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MetabolomicsMulti-omics and biophysical phosphoproteomics uncover functional phosphorylation networks of BRAFV600E-driven signaling

Dysregulated kinase activity drives oncogenic signalling, perturbs cellular homeostasis, and promotes tumour progression. Despite major success in targeting kinases therapeutically, the downstream consequences of kinase inhibition and the mechanisms underlying drug resistance remain incompletely ...

2025-12-09 | MTBLS7390 | MetaboLights
TranscriptomicsChIP-chip study aimed at the identification of the repertoire of FOXC2 binding sites affected by the loss of FOXC2 phosphorylation in primary human lymphatic endothelial cells (LECs)
Chromatin immunoprecipitation microarray (ChIP-chip) study using anti-Myc (9E10) antibodies and primary human lymphatic endothelial cells (LECs) transduced with recombinant adenoviruses expressing wild type or phosphorylation-deficient Myc-tagged FOXC2.
ORGANISM(S): Homo sapiens 
2013-07-13 | E-MTAB-596 | biostudies-arrayexpress
TranscriptomicsPhosphorylation of MeCP2 at Serine 80 regulates its chromatin association and neurological function
Mutations of MECP2 (Methyl-CpG Binding Protein 2) cause Rett Syndrome. As a chromatin associated multifunctional protein, how MeCP2 integrates external signals and regulates neuronal function remain unclear. While neuronal activity-induced phosphorylation of MeCP2 at serine 421 (S421) has been repor...
ORGANISM(S): Mus musculus 
2009-02-10 | E-GEOD-14715 | biostudies-arrayexpress
ProteomicsLC-MS/MS analysis of the dog serum phosphoproteome reveals novel and conserved phosphorylation sites: phosphoprotein patterns in babesiosis caused by Babesia canis, a case study
Phosphorylation is the most commonly studied protein post-translational modification (PTM) in biological systems due to its importance in controlling cell division, survival, growth, etc. Despite the thorough research in phosphoproteomics of cells and tissues there is little information on circulati...
ORGANISM(S): Canis lupus x Canis lupus familiaris 
2018-11-13 | PXD010894 | Pride
Phosphorylation sites Phosphopeptide enrichment Babesiosis Phosphoproteomics Serum phosphopeptides 
ProteomicsSpecific mixing facilitates the comparative quantification of phosphorylation sites with significant dysregulations
It is still a big challenge to accurately quantify the proteins or proteins PTM sites with extreme relative abundances in comparative protein samples, such as the significantly dysregulated ones. Herein, a novel quantification strategy, Mixing at Specific Ratio (MaSR) before isotope labeling, had be...
ORGANISM(S): Candida albicans (Yeast) Homo sapiens (Human) Escherichia coli 
2016-12-06 | PXD005181 | Pride
Lc-msms Mixing at specific ratio Comparative phosphoproteome quantification Stable isotope labeling Extreme relative abundance 
ProteomicsImmunoprecipitated PTPN22 Phosphoproteomics from Jurkat Cells
3x FLAG tagged PTPN22 were immunoprecipitated from Jurkat cells stimulated by TCR for 5min, and the proteins were eluted by FLAG peptides. This study aims to explore the phosphorylation sites on PTPN22 phosphatase, identifying two phosphorylation sites Ser325 and Ser449.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-12-21 | MSV000093717 | MassIVE
ProteomicsExonuclease-1 interactome and phosphorylation sites
To help shedding light on regulatory aspects of DNA repair and remodeling pathways in which EXO1 participates and to help revealing novel cellular processes in which EXO1 is involved, we set out to identify proteins interacting with EXO1. Both a small-scale approach and a comprehensive analysis of t...
ORGANISM(S): Homo sapiens (Human) 
2019-01-31 | PXD002780 | Pride
Human Exo1 Phosphorylation Affinity tag purification 
TranscriptomicsDiscovery of novel isoforms of Huntingtin reveals a new hominid-specific exon
Huntington’s disease (HD) is a devastating neurological disorder that is caused by an expansion of the poly-Q tract in exon 1 of the Huntingtin gene (HTT). HTT is an evolutionarily conserved and ubiquitously expressed protein that has been linked to a variety of functions including transcriptional r...
ORGANISM(S): Homo sapiens 
2015-06-10 | E-GEOD-66769 | biostudies-arrayexpress
ProteomicsAnalysis of protein phosphorylation in response to the ATP treatment in Arabidopsis thaliana
The project intended to reveal protein phosphorylation patterns in Arabidopsis thaliana in response to ATP. For this purpose, Arabidopsis thaliana plants, including WT, ATP receptor mutants (p2k1, p2k2, and double mutant p2k1/p2k2), and P2K1 overexpression plants, were treated with ATP or buffer (as...
ORGANISM(S): Arabidopsis Thaliana (ncbitaxon:3702) 
MSV000095888 | MassIVE
ProteomicsQuantitative proteomic atlas of phosphorylation and ubiquitination reveals Epn2-mediated endocytosis dysfunction in α-synuclein transgenic mice
Progression through neuronal loss of substantia nigra pars compacta with Parkinson’s disease depends on various protein post-translational modifications mainly comprising phosphorylation, ubiquitination, acetylation, and methylation. Phosphorylation and ubiquitination regulate major physiological ch...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-28 | PXD013965 | Pride
Phosphorylation Ubiquitination Parkinson’s disease Quantitative proteomics Endocytosis 
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