Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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

PROVIDER: PRJNA679052 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13075909_1.fastq.gz	Fastqsanger.gz
	SRR13075909_2.fastq.gz	Fastqsanger.gz
	SRR13075910_1.fastq.gz	Fastqsanger.gz
	SRR13075910_2.fastq.gz	Fastqsanger.gz
	SRR13075911_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

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

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

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

2021-10-22 | GSE161670 | GEO

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

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

| PRJNA679054 | ENA

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 Flag-bound transcripts via RIP-seq

Project description:Identify Flag-bound transcripts via RIP-seq

| PRJNA757015 | ENA

Transcriptome profiling of HeLa TAF7 (WT) cytoplasmic extracts

Project description:We perform RNA-Seq to analyze gene expression profiles in HeLa TAF7 (WT) cytoplasmic extracts, which are the inputs of RIP-Seq and PAR-CLIP.

2021-10-22 | GSE161668 | 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.

2021-10-28 | GSE156797 | GEO

Transcriptome profiling of HeLa TAF7 (WT) cytoplasmic extracts

Project description:Transcriptome profiling of HeLa TAF7 (WT) cytoplasmic extracts

| PRJNA679053 | ENA

RIP-chip of HuR in MCF7 cells exposed to doxorubicin

Project description:The purpose of the study was to identify mRNA bound to HuR in the presence of doxorubicin in MCF7 cells. We collected cytoplasmic RNA from untreated and treated cells and detected differentially expressed genes (DEGs). We also coimmunoprecipitated HuR and IgG (as control) from doxorubicin treated cells. Comparison between HuR RIP and IgG RIP signals was used to discriminate specific mRNA bound to HuR. HuR coimmmunoprecipitated material was hybridized together with cytoplasmic mRNA of doxorubicin treated cells, enabling the fold enrichment calculation and the selection of mRNAs bound to HuR. Keywords: RIP-Chip, HuR, doxorubicin, MCF7, HuR consensus binding, post-transcriptional regulation. We subjected MCF7 cells to starvation for 24h and then we added doxorubicin at final concentration of 10 uM, profiling before and after 4 hours of treatment in biological quadruplicate (only on cytoplasmic mRNAs, as HuR was found in the cytoplasm). Differentially expressed genes, altered during the treatment, were identified. Data derived from HuR RIP-Chip and IgG RIP-Chip (in biological quadruplicate) allowed the identification of specific mRNAs bound to HuR. The comparison between HuR RIP-Chip and cytoplasmic extracts from doxorubicin treated cells (in biological triplicate) identified those genes that were more strictly bound to HuR independently from their expression levels.

2011-12-31 | E-GEOD-33055 | biostudies-arrayexpress

RIP-seq analysis of PTBP1-bound RNAs

Project description:To reveal PTBP1-bound RNAs, we conducted RNA immunoprecipitation sequencing (RIP-seq) with total RNA samples from MKN-28 cells.

2021-04-14 | GSE157941 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data