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The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RNA-seq]

ABSTRACT: The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RNA-seq]

PROVIDER: PRJNA678373 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13059623_1.fastq.gz	Fastqsanger.gz
	SRR13059623_2.fastq.gz	Fastqsanger.gz
	SRR13059624_1.fastq.gz	Fastqsanger.gz
	SRR13059624_2.fastq.gz	Fastqsanger.gz
	SRR13059625_1.fastq.gz	Fastqsanger.gz

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The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence

Project description:The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence

| PRJNA678374 | ENA

The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RIP-seq]

Project description:RIP-seq of DKC1 in MCF7 cells

2022-08-04 | GSE161479 | GEO

The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RIP-seq]

Project description:The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RIP-seq]

| PRJNA678371 | ENA

The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence [RNA-seq]

Project description:Total and polysomal RNA profiling of control and DKC1-silenced MCF7 cells

2022-08-04 | GSE161480 | GEO

Genome-wide RNAi Screening Identifies pseudouridine synthase DKC1 promotes CRC proliferation through regulating ribosomal proteins expression

Project description:Colorectal cancer (CRC) with high rate of mortality is one of the most commonly diagnosed cancers in worldwide. Advanced colorectal cancer is often accompanied by malignant proliferation of tumor cells. Further researches on colorectal cancer proliferation to find new targets and develop new therapeutic regimen are an important direction for colorectal cancer treatment. In this study, genome-wide RNAi screening was used to discover the essential genes associated with colorectal cancer cell proliferation. We found DKC1 (dyskerin pseudouridine synthase 1) promoted CRC proliferation through binding and modifying ribosomal proteins (RPL10A, RPL22L1, RPL34, RPS3) mRNA to increase the mRNAs stability and eventually increasing their expression. Besides, DKC1 is highly expressed in colorectal cancer and its aberrantly high expression is associated with poor prognosis of colorectal cancer patients. These results suggest that DKC1 could be a new therapeutic target for colorectal cancer.

2021-04-30 | GSE147348 | GEO

The pseudouridine synthase DKC1 binds to cytoplasmic transcripts containing H/ACA-box SnoRNA sequences affecting nuclear hormone receptor dependence

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-08-04 | GSE161481 | GEO

Genome-wide RNAi Screening Identifies pseudouridine synthase DKC1 promotes CRC proliferation through regulating ribosomal proteins expression

2021-02-08 | PXD018103 | Pride

Role of H/ACA snoRNA in translation

Project description:Trypanosomes are unicellular parasites that cycle between the insect and mammalian host and is the causative agent of African sleeping sickness and the wasting disease, nagana, in cattle. Previous studies from our lab suggested that individual rRNA modification such as pseudouridine (Y) and 2â€™-O-methylation are developmentally regulated during the complex life cycle of these parasites. In this study we identified that the Y composition of translating ribosomes are different from rRNA derived from total RNA. Ablation of single snoRNA guiding Y in one of the inter-subunit bridges of the ribosome affects its affinity to translate specific mRNA. Mutational analysis in the pseudouridylation pocket of this snoRNA supports for the notion that the guided modification and not the chaperonic activity, is essential for the observed phenotype. Structural probing of rRNA using DMS-seq suggested that a single modification can affect the rRNA structure locally as wells as globally. Quantitative profiling of the composition of mutant ribosomes suggested the absence of eS12 ribosomal protein in the mature ribosomes. Addback experiments validated the role of eS12 during the loss of a single Y in these mutant cells. Orthologous experiments in related leishmania spp. also verify importance of a single Y in the function of ribosome. Ongoing experiments intend to visualize such ribosomes lacking a single RNA modification and decipher their significance towards ribosome structure.

2024-01-26 | PXD030544 | Pride

Co-transcriptional pseudouridylation of mRNAs by the H/ACA complex controls translational efficiency [iCLIP]

Project description:Post-transcriptional modifications of mRNA have emerged as novel regulators of gene expression. Pseudouridylation is the most abundant and widespread type of RNA modification in living organisms; however, the biological role of pseudouridine in mRNAs remains poorly understood. Here, we show that the pseudouridine synthase dyskerin associates with RNA polymerase II and is enriched at RNA polymerase II-transcribed genes genome-wide. As part of the H/ACA complex, dyskerin binds to thousands of mRNAs and is responsible for their pseudouridylation, an action that occurs in chromatin and does not appear to require a fully complementary guide RNA. In cells lacking dyskerin, pseudouridylation of mRNAs is reduced, while at the same time, de novo protein production is enhanced, indicating that pseudouridylation of mRNAs by dyskerin interferes with translation. Accordingly, pseudouridylation of an mRNA by dyskerin in vitro results in reduced translation of that mRNA. Moreover, in patients with dyskeratosis congenita caused by inherited mutations in the DKC1 gene, binding between mutated dyskerin and mRNAs is altered and pseudouridylation of mRNAs severely reduced. Our findings reveal a new critical function of the H/ACA complex in directing translation control with important implications for development and disease.

2023-06-26 | GSE211201 | GEO

Co-transcriptional pseudouridylation of mRNAs by the H/ACA complex controls translational efficiency [ChIP-seq]

2023-06-26 | GSE211199 | GEO