Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Characterisation of a FAK-proximal nuclear interactome

ABSTRACT: In addition to central functions in cell adhesion signalling, integrin-associated proteins have wider roles at sites distal to adhesion receptors. In experimentally defined adhesomes, we noticed that there is clear enrichment of proteins that localise to the nucleus, and conversely, we now report that nuclear proteomes contain a class of adhesome components that localise to the nucleus. We here defined a FAK-proximal subproteome that localises to the nucleus.

INSTRUMENT(S): Q Exactive Plus

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Skin

SUBMITTER: Adam Byron

LAB HEAD: Margaret Frame

PROVIDER: PXD025861 | Pride | 2022-06-01

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	04__02_BirA-BioID-EV-FAK-1.raw	Raw
	05__03_BirA-BioID-EV-FAK-2.raw	Raw
	06__04_BirA-BioID-EV-FAK-3.raw	Raw
	10__05_FAK-WT-BirA-BioID-1.raw	Raw
	11__06_FAK-WT-BirA-BioID-2.raw	Raw

Items per page:

1 - 5 of 11

Similar Datasets

Characterisation of a Hic-5-proximal nuclear interactome

2022-06-01 | PXD025868 | Pride

Characterisation of FAK- and ILK-dependent nuclear subproteomes

Project description:In addition to central functions in cell adhesion signalling, integrin-associated proteins have wider roles at sites distal to adhesion receptors. In experimentally defined adhesomes, there is clear enrichment of proteins that localise to the nucleus, and conversely, we now report that nuclear proteomes contain a subset of adhesome components that localise to the nucleus of cancer cells. We have defined a nucleo-adhesome, providing evidence for the remarkable scale of nuclear localisation of adhesion proteins, establishing a framework for interrogating nuclear adhesion protein functions. Here, we examined whether there was a role for focal adhesion kinase (FAK) and integrin-linked kinase (ILK) in specifying the nucleo-adhesome and, more broadly, the nuclear proteome in squamous cell carcinoma (SCC) cancer cells.

2022-06-09 | PXD020179 | Pride

Characterisation of a nucleo-adhesome

Project description:In addition to central functions in cell adhesion signalling, integrin-associated proteins have wider roles at sites distal to adhesion receptors. In experimentally defined adhesomes, we noticed that there is clear enrichment of proteins that localise to the nucleus, and conversely, we now report that nuclear proteomes contain a class of adhesome components that localise to the nucleus. We here defined a nucleo-adhesome, providing experimental evidence for a remarkable scale of nuclear localisation of adhesion proteins, establishing a framework for interrogating nuclear adhesion protein functions.

2022-06-01 | PXD025870 | Pride

Caspase-2 protects against ferroptotic cell death

Project description:To identify proteins that interact with caspase-2 that could potentially explain its ability to regulate ferroptosis, we performed an unbiased BioID proteomics screen.

2024-03-06 | PXD041339 | Pride

Global analysis of the RNA-protein interaction and RNA secondary structure landscapes of the Arabidopsis nucleus

Project description:Post-transcriptional regulation in eukaryotes requires cis- and trans-acting features and factors including RNA secondary structure, and RNA-binding proteins (RBPs). However, a comprehensive view of the structural and RBP interaction landscape of RNAs in the nucleus has yet to be compiled for any organism. Here, we use our ribonuclease-mediated structure and RBP binding site mapping approach on Arabidopsis seedling nuclei in vivo to globally profile these features within the nuclear compartment. We reveal opposing patterns of secondary structure and RBP binding levels throughout native messenger RNAs that demarcate alternative splicing and polyadenylation. We also uncover a collection of protein bound sequence motifs, and identify their structural contexts, co-occurrences in transcripts encoding functionally related proteins, and interactions with putative RBPs. Finally, we identify a nuclear role for the chloroplast RBP, CP29A. In total, we provide the first simultaneous view of the RNA secondary structure and RBP interaction landscapes in a eukaryotic nucleus. Protein interaction profile sequencing (PIP-seq) in Arabidopsis seedling nuclei. These are crosslinked with formaldehyde and treated with two RNases (ssRNase and dsRNase) with two replicates

2014-12-16 | E-GEOD-58974 | biostudies-arrayexpress

MCM8IP activates the MCM8-9 helicase to promote DNA synthesis and homologous recombination upon DNA damage

Project description:Homologous recombination (HR) mediates the error-free repair of DNA double-strand breaks to maintain genomic stability. Here we characterize C17orf53/MCM8IP, an OB-fold containing protein that binds ssDNA, as a DNA repair factor involved in HR. MCM8IP-deficient cells exhibit HR defects, especially in long-tract gene conversion, occurring downstream of RAD51 loading, consistent with a role for MCM8IP in HR-dependent DNA synthesis. Moreover, loss of MCM8IP confers cellular sensitivity to crosslinking agents and PARP inhibition. Importantly, we report that MCM8IP directly associates with MCM8-9, a helicase complex mutated in primary ovarian insufficiency, and RPA1. We additionally show that the interactions of MCM8IP with MCM8-9 and RPA facilitate HR and promote replication fork progression and cellular viability in response to treatment with crosslinking agents. Mechanistically, MCM8IP stimulates the helicase activity of MCM8-9. Collectively, our work identifies MCM8IP as a key regulator of DNA damage-associated DNA synthesis during DNA recombination and replication.

2020-06-15 | PXD019156 | Pride

Coxsackievirus Adenovirus Receptor co-ordinates pro-inflammatory responses in the lung epithelium

Project description:Airway inflammation and remodelling are key pathophysiologic features process in many respiratory conditions such as asthma. An intact epithelial cell layer is crucial to maintain lung homeostasis, and this depends on intercellular adhesion. The Coxsackievirus Adenovirus Receptor (CAR) is highly expressed in the epithelium where it modulates cell-cell adhesion stability and acts as a receptor for immune cells to facilitate transepithelial migration. Here we investigated the mechanistic role of CAR in mediating responses to the common aeroallergen House Dust Mite (HDM). We demonstrate that administration of HDM in mice lacking CAR in the respiratory epithelium leads to loss of peri-bronchial inflammatory cell infiltration, fewer goblet-cells, decreased IL-4 and IL-13 levels and reduced matrix remodelling. In vitro analysis in human lung epithelial cells confirmed that loss of CAR led to reduced HDM-dependent inflammatory cytokine release leading to reduced inflammatory cell transmigration. Moreover, CAR was required for HDM-induced TGF release leading to enhanced airway smooth muscle cell proliferation and matrix production. Our data demonstrates that CAR is a novel central co-ordinator of lung inflammation through a dual role in leukocyte recruitment and tissue remodelling and may represent an important target for future therapeutic development in lung inflammatory diseases.

2022-09-20 | PXD029237 | Pride

GFI1 tethers the NuRD complex to open and transcriptionally active chromatin in myeloid progenitors

Project description:GFI is a DNA binding transcriptional repressor that regulates myeloid differentiation. Here, we show that GFI1 interacts with the chromodomain helicase CHD4 and other components of the nucleosome remodeling and deacetylase (NuRD) complex. Our data demonstrated that GFI1 and GFI1/CHD4 complexes occupy sites of open chromatin enriched for histone marks associated with active transcription or different sets of genes that are either enriched for IRF1 or SPI-1 consensus binding sites. In addition, our study provided evidence that GFI1 affects the chromatin remodeling activity of the NuRD complex. Overall, our results indicate that GFI1/CHD4 complexes control chromatin openness and histone modifications differentially to regulate target genes, which govern the immune response, nucleosome organization, or metabolic processes.

2021-11-02 | PXD028945 | Pride

IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia

Project description:Genome-scale functional genetic screening was utilized to identify resistance mechanisms and synthetic lethal interactions during small molecule targeting of MENIN and DOT1L in MLL1-rearranged AML. Chromatin regulatory complexes are found to modulate the therapeutic response to these inhibitors, and IKZF1/IKAROS is identified as an essential transcriptional regulator that supports leukemia gene expression through extensive chromatin co-occupancy with MENIN and the transcription factor MEIS1. Furthermore, we show that combined IKAROS degradation with imide drugs and MENIN inhibition using VTP-50469 leads to synergistic anti-leukemic effects through rapid induction of apoptotic cell death both in vitro and in vivo. This study uncovers a previously underappreciated role for IKAROS in AML and cooperativity among IKAROS, MLL1/MENIN and MEIS1 in maintaining leukemogenic transcription.

2022-03-11 | PXD025271 | Pride

IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia

2022-03-11 | PXD025272 | Pride