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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

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

Project description:UV cross-linking and immunoprecipitation (CLIP) and individual-nucleotide resolution CLIP (iCLIP) are the most frequently used methods to study protein-RNA interactions in the intact cells and tissues, but their relative advantages or inherent biases have not been evaluated. To benchmark CLIP and iCLIP method, we performed iCLIP with Nova protein, which is the most extensively studied protein by CLIP. Further, we assessed UV-C-induced cross-linking preferences, by exploiting the UV-independent formation of covalent RNA cross-links of the mutant RNA methylase NSUN2.

2012-07-20 | E-MTAB-1008 | biostudies-arrayexpress

iCLIP of the RNA-binding protein ARPP21

Project description:iCLIP of the RNA-binding protein ARPP21

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STIL/AURKA axis promotes cell proliferation by influencing primary cilia formation in bladder cancer

Project description:Our research showed that primary cilia was reduced in human bladder cancer (BLCA) cells, and PC deficiency promote cell proliferation. However, the concrete mechanisms remain unknown. SCL/TAL1 interrupting locus (STIL), a PC-related protein, was screened in our previous study and could influence the cell cycle by regulating PC in tumor cells. To elucidate the function of STIL for PC to explore the underlying mechanism of PC in BLCA, we establisded siNC and siSTIL EJ cells.

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Effect of FoxJ1 on expression of cilia genes

Project description:Analysis of epithelial explants injected with the intracellular domain of Notch (ICD) to block the formation of multi-ciliate cells, either alone or along with FoxJ1. FoxJ1 misexpression leads to the induction fo ectopic cilia in Xenopus laevis epithelia. Results show which genes are affected by FoxJ1 during the induction of ectopic cilia. Ciliated cells that produce a leftward fluid flow have been proposed to mediate left-right patterning in many vertebrate embryos. These cilia combine features of primary sensory and motile cilia, but how such cilia are specified is unknown. We address this issue by analyzing the Xenopus and Zebrafish homologs of FoxJ1, a forkhead transcription factor necessary for ciliogenesis in multi-ciliate cells of the mouse. We show that the cilia that underlie left-right patterning on the Xenopus gastrocoel roof plate (GRP) and Zebrafish Kupffer’s vesicle (KV) are severely shortened or fail to form in FoxJ1 morphants. We also show that misexpressing XFoxJ1 is sufficient to induce ectopic GRP-like cilia formation in frog embryos. Microarray analysis indicates that XFoxJ1 induces the formation of cilia by upregulating the expression of motile cilia genes. These results indicate that FoxJ1 is a critical determinant in specifying cilia used in left-right patterning. Keywords: Cilia Induction

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