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Identify Flag-bound transcripts via RIP-seq

ABSTRACT: Identify Flag-bound transcripts via RIP-seq

PROVIDER: PRJNA757015 | ENA |

REPOSITORIES: ENA

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Identify Flag-bound transcripts via RIP-seq

Project description:To identify the directly bound transcripts of Flag antibody (the backgroud control for our METTL16 RIP-seq), RNA immunoprecipitation sequencing (RIP-seq) was conducted HEK293T. Briefly, HEK293T cells were infected with pmiRNA1-empty vector. Only the GFP-positive cells were used for study and expanded in DMEM medium.

2021-10-28 | GSE182620 | GEO

Identify METTL3, 14 and 16-bound transcripts via RIP-seq

Project description:To identify the directly bound transcripts of METTL3, METTL14, and METTL16, RNA immunoprecipitation sequencing (RIP-seq) was conducted HEK293T stablely expressing METTL3, METTL14, and METTL16, respectively. Briefly, HEK293T cells were infected with lentivirus, pmiRNA1-3 x Flag-METTL3, pmiRNA1-3 x Flag-METTL14, and pmiRNA1-3 x Flag-METTL14, to overexpress the three METTL family members with 3 x Flag fused in the N-terminal. Only the GFP-positive cells were used for study and expanded in DMEM medium.

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Identify METTL3, 14 and 16-bound transcripts via RIP-seq

Project description:Identify METTL3, 14 and 16-bound transcripts via RIP-seq

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FLAG RIP-Seq identifies RNA species bound by cytoplasmic TAF7 in HeLa TAF7 (WT) cells

Project description:We perform FLAG RIP-Seq to generate a transcriptome-view of RNA targets bound by TAF7

2021-10-22 | GSE161667 | GEO

Identify QKI-bound transcripts via RIP-seq

Project description:N7-methylguanosine (m7G) modification, routinely occurring at the 5’ cap of mRNA or within tRNA and rRNA, also exists internally in mRNA. Although essential for mRNA translation as well as stress response, the “reader” protein for mRNA internal m7G modification is still unrevealed. Here, we reported that Quaking protein (QKI), especially QKI7, can selectively recognize the internal mRNA m7G decoration in the cytosol of various cell types. We identified over 1000 confident m7G-modified and QKI binding RNA targets with a conserved motif, “GANGAN (N=A/U/G)”. More strikingly, internal m7G reader QKI7 directly interacts with the SG core protein G3BP1 and can shuttle a subset of m7G-modified transcripts into SG mRNA pool under oxidative stress condition. Additionally, by sequestering mRNA within SGs, QKI7 modulates the translation efficiency of selected transcripts. Moreover, in line with the observation that doxorubicin triggers the assembly of SGs, QKI7 mediates the sensitivity of cancer cells to chemotherapy drug treatment.

2023-05-17 | GSE193036 | GEO

Identify QKI7-bound transcripts via RIP-seq

2023-05-17 | GSE192847 | GEO

FMR1 bound transcripts in mouse fetal oocytes

Project description:Investigating FMR1 bound transcripts in fetal mouse ovaries through RNA Immunoprecipitation Sequencing (RIP-seq)

2023-12-31 | GSE233459 | GEO

RIP-seq of NAT10 interacted cellular and KSHV transcripts in iSLK-KSHV cells

Project description:Flag-RIP-seq was performed in NAT10-Flag overexpressing iSLK-KSHV cells.

2023-09-27 | GSE173889 | GEO

FLAG RIP-Seq identifies RNA species bound by cytoplasmic TAF7 in HeLa TAF7 (WT) cells

Project description:FLAG RIP-Seq identifies RNA species bound by cytoplasmic TAF7 in HeLa TAF7 (WT) cells

| PRJNA679052 | ENA

RNA immunoprecipitation and sequencing of YB-1-bound transcripts in Multiple Myeloma

Project description:To understand the mechanistic basis of YB-1’s regulation of mRNA splicing in response to DNA damage in Multiple Myeloma, we performed RNA immunoprecipitation (RIP) and sequencing of ILF2-bound transcripts under both physiological and DNA damage (melphalan treatment) conditions. Cells were treated with melphalan for 10 hours. (RIP) and sequencing of YB-1-bound RNAs was performed in the JJN3 line (two biological replicates/condition).

2017-05-23 | GSE83664 | GEO

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