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ProteomicsQuantitative phosphoproteomic for CDKL5 substrates
Global phosphoproteomic screen to identify the first cellular substrates of CDKL5. CDKL5 knock-out U2OS cells and CDKL5 wt U2OS cells were generated for the TMT-based phosphoproteomic. Thi leads to the identification and further validation of several phosphopetides of MAP1S, CEP131 and CDKL5 itself....
ORGANISM(S): Homo sapiens (Human) 
2018-09-24 | PXD009374 | Pride
Cdkl5 substrates Phosphoproteomic Tmt Ms2 
ProteomicsSecretomics of the Staphylococcus aureus Type VII protein secretion system
The type VII protein secretion system (T7SS) is conserved across Staphylococcus aureus strains and plays important roles in virulence and interbacterial competition. To date only one T7SS substrate protein, encoded in a subset of strains, has been functionally characterized. Here, using an unbiased ...
ORGANISM(S): Staphylococcus aureus 
2020-09-28 | PXD011358 | Pride
Secretion T7ss Staphylococcus aureus Secretome 
ProteomicsProteomics characterisation of the L929 cell supernatant and its role in BMDM differentiation
Bone marrow-derived macrophages (BMDMs) are a key model system for studying macrophage biology in vitro. Commonly used methods to differentiate macrophages from bone marrow are treatment with either recombinant M-CSF or the supernatant of L929 cells, which secrete M-CSF. However, little is known abo...
ORGANISM(S): Mus musculus (Mouse) 
2021-04-13 | PXD021026 | Pride
L929 Proteomics Differentiation M-csf Bone marrow-derived macrophages Secretome 
ProteomicsTemporal and ligand effects on phagosome maturation
Systems biology analysis of temporally-resolved phagosome proteomes following uptake via key phagocytic receptors Macrophages operate at the forefront of innate immunity, and their discrimination of pathogenic versus “self” particles is critical for a number of responses including efficient pathogen...
ORGANISM(S): Mus musculus (Mouse) 
2015-09-10 | PXD000772 | Pride
Phagocytosis Macrophage Proteomics Mtraq Phagosome 
ProteomicsPhosphoproteome of PINK1 in HEK293 cells
triple SILAC phosphoproteomics experiment of Flp-In T-Rex HEK293 cells stably expressing either FLAG empty, PINK1-FLAG Kinase dead or PINK1-FLAG wild type were grown in ‘light’ (K0R0), ‘medium’ (K4R6) and ‘heavy’ (K8,R10) SILAC media, respectively.
ORGANISM(S): Homo sapiens (Human) 
2015-09-16 | PXD002127 | Pride
Pink1 Parkinson's disease Human Phosphorylation Phosphoproteomics Hek293 
ProteomicsThe ERK5 signalling pathway employs a KLF2-ZSCAN4 auto-regulatory module to induce embryonic 2-cell stage genes
The ERK5 MAP kinase signalling pathway was recently discovered as a driver of naïve pluripotency in mouse Embryonic Stem Cells (mESCs). However, the molecular functions of ERK5 in mESCs have not been investigated. Here, we employ combinatorial mESC proteomics to identify ERK5 target genes and substr...
ORGANISM(S): Mus musculus (Mouse) 
2021-11-29 | PXD010581 | Pride
Mass spectrometry Phosphoproteomic Tmt Erk5 
ProteomicsProteomic analysis of bronchoalveolar lavage fluid from patients with active TB and at the end of treatment
Tuberculosis (TB) is a chronic granulomatous disease caused by the pathogen Mycobacterium tuberculosis. The success of M. tuberculosis can be attributed to its ability to evade protective host immune responses and its recalcitrance to antimicrobial chemotherapy. Detailed understanding of protective ...
ORGANISM(S): Homo sapiens (Human) 
2021-11-03 | PXD018907 | Pride
Quantitative proteomics Bal fluid Tmt Tuberculosis End of treatment 
ProteomicsComaprison of the phagosome proteome of bone marrow-derived macrophages and RAW264.7
Macrophages are important immune cells operating at the forefront of innate immunity by taking up foreign particles and microbes through phagocytosis. The RAW 264.7 cell line is commonly used for experiments in the macrophage and phagocytosis field. However, little is known how its functions compare...
ORGANISM(S): Mus musculus (Mouse) 
2015-02-10 | PXD001293 | Pride
Raw264.7 Macrophage Mouse Phagosome 
ProteomicsImpact of collagenase treatment on the proteome and transcriptome of human articular chondrocytes
Objective Human primary articular chondrocytes (hPACs) are routinely isolated from articular cartilage and for pre-clinical OA research. Collagenase digest of tissue is an essential step, yet the impact of enzymatic incubation on the phenotype of hPACs is unclear. We aim to delineate this through p...
ORGANISM(S): Homo sapiens (Human) 
2025-10-20 | PXD064948 | Pride
Collagenase Chondrocytes Osteoarthritis Transcriptomic Proteomic Phenotype 
ProteomicsProteomic Analysis of Ubiquitin Chain Types in Murine Cells and Tissues
Mass spectrometry-based proteomics has become an integral approach for characterising ubiquitin chain-linkage compositions and architectures. In this study, we optimised sample preparation and chromatographic separation of Ubiquitin peptides for Absolute Quantification by Parallel Reaction Monitorin...
ORGANISM(S): Mus musculus (Mouse) 
2020-09-28 | PXD017754 | Pride
Absolute quantification Ubiquitin chain-linkage composition Murine tissues Parallel reaction monitoring 
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