change ≥1.5 and p value <0.05. Gene ontology (GO) analysis showed that the up-regulated genes were enriched in the terms related to neurogenesis, neuronal specification, neural differentiation and secretion by cells. Up-regulated genes showed a significant enrichment of terms involved in up regulation of hypersensitivity and down regulation of inflammatory response. These results reflected the importance of serpina3 in cortical neurogenesis and cortex folding. Conclusions: We conclude that RNA-seq based transcriptome characterization would provide a framework for understanding how serpina3 contribute to brain cortical development.

2021-01-23 | GSE165345 | GEO

Pd1 regulates proliferation and differentiation of neural progenitors during brain development

Project description:To gain a total insight into how Pd1 regulates embryonic neurogenesis, RNA-seq was performed to compare the different expressed genes ar E13. Approximately approximately one thousand transcripts showed differential expression between the Pd1fl/fl and Pd1CKO mice brain cortex, with a fold change ≥1.5 and p value <0.05. These results indicated the importance of Pd1 in cortical development. RNA-seq based transcriptome characterization would provide a global understanding how Pd1 gene contribute to brain cortical development.

2022-07-11 | GSE207712 | GEO

TCF20 regulates neurogenesis in mice brain

Project description:TCF20 regulates neurogenesis in mice brain

| PRJNA559078 | ENA

Microglia homeostasis mediated by epigenetic ARID1A to regulate neural progenitor cells response in brain development [RNA-seq]

Project description:Purpose: Purpose:To gain a deeper insight into how microglia homeostasis regulates regulates neurogenesis through epigenetic ARID1A, RNA-sequencing (RNA-seq) was performed to analyze the genome-wide changes by ARID1A deletion in microglia at E14. Methods: The microglia was extracted from E14 of Arid1acKO and Arid1afl/fl mice by fluorescence activated cell sorting. Total RNA was immediately extracted by using the RNAeasy Mini kit (QIAGEN) following the manufacturer’s instructions. Then total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately two thousands transcripts showed differential expression between the Arid1afl/fl and Arid1acKO brain cortex, with a fold change ≥2.0 and p value <0.05. Gene ontology (GO) analysis showed that the down-regulated genes were enriched in the terms related to neurogenesis, regulation of cell communication and chemokine-mediated signaling pathway. Up-regulated genes showed a significant enrichment of terms involved in negative regulation of forebrain neuron fate commitment and cell surface receptor signaling pathway involved in cell-cell signaling. These results reflected the importance of ARID1A regulates neurogenesis through remodeling microglia states. Conclusions: We conclude that RNA-seq based transcriptome characterization would provide a framework for understanding how ARID1A regulates neurogenesis through remodeling microglia states brain cortical development.

2021-12-16 | GSE190926 | GEO

PRDM16 orchestrates neuron-vascular communication for angiogenesis during brain development

Project description:Purpose:To gain a deeper insight into how PRDM16 regulates neuron-vascular communication for angiogenesis, RNA-sequencing (RNA-seq) was performed to analyze the genome-wide changes by PRDM16 deletion at E15. Methods: Total RNA was extracted from E15 telencephalic tissue of Prdm16cKO and Prdm16fl/fl mice. Then total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately one thousand transcripts showed differential expression between the Prdm16fl/fl and Prdm16cKO brain cortex, with a fold change ≥1.5 and p value <0.05. Gene ontology (GO) analysis showed that the down-regulated genes were enriched in the terms related to neurogenesis, blood vessel development and secretion by cells. Up-regulated genes showed a significant enrichment of terms involved in negative regulation of cell communication and negative regulation of angiogenesis. These results reflected the importance of PRDM16 in cortical development. Conclusions: We conclude that RNA-seq based transcriptome characterization would provide a framework for understanding how Prdm16 gene contribute to brain cortical development.

2019-05-08 | GSE130802 | GEO

MacroH2A deletion causes neuronal developmental deficits and autism-like behavior in mice

Project description:Purpose:To further understand how MacroH2A regulates the proliferation of neural progenitor cells, RNA-seq was used to analyze genome-wide changes in the cerebral cortex and littermate wild type of E13.5 MacroH2A knockout mice Methods: Total RNA was extracted from wild-type E13.5 brain tissue and knock-out E13.5 brain tissue. Specifically, the Agilent 2100 Bioanalyzer was used for quality control and quantification. Total RNA was then converted to cDNA and combined with the library. Illumina HiSeq 2500 platform in Annoroad Genomics uses RNA sequencing analysis Results: Approximately one thousand transcripts showed differential expression between the wild-type(WT) and knock-out mice brain cortex, with a fold change ≥1.5 and p value <0.05.Geneontology analysis of the up-regulated genes showed obvious enrichment of biological processes related to development and proliferation.The down-regulated genes exhibited enrichment of biological processes related to the negative regulation of cell proliferation and developmental process. These results reflected human MacroH2A plays a role in brain neuron development.

2020-03-17 | GSE147064 | GEO

Wt1 regulates proliferation and differentiation of neural progenitors during brain development

Project description:Purpose: To gain a total insight into how Wt1 regulates embryonic neurogenesis, RNA-seq was performed to compare the different expressed genes ar E13 Methods: Total RNA were extracted from E13 telencephalic tissue of Wt1fl/fl and Wt1CKO mice. Then the total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately one thousand transcripts showed differential expression between the Wt1fl/fl and Wt1CKO mice brain cortex, with a fold change ≥1.5 and p value <0.05. These results indicated the importance of Wt1 in cortical development. Conclusions：RNA-seq based transcriptome characterization would provide a global understanding how Wt1 gene contribute to brain cortical development.

2019-05-24 | GSE131694 | GEO

H2AZ Orchestrates Neural Progenitor Cell Proliferation and Differentiation via Setd2-mediated H3K36me3 Modification [RNA-seq]

Project description:Purpose:To gain a deeper insight into how H2AZ regulates embryonic neurogenesis, RNA-sequencing (RNA-seq) was performed to analyze the genome-wide changes by H2AZ deletion at E12. Methods: Total RNA was extracted from E12 telencephalic tissue of H2AZcKO and H2AZfl/fl mice. Then total RNA was quality controlled and quantified using an Agilent 2100 Bioanalyzer. After converting to cDNA and building library, high-throughput sequencing was performed using the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately approximately one thousand transcripts showed differential expression between the H2AZfl/fl and H2AZcKO brain, with a fold change ≥1.5 and p value <0.05. Gene ontology (GO) analysis showed that the down-regulated genes were enriched in the terms related to transcription and cortex development, such as regulation of transcription, cerebellar cortex formation, forebrain development, and cerebellum development. Up-regulated genes showed a significant enrichment of terms involved in negative regulation of cell differentiation, neuron migration, and cognition. These results reflected the importance of H2AZ in cortical development. Conclusions: We conclude that RNA-seq based transcriptome characterization would provide a framework for understanding how a disruption in the H2AZ gene may contribute to cortical development.

2017-05-29 | GSE99347 | GEO

Proteomic Analysis of Proteins Downstream of Autism-Associated Gene DIXDC1

Project description:Dix domain containing 1 (Dixdc1) is an important regulator of neuronal development including cortical neurogenesis, neuronal migration and synaptic connectivity, and sequence variants in the gene have been linked to autism spectrum disorders (ASD). Previous studies indicate that Dixdc1 controls neurogenesis through Wnt signaling, while its regulation of dendrite and synapse development requires Wnt and cytoskeletal signaling. However, the prediction of these signaling pathways is primarily based on the structure of Dixdc1. Given the role of Dixdc1 in neural development and brain disorders, we hypothesized that Dixdc1 may regulate additional signaling pathways in the brain. We performed proteomic analyses of Dixdc1 KO mouse cortices to reveal such alterations.

2020-12-21 | PXD016995 | Pride

CCDC25 Regulates Neurogenesis During the Brain Devolopment

Project description:Purpose:T To investigate the role of CCDC25 in the development of cortical nerves Methods: mRNA from E13 neural steneural stem cell were obtained. Culture in vitro for 4 days, Agilent 2100 Bioanalyze was used to quality controlled and quantified. then, mRNA was converted to cDNA and bound the library. RNA-sequencing analysis was used by the Illumina HiSeq 2500 platform in Annoroad Genomics. Results: Approximately one thousand transcripts showed differential expression between the control and knock down brain cortex, with a fold change ≥2 and p value <0.05.Geneontology analysis of the up-regulated genes showed obvious enrichment of biological processes related to development process and regulation of cell communication.The down-regulated genes exhibited enrichment of biological processes related to cell movement. These results reflected ccdc25 plays a vital role in cortex development. Conclusions: Endothelial Arid1a RNA-seq would provide a overall understanding how endothelial Arid1a regulates the Balance among angiogenesis, neurogenesis, and astrogenesis in the developing Brain

2023-01-27 | GSE223764 | GEO

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