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CLIP-seq of VSV-infected HEK293T cells overexpressed PTENα

ABSTRACT: CLIP-seq of VSV-infected HEK293T cells overexpressed PTENα

PROVIDER: PRJNA869727 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21068055_1.fastq.gz	Fastqsanger.gz
	SRR21068055_2.fastq.gz	Fastqsanger.gz
	SRR21068056_1.fastq.gz	Fastqsanger.gz
	SRR21068056_2.fastq.gz	Fastqsanger.gz

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CLIP-seq of VSV-infected HEK293T cells overexpressed PTENα

Project description:To determine whether PTENα directly binds to viral RNA, we performed Cross-Linking and Immunoprecipitation (CLIP) sequencing of HEK293T cells transfected with vector encoding PTENα under VSV (vesicular stomatitis virus) infection

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UV cross-linking RIP-seq of VSV-GFP-infected HEK293T cells overexpressed PTENα

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HyperTRIBE assay of VSV-GFP-infected HEK293T cells overexpressing ADAR1-CD, PTENα-N(WT)-ADAR1-CD, or PTENα-N(6R/D)-ADAR1-CD fusion protein

Project description:To explore the binding sites of PTENα on viral or host RNAs, we performed HyperTRIBE assay of HEK293T cells overexpressing ADAR1-CD, PTENα-N(WT)-ADAR1-CD, or PTENα-N(6R/D)-ADAR1-CD fusion protein under VSV-GFP (green fluorescent protein-expressing vesicular stomatitis virus) infection.

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UV cross-linking RIP-seq of VSV-GFP-infected HEK293T cells overexpressed PTENα

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HyperTRIBE assay of VSV-GFP-infected HEK293T cells overexpressing ADAR1-CD, PTENα-N(WT)-ADAR1-CD, or PTENα-N(6R/D)-ADAR1-CD fusion protein

Project description:HyperTRIBE assay of VSV-GFP-infected HEK293T cells overexpressing ADAR1-CD, PTENα-N(WT)-ADAR1-CD, or PTENα-N(6R/D)-ADAR1-CD fusion protein

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PAR-CLIP analysis of YB-1 RNA binding in HEK293T cells

Project description:In this study, we performed PAR-CLIP experiment in HEK293T to explore RNAs directly bound by YB-1.

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YTHDF1 CLIP-seq in WT and DHX36-KO HEK293T cells

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RNA-seq of miR-CLIP double purified, miR-124/miR-132 miR-CLIP probe treated HEK293T cells and corresponding mock treated and intermediate samples

Project description:Targetome of miR-124/miR-132 was enriched in HEK293T cells, a cell line which lacks the expression of these miRNA. The targetome was captured using miR-CLIP, a transfection-based double-purification crosslinking and immunoprecipitation (CLIP) method. Therefore HEK293T cells were transfected with miR-124/miR-132 miR-CLIP probes, which are trioxsalen, biotin bis-modified pre-miRNAs. Unspecific RNA-protein and trioxsalen mediated RNA-RNA crosslinking were induced by UV-irradiation before cell lysis. Total RNA (input samples) was enriched for AGO2-bound RNA using AGO2 immunoprecipitation, by depleting non-RISC associated RNAs. A second enrichment for specific targets of the transfected miRNA is performed using magnetic streptavidin-beads. This step relies on the interaction of the biotinylated probe, on which the RNA target is crosslinked, with the beads. The method was shown to deliver high-quality miRNA targetomes of both 5p and 3p miRNAs.

2020-11-23 | E-MTAB-8517 | biostudies-arrayexpress

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