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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
MetabolomicsHypoxia Dependent Inhibition of Glioblastoma Cell Proliferation, Invasion, and Metabolism by the Choline-Kinase Inhibitor JAS239
Background: Elevated choline kinase alpha (ChoK) levels are observed in most solid tumors, including glioblastomas (GBM), and ChoK inhibitors have demonstrated limited efficacy in GBM models. Given that hypoxia is associated with resistance to GBM therapy, we hypothesized that tumor hypoxia c...
2024-06-18 | MTBLS6212 | MetaboLights
ProteomicsStructural Analysis of Hippocampal Kinase Signal Transduction
Kinases are a major clinical target for human diseases. Identifying the proteins that interact with kinases in vivo will provide information on unreported substrates and will potentially lead to more specific methods for therapeutic kinase regulation. Here, endogenous immunoprecipitations of evolu...
ORGANISM(S): Rattus Norvegicus (ncbitaxon:10116) 
2018-05-23 | MSV000082390 | MassIVE
TranscriptomicsSignaling to Transcription Networks in the Neuronal Retrograde Injury Response
Retrograde signaling from axon to soma activates intrinsic regeneration mechanisms in lesioned peripheral sensory neurons; however, the links between axonal injury signaling and the cell body response are not well understood. Here, we used phosphoproteomics and microarrays to implicate ~900 phosphop...
ORGANISM(S): Rattus norvegicus 
2010-12-29 | E-GEOD-26350 | biostudies-arrayexpress
MetabolomicsCombined transcriptome and metabolome analysis reveals the regulatory network of histidine kinase QseC in the two-component system of Glaesserella parasuis
Glaesserella parasuis is the causative agent of Glässer's disease in pigs, which can lead to polyserositis, arthritis, and meningitis. This study used transcriptome and metabolomics sequencing techniques to investigate the mechanism of action of qseC gene in Glaesserella parasuis. Transmission elect...
2025-08-11 | MTBLS12504 | MetaboLights
ProteomicsInference of Kinase-Signaling Networks in Human Myeloid Cell Line Models by Phosphoproteomics using Kinase Activity Enrichment Analysis (KAEA)
Despite the indisputable efficacy of kinase-inhibitors in myeloid malignancies, cure remains an exception and most patients eventually progress. Therefore, there is an unmet clinical need in developing diagnostic pipelines for the characterization of kinase-activities and signaling networks to inves...
ORGANISM(S): Homo sapiens (Human) 
2021-09-10 | PXD024806 | Pride
Phosphoproteomics Kinase-signaling network Myeloid malignancies Kinase activity 
MetabolomicsMulti-omics profiling identifies MAPK signaling suppression associated with tetracycline-induced root toxicity in soybean
Tetracycline (TC), a widely used veterinary antibiotic, is a pervasive emerging contaminant threatening crop production. Here, we employed integrated physiological, metabolomic, and transcriptomic analyses to decipher the response of soybean (Glycine max L.) to TC. While seed germination was unaffec...
2026-09-07 | MTBLS15077 | MetaboLights
ProteomicsATR inhibition rewires cellular signaling networks in response to pathologic replication stress
DNA replication stress is the major cause of genomic instability in human cells. The ataxia telangiectasia and Rad3-related kinase (ATR) plays an essential role in the cellular response to replication stress and inhibition of ATR has emerged as therapeutic strategy for the treatment of cancer. Howev...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-29 | MSV000080795 | MassIVE
TranscriptomicsDynamic re-wiring of apoptotic signaling networks enhances tumor cell killing by DNA damage
Crosstalk and complexity within signaling pathways has limited our ability to devise rational strategies for using network biology to treat human disease. This is particularly problematic in cancer where oncogenes that drive or maintain the tumorigenic state alter the normal flow of molecular inform...
ORGANISM(S): Homo sapiens 
2012-05-14 | E-GEOD-30516 | biostudies-arrayexpress
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 
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