Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6 [RIP-seq]

ABSTRACT: RIP-sequencing in mouse embryonic stem cells. Experiment 1 (Samples 1-18): Base cell line (untagged control cells): GFP_5xT71BS (mES [129S6/SvEvTac], yGlob [GFP_5xT71BS], stable transfection FLAG-Cas9::T2A::Blasticidin). HA-Tnrc6a: endogenously HA-AVI-tagged Tnrc6a. HA-Tnrc6a_Trim71KO: HA-AVI-tagged Tnrc6a, Trim71-/-. Experiment 2 (Samples 19-42): Ctrl: base cell line GFP_5xT71BS. Tnrc6a: endogenously HA-AVI-tagged Tnrc6a. Tnrc6a_Trim71KO: HA-AVI-tagged Tnrc6a, Trim71-/-. Tnrc6a_Ago2KO: HA-AVI-tagged Tnrc6a, Ago2-/-.

ORGANISM(S): Mus musculus

PROVIDER: GSE205966 | GEO | 2023/06/26

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6 [RIP-seq II]

Project description:RIP-sequencing in mouse embryonic stem cells. Experiment 3 (Samples 2-24) & 4 (Samples 25-48): Base cell line (untagged control cells): GFP_5xT71BS (mES [129S6/SvEvTac], yGlob [GFP_5xT71BS], stable transfection FLAG-Cas9::T2A::Blasticidin). HA-Tnrc6a: endogenously HA-AVI-tagged Tnrc6a. HA-Tnrc6a_Trim71KO: HA-AVI-tagged Tnrc6a, Trim71-/-. Experiment 2 (Samples 19-42): Ctrl: base cell line GFP_5xT71BS. Tnrc6a: endogenously HA-AVI-tagged Tnrc6a. Tnrc6a_Trim71KO: HA-AVI-tagged Tnrc6a, Trim71-/-. Tnrc6a_Ago2KO: HA-AVI-tagged Tnrc6a, Ago2-/-.

2024-02-13 | GSE214755 | GEO

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6

Project description:The RNA-binding protein Trim71/Lin41 is a phylogenetically conserved developmental regulator that functions in mammalian stem cell reprogramming, brain development and cancer. Trim71 recognizes target mRNAs through hairpin motifs and silences them through molecular mechanisms that await identification. Deposited data are mass spectrometry data from immunoprecipitation experiments with endogenously tagged Trim71, Ago2, and Tnrc6a. Experiments are carried out in mouse embryonic stem cells (mESCs) and uncover reciprocal interactions of Trim71, Ago2, and Tnrc6a. Trim71 protein interactions are largely independent of Ago2 levels, but strongly depend on the presence of RNA. A second set of experiments is mass spectrometry data from immunoprecipitation experiments in mESCs overexpressing a tagged peptide derived from Homo sapiens TNRC6B (‘FLAG-HA::T6BWT::Cherry’), that is known to block the Tnrc6-Ago2 interaction. We show that a wild-type version strongly binds Ago1 and Ago2, but not Trim71, while a mutant version binds neither Ago1, 2, nor Trim71.

2023-07-04 | PXD034537 | Pride

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6

2023-07-04 | PXD041242 | Pride

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6 [RNA-seq]

Project description:RNA-sequencing in mouse embryonic stem cells. Experiment 1 (Samples 1-9): Base cell line (WT): GFP_5xT71BS (mES [129S6/SvEvTac], yGlob [GFP_5xT71BS], stable transfection FLAG-Cas9::T2A::Blasticidin). Trim71 KO: GFP_5xT71BS Trim71-/-. Ago2 KO: GFP_5xT71BS Ago2-/-. Experiment 2 (Samples 10-21): parental cell line: GFP_5xT71BS. T6B_Wt: Overexpression of T6B_WT, T6B_Mut: Overexpression of T6B_MUT. Trim71_KO: GFP_5xT71BS, Trim71-/- transfected with empty plasmid. Ago2_KO: GFP_5xT71BS, Ago2-/- transfected with empty plasmid.

2023-06-26 | GSE205967 | GEO

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6 II

Project description:RNA-sequencing in mouse embryonic stem cells: Ctrl: GFP_5xT71BS (mES [129S6/SvEvTac], yGlob [GFP_5xT71BS]. Trim71-/-: GFP_5xT71BS (mES [129S6/SvEvTac], yGlob [GFP_5xT71BS] Trim71 -/-. Note pervasive gene expression changes in samples with TNRC6A overexpression in comparison with samples with CAS9 overexpression.

2024-02-13 | GSE231730 | GEO

Convergence of distinct RNA-silencing pathways on GW182/Tnrc6 [sgRNA screen]

Project description:sgRNA screens for factors influencing Trim71 silencing activity.

2023-06-26 | GSE214708 | GEO

Genome-wide binding of FOXD3 in mouse ESCs

Project description:We performed streptavidin pulldown sequencing of endogenously and exogenously Avi-tagged FOXD3 to determine genome-wide binding pattern of this transcription factor in asynchronous or cell cycle synchronized naive mouse ESCs.

2023-04-30 | GSE183418 | GEO

Expression data from Tnrc6a (GW182) mutant E18.5 lungs

Project description:GW182 (Tnrc6a) is a key component of RISC (miRNA-Induced Silencing Complex) that plays a critical role in miRNA-mediated gene silencing. Here, we show that GW182 is expressed in airway multiciliated cells (MCCs), and that gene-trap disruption of GW182 leads to defective multicilia formation and downregulation of broad miRNA targets To investigate roles of GW182 in airway multiciliated cells (MCCc), we assessed changes in mRNA expression in E18.5 Tnrc6a mutant lungs using microarrays (Affymetrix).

2017-05-01 | GSE89327 | GEO

Functional dissection of the human TNRC6 (GW182-related) family of proteins.

Project description: Not available

| S-EPMC2715800 | biostudies-other

The interactome of Zbtb2 in mouse embryonic stem cells

Project description:Zbtb2 is a transcription factor that plays a role in mouse embryonic stem cell (mESC) differentiation. We pulled-down endogenously tagged Zbtb2-FLAG in mESCs and found a complex interactome. We characterized the Zbtb2 complex further by co-pull-downs of overexpressed Zbtb2-AVI, after mutation of individual Zbtb2 domains or of complex subunits, as well as by taking advantage of a tagged construct displaying dominant negative activity (Zbtb2-HAF).

2021-07-14 | PXD025520 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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