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Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [iCLIP-seq]

ABSTRACT: Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [iCLIP-seq]

PROVIDER: PRJNA484188 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7638380.fastq.gz	Fastqsanger.gz
	SRR7638381.fastq.gz	Fastqsanger.gz
	SRR7638382.fastq.gz	Fastqsanger.gz
	SRR7638377.fastq.gz	Fastqsanger.gz
	SRR7638378.fastq.gz	Fastqsanger.gz

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Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [iCLIP-seq]

Project description:We show here that SDOS interacts with another important cancer-linked protein, the chaperone TRAP1, associates with actively translating polyribosomes and represses translation. Moreover, we demonstrate that SDOS binds directly RNA in living cells. Combining individual gene expression profiling, nucleotide cross-linking and immunoprecipitation (iCLIP), and ribosome profiling, we discover several crucial pathways regulated post-transcriptionally by SDOS.

2018-09-26 | GSE118049 | GEO

Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation

Project description:Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation

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Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Ribo-seq]

Project description:Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Ribo-seq]

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Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Illumina array]

Project description:Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Illumina array]

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Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Illumina array]

2018-09-26 | GSE118035 | GEO

Protein Syndesmos is a novel RNA binding protein that regulates primary cilia formation [Ribo-seq]

Project description:We show here that NUDT16L1/TIRR/Syndesmos (SDOS) interacts with another important cancer-linked protein, the chaperone TRAP1, associates with actively translating polyribosomes and represses translation. Moreover, we demonstrate that SDOS binds directly RNA in living cells. Combining individual gene expression profiling, nucleotide cross-linking and immunoprecipitation (iCLIP), and ribosome profiling, we discover several crucial pathways regulated post-transcriptionally by SDOS.

2018-09-26 | GSE117998 | GEO

SP5 and SP8 transcription factors drive primary cilia formation in early embryo

Project description:Primary cilia play critical roles in sensory and signaling functions, and their dysregulation is associated with developmental abnormalities and multi-organ diseases. Despite their importance, the transcriptional regulation of primary cilia genes is unclear. Here, we employed transcriptome and mouse genetic tools to identify a master regulator of primary cilia genes. By comparing ciliated and non-ciliated cells in the early embryo using scRNA-seq and ChIP-seq, we uncovered that a wide spectrum of primary cilia genes are upregulated in ciliated cells and that SP5/8 within the SP/KLF family of transcription factors bind a core set of cilia genes. Loss- and gain-of-function assays in mouse embryos and embryonic stem cells demonstrate Sp5/8, are required for the initial formation of primary cilia in all embryonic cell types. Moreover, Sp5/8 loss compromises the formation of the more specialized motile cilia present in the embryonic node. Finally, misexpression of SP8 is sufficient to induce primary cilia formation in two unciliated cell types. Our findings demonstrate that SP5/8 are essential for cilia initiation in the embryo and sufficient to drive cilia formation in unciliated cells.

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SP5 and SP8 transcription factors drive primary cilia formation in early embryo [scRNA-seq]

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SP5 and SP8 transcription factors drive primary cilia formation in the early embryo [ChIP-seq]

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SP5 and SP8 transcription factors drive primary cilia formation in the early embryo [ATAC-seq]

Project description:Primary cilia play critical roles in sensory and signaling functions, and their dysregulation is associated with developmental abnormalities and multi-organ diseases1,2. Despite their importance, the transcriptional regulation of primary cilia genes is unclear. Here, we employed transcriptome and mouse genetic tools to identify a master regulator of primary cilia genes. By comparing ciliated and non-ciliated cells in the early embryo using scRNA-seq and ChIP-seq, we uncovered that a wide spectrum of primary cilia genes are upregulated in ciliated cells and that SP5/8 within the SP/KLF family of transcription factors bind a core set of cilia genes. Loss- and gain-of-function assays in mouse embryos and embryonic stem cells demonstrate Sp5/8, are required for the initial formation of primary cilia in all embryonic cell types. Moreover, Sp5/8 loss compromises the formation of the more specialized motile cilia present in the embryonic node. Finally, misexpression of SP8 is sufficient to induce primary cilia formation in two unciliated cell types. Our findings demonstrate that SP5/8 are essential for cilia initiation in the embryo and sufficient to drive cilia formation in unciliated cells.

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