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ProteomicsChemical phosphoproteomics reveals kinase network topologies associated to genotypes and phenotypes of cancer cells.
We compare the in vitro specificity profiles of several kinase inhibitors with their effects on cellular phosphoproteomes. For this aim, we developed an algorithm which utilizes information on kinase inhibitor selectivity to determine the most probable kinase(s) acting upstream of phosphorylation si...
ORGANISM(S): Homo sapiens (Human) 
2020-01-29 | PXD015943 | Pride
Phosphoproteomics Kinase signaling networks Cancer Kinase inhibitors Bioinformatics 
ProteomicsCommunity detection from empirical kinase networks identifies new members of signalling pathways
We use phosphorylation sites to quantify the enrichment of kinase-kinase relationships in response to diferent kinase inhibitors, from which we construct weighted kinase networks, and assess whether the application of community detection algorithms to such networks can provide new insights on the in...
ORGANISM(S): Homo sapiens (Human) 
2023-06-07 | PXD026039 | Pride
Phosphoproteomics Kinase networks Bioinformatics Communitiy detection 
ProteomicsTumour Endothelial Cell Reprogramming Orchestrates Angiocrine Signalling to Drive Chemoresistance in Breast Cancer
Phosphoproteomic analysis was performed to decipher changes occurring in tumour cells after treatment with conditioned media from endothelial cells, which may protect them from doxorubicin damage, and promote resistance to the treatment. Briefly, MMTV-PyMT (mouse mammary tumour virus-polyoma middle ...
ORGANISM(S): Mus musculus (Mouse) 
2026-06-29 | PXD070990 | Pride
Doxorubicin Phosphoproteomics Angiocrine Chemoresistance Lc-ms/ms 
ProteomicsCancer burden is controlled by mural cell- β3-integrin regulated crosstalk with tumor cells
Phosphoproteomics analysis were performed in WT and β3-integrin-null pericytes. On the other hand, phosphoproteomics experiments were done in B16F0 melanoma cells treated for 24 hours with conditioned medium from WT and β3-integrin-null pericytes.
ORGANISM(S): Mus musculus (Mouse) 
2020-06-01 | PXD014513 | Pride
Paracrine Β3-integrin Mural-cell 
ProteomicseEF2K activity determines synergy to PI3K and MEK inhibitors in combination in cancer cells
To understand the mechanisms involved in synergy to PI3Ki + MEKi treatment, we performed a global phosphoproteomics analysis in 3 different cancer cell lines treated with a MEK inhibitor (Trametinib) and a PI3K inhibitor (Pictilisib) at 500 nM individually or in combination for one hour.
ORGANISM(S): Homo sapiens (Human) 
2022-04-25 | PXD018873 | Pride
Phosphoproteomics Kinase signalling Cancer Eef2k Biomarkers 
ProteomicsTargeting LSD1 rewires kinase networks and primes leukaemia cells for kinase inhibitor treatment
We show that intrinsic resistance to kinase inhibitors may be reversed by coercing kinase networks into acquiring topologies tolerant to drug sensitivity. Using acute myeloid leukaemia (AML) as a model, we found several antagonists of chromatin modifying enzymes that sensitised cancer cells to kinas...
ORGANISM(S): Homo sapiens (Human) 
2022-04-25 | PXD018603 | Pride
Phosphoproteomics Kinase signaling networks Lsd1 Acute myeloid leukaemia Bioinformatics 
ProteomicsMachine learning from large-scale proteomics accurately ranks anti-cancer drugs based on efficacy
We present an approach, named Drug Ranking Using ML (DRUML), which uses omics data to produce ordered lists of > 400 drugs based on their effectiveness in decreasing cancer cell proliferation. We trained and validated DRUML using in-house proteomics and phosphoproteomics data from a panel of 26 AML,...
ORGANISM(S): Homo sapiens (Human) 
2021-02-22 | PXD019591 | Pride
Cancer Proteomics Drug efficacy prediction Druml Machine learning Phosphoproteomics Drug ranking 
ProteomicsChemical phosphoproteomics reveals kinase network topologies associated to genotypes and phenotypes of cancer cells.
We compare the in vitro specificity profiles of several kinase inhibitors with their effects on cellular phosphoproteomes. For this aim, we developed an algorithm which utilizes information on kinase inhibitor selectivity to determine the most probable kinase(s) acting upstream of phosphorylation si...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-10-22 | MSV000090571 | MassIVE
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