Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq analysis of Synph-293 cells

ABSTRACT: We report the gene expression profile in Synph-293 cells, which are stably FLAG-tagged synphilin-1 overexpressing HEK293 cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE208406 | GEO | 2025/07/18

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA-seq analysis of HEK293 and synphilin-1 overexpressing HEK293 cell line

Project description:We report the gene expression profile of HEK293 cells and FLAG-tagged synphilin-1 overexpressing HEK293 cells (Synph-293 cells).

2025-05-29 | GSE255201 | GEO

Transcriptome-wide mapping of MARF1-bound mRNAs

Project description:To comprehensively identify MARF1-associated mRNAs, we performed iCLIP using engineered HEK293 cells stably expressing a doxycycline (Dox)-inducible FLAG-tagged MARF1 that lacks RNAse activity. Our iCLIP analysis of MARF1 in HEK293 cells identified 108 mRNAs bound by MARF1 and demonstrates that MARF1 binds to the majority of these mRNAs via their 3’UTRs.

2020-06-16 | GSE149820 | GEO

Transcription profiling of human NOR1- and EWS/NOR1-overexpressing 293 cells

Project description:To examine the differences between NOR1 and its fusion gene product EWS/NOR1, we compared the gene expression profiles of NOR1- and EWS/NOR1-overexpressing 293 cells. Experiment Overall Design: We established 293-tet-On clones stably transfected NOR1- or EWS/NOR1-expressing plasmid. Total RNA was collected from the clones cultured with or without doxycycline.

2009-01-14 | E-GEOD-11185 | biostudies-arrayexpress

RNA-Seq of WT Flp-In T-REx 293, UPF3A knockout and UPF3A overexpression cell lines in part with additional siRNA-mediated control or UPF3B knockdowns

Project description:UPF3A and UPF3B are paralogous genes in human cells that are involved in the nonsense-mediated decay (NMD) pathway. NMD is a cellular quality control mechanism that monitors mRNAs during translation. Aberrant translation due to features such as the presence of a premature stop codon downstream on an exon-exon junction activates NMD and leads to the degradation of the mRNA. To investigate the role of UPF3B and UPF3A in NMD, we have generated UPF3A knockout (KO) human Flp-In T-REx 293 cells using CRISPR-Cas9, as well as FLAG-tagged UPF3A overexpressing cells using the PiggyBac transposon system. We generated RNA-Sequencing data for wildtype, UPF3A KO and UPF3A overexpressing (OE) cells, in part with additional siRNA-mediated knockdown of Luciferase (Luc) as control or UPF3B.

2022-08-31 | E-MTAB-10718 | biostudies-arrayexpress

FLAG-TDG-N140A-CD co-immunoprecipitation in HEK293 cells

Project description:Co-immunoprecipitation expreiment of FLAG-tagged human TDG catalytic domain with N140A mutation (FLAG-TDG-N140A-CD) stably expressed in HEK293 cells, compared to control empty (no FLAG-TDG-N140A-CD) HEK293 cells.

2023-03-09 | MSV000091458 | MassIVE

RNAseq analysis of Synph-293 cells

Project description:RNAseq analysis of Synph-293 cells

| PRJNA859821 | ENA

Chromatin immunoprecipitation of human HEK293 cells with flag-tagged IMP1 antibody

Project description:Isolation of IMP1 bound mRNAs. Flag-tagged IMP1 was expressed in HEK293 cells. Flag tagged IMP1 was immunoprecipitated and mRNAs isolated. As controls HEK293 cells that do not express Flag-tagged IMP1 was included.

2006-12-31 | E-MEXP-841 | biostudies-arrayexpress

Expression profile of HEK293 cells stably transfected with PRL-1 (PTP4A1) or empty pcDNA4 vector (control)

Project description:The multifunctional protein tyrosine phosphatase PRL-1 (Gene Symbol: PTP4A1) has been identified as an important oncogene with roles in promoting cell proliferation, survival, migration, invasion, and metastasis. However, little is currently known about the signaling pathways through which it mediates its effects. We used Affymetrix Human Genome U133 Plus 2.0 arrays to examine the global molecular changes of gene expression occurring in response to stable PRL-1 overexpression in human embryonic kidney 293 (HEK293) cells. Total RNA was extracted from triplicate cultures of HEK293 cells stably overexpressing PRL-1 (HEK293-PRL-1) and HEK293 cells stably transfected with empty pcDNA4 vector (HEK293-Vector). Samples were hybridized to Affymetrix HG U133 Plus 2.0 microarrays (1 array per sample for a total of 6 arrays). One of the arrays hybridized with a PRL-1 transfected sample was excluded after qRT-PCR demonstrated that this sample did not exhibit increased PRL-1 expression over the level of the empty vector controls. The remaining 2 HEK293-PRL-1 samples both expressed PRL-1 at least 2-fold higher than any of the 3 empty vector controls.

2013-07-30 | E-GEOD-42586 | biostudies-arrayexpress

Screening FUS-binding RNA with HEK293 cells overexpressing FUS

Project description:The flag-tagged human FUS was overexpressed in HEK293 cells. Extract RNA from the cell lysate, some of which are enriched with flag antibody. The high-throughput sequencing method was used to detect the difference between the total RNA and flag-enriched RNA profiles.

2024-10-28 | GSE188444 | GEO

High throughput characterization of the m6A demethylase FTO by CLIP and RNAseq

Project description:We performed the CLIP-seq analysis of RNAs bound by 3xFLAG-tagged FTO protein stably expressed in human HEK293 cells. In parallel, we profiled the transcriptome of the same cells by RNA-seq, which was used for CLIPseq bioinformatics analysis as an input. The CRISPR-Cas9 was used to knock-out FTO expression in HEK293 to compare the mRNA expression changes and exon usage between FTO KO and WT cell lines. All experiments were performed in three replicates.

2017-08-25 | GSE79577 | 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