Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Screening for Ku70 phosphoS155-dependent proximal proteins

ABSTRACT: To identify Ku70 phosphoS155-specific proximal protein interactors, we used the proximity-dependent biotin identification (BioID2) technique with wild-type Ku70, Ku70 S155A, and Ku70 S155D in the doxycycline-inducible T-REx 293 cell line and compared the different datasets.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Permanent Cell Line Cell, Cell Culture

SUBMITTER: Sanna Abbasi

LAB HEAD: Caroline Schild-Poulter

PROVIDER: PXD025581 | Pride | 2023-05-10

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Analysis of Ku70 S155 Phospho-Specific BioID2 Interactome Identifies Ku Association with TRIP12 in Response to DNA Damage.

Abbasi Sanna S Bayat Laila L Schild-Poulter Caroline C

International journal of molecular sciences 20230411 8

The Ku heterodimer, composed of subunits Ku70 and Ku80, is known for its essential role in repairing double-stranded DNA breaks via non-homologous end joining (NHEJ). We previously identified Ku70 S155 as a novel phosphorylation site within the von Willebrand A-like (vWA) domain of Ku70 and documented an altered DNA damage response in cells expressing a Ku70 S155D phosphomimetic mutant. Here, we conducted proximity-dependent biotin identification (BioID2) screening using wild-type Ku70, Ku70 S15 ...[more]

PMID: 37108203

Similar Datasets

Using BioID2 to map domain specific Ku70 protein interactors

Project description:To determine if the proximity-dependent biotin identification (BioID2) technique could identify and map domain and region specific protein interactors, we conducted BioID2 with various segments of the Ku70 protein in the HEK293 cell line and compared the different datasets. To our knowledge, this is the first study aimed at using BioID2 to directly identify domain and region specific protein interactors.

2021-04-22 | PXD020165 | Pride

Generation and Characterization of a Conditional Ku70 Knockout Cell Line

Project description:In this study we characterize and investigate the effect of the loss of Ku70 protein in a conditional Ku70 knockout TREx-293 cell system. Loss of Ku70 protein levels was directly correlated with a loss of cell viability, supporting the observation that Ku performs an essential role in human cells. Interestingly, critical loss of average telomere length was not observed in Ku70 knockouts generated. Global quantitative proteomic analysis of whole cell extracts from Ku70 knockouts following depletion of Ku70 may indicate that Ku’s essential role in humans is not at telomeres, but a non-canonical role which is not yet fully understood.

2023-07-27 | PXD036297 | Pride

Identification of proximal interactome of BioID2-tagged mitochondrial Top3α

Project description:To interrogate the role of Top3a in mtDNA replication progression, we studied the interaction of mitochondrial Top3a with known mitochondrial DNA maintenance proteins using proximity labelling proteomics. For this experiment, FlpIN-TRex 293 cell line expressing mitochondrial Top3a tagged with BioID2 were used. FlpIN-TRex 293 cell line expressing mitochondria-targeted BioID2 protein served as a control.

2022-07-22 | PXD035416 | Pride

Transcriptome analysis of the Golgi stress response

Project description:We explore the transcriptional response of mammalian cells undergoing various insults to Golgi homeostasis. HEK293 cells (Flp-In T-REx 293 cells) stably containing a doxycycline-inducible Golgi-localized HaloTag2 construct (GA-HT2) were treated with the ionophore nigericin, the glycosylation inhibitor xyloside, or were induced by doxycycline and treated with the hydrophobic tag HyT36 to induce destabilization of GA-HT2. We found that while nigericin and xyloside induce global transcriptional changes, destabilization of GA-HT2 induces a Golgi-specific response.

2018-06-21 | GSE99490 | GEO

Transcriptome of Yarrowia lipolytica strain E150 delta-Ku70 on glucose

Project description:batch culture of Yarrowia lipolytica strain E150 delta-Ku70

2012-12-31 | E-MTAB-940 | biostudies-arrayexpress

Ku80/Ku70 complex associated RNA in HEK293T cells

Project description:We report the Ku80/Ku70 complex associated RNA in HEK293T cells using RNA-seq following PAR-Clip.

2024-04-09 | GSE219220 | GEO

SNP microarray of T-REx-293-based clones overexpressing the DNA cytosine deaminase APOBEC3B

Project description:A conditional and isogenic system for APOBEC3B (A3B) induction in T-REx-293 cells. Cells were engineered to express doxycycline-inducible A3B-eGFP or eGFP constructs and subjected to 10 rounds of A3B-eGFP exposure causing 80-90% cell death. Control pools (eGFP) were subjected to parallel rounds of non-toxic eGFP exposure, and dilutions were done each round to mimic A3B-eGFP induced population fluctuations. DNA was extracted and subjected to SNP analyses using the Human OmniExpress-24v1-0 BeadChip (Illumina, San Diego, CA). Genotyping was performed using the humanomniexpress_24v1-0_a cluster file.

2016-06-30 | GSE78710 | GEO

Ku70/HP1g are presented at the KCl induced acutely activated enhancers [ChIP-seq]

Project description:Ku70/HP1g are serving as the marker for the KCl induced acutely enhancer activation in cortical neurons.

2022-08-04 | GSE185648 | GEO

T-REx 293 cells expressiong either WT or I642G IRE1α: 1μg/mL dox and 5μM 1NMPP1 treated vs control at two time points

Project description:Transcriptional profiling of 1μg/mL dox and 5μM 1NMPP1 treatedT-REx 293 cells expressing either WT or I642G IRE1α vs control.

2014-12-22 | GSE17152 | GEO

Ku70 Is a Novel Cytosolic DNA Sensor that Induces Type-III Rather than Type-I IFN

Project description:Cytosolic foreign DNA is detected by pattern recognition receptors and mainly induces Type-I IFN production. We found that transfection of different types of DNA into various untreated cells induces Type-III IFN (IFN-lambda1) rather than Type-I IFN, indicating the presence of uncharacterized DNA sensor(s). A pull-down assay using cytosolic proteins identified that Ku70 and Ku80 are the DNA binding proteins. The knockdown studies and the reporter assay revealed that Ku70 is a novel DNA sensor inducing the IFN-lambda1 activation. The functional analysis of IFNL1 promoter revealed that PRDI and ISRE sites are predominantly involved in the DNA-mediated IFNL1 activation. A pull-down assay using nuclear proteins demonstrated that the IFN-lambda1 induction is associated with the activation of IRF-1 and IRF-7. This is the first report of a specific induction of Type-III rather than Type-I IFN and of Ku70 that plays a key role in the activation of innate immune responses. To identify the nature of the anti-HIV mediators associated with the empty vector transfection, we compared patterns of gene expression between untreated and pCMV9-transfected HEK293 cells, using DNA microarray analysis.

2011-01-29 | E-GEOD-26944 | biostudies-arrayexpress

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