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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 
MetabolomicsMetabolic Profiling of Volatile Organic Compounds (VOCs) Emitted by the Pathogens Francisella tularensis and Bacillus anthracis in Liquid Culture
We conducted comprehensive (untargeted) metabolic profiling of volatile organic compounds (VOCs) emitted in culture by bacterial taxa Francisella tularensis (F. tularensis) subspecies novicida and Bacillus anthracis (B. anthracis) Sterne, surrogates for potential bacterial bioterrorism agents, as we...
2020-08-20 | MTBLS1737 | MetaboLights
MetabolomicsMulti-omics analysis of thermogenic lipolysis in brown adipocytes

The integration of omics technologies into molecular biological research has transformed it into a field where a system can be investigated as a whole by combining information from multiple biochemical layers. This extension of traditional molecular biology, where various data sources are conside...

2025-11-12 | MTBLS12307 | MetaboLights
OtherAbsolute proteome analysis of colorectal mucosa, adenoma and cancer reveals drastic changes in fatty acid metabolism and plasma membrane transporters
Data from ProteomeXchange, PXD ID: PXD002137. Experiment: NOR9_T, file: 20120109_EXQ6_JRW_SA_NOR9_T_05.mzml. Published as part of J Proteome Res. 2015 Aug 6 . From the Abstract: {{i}} Colorectal cancer is a leading cause of cancer-related death. It develops from normal enterocytes, through a benign...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM11210040827 | GPMDB
Resource Reanalysis 
MetabolomicsIn silico derivatization and CCS value prediction improve interoperable semi-untargeted stable-isotope labeling analysis

Chemical derivatization can improve the detectability of analytically challenging compounds, but untargeted feature identification and annotation for chemically derivatized samples are limited by the availability of reference spectra. With the workflow presented in this manuscript, challenges ass...

2026-10-20 | MTBLS14808 | MetaboLights
ProteomicsGlobal identification of Chromobacterium violaceum T6SS effectors reveals an Rhs antibacterial toxin featuring ADP-ribosyltransferases
Bacteria coexist in polymicrobial communities where they engage in complex interactions, including interbacterial antagonism. We recently described that the environmental bacterial pathogen Chromobacterium violaceum has an active type VI secretion system (T6SS), which plays a crucial role in interba...
ORGANISM(S): Chromobacterium violaceum Bacteria 
2026-06-01 | PXD071363 | Pride
Type vi secretion system Adp‐ribosylation Bacterial genetics Mass spectrometry Secretome Protein secretion Bacterial toxin Bacterial competition 
ProteomicsMass spectrometry-based proteomic exploration of diverse murine macrophage cellular models
Immortalised cell lines analogous to their primary cell counterparts are fundamental to research, particularly when large cell numbers are required. Here we report that immortalisation of bone marrow-derived macrophages using the J2-virus resulted in the loss of a protein of interest, MSR1, in wild-...
ORGANISM(S): Mus musculus (Mouse) 
2024-10-28 | PXD051067 | Pride
Msr1 Proteomics Nacrophage 
ProteomicsTPL-2 kinase induces phagosome acidification to promote macrophage killing of Staphylococcus aureus
Tumor Progression Locus 2 (TPL-2) kinase mediates Toll-like Receptor (TLR) activation of ERK1/2 and p38-alpha MAP kinases in myeloid cells to modulate expression of key cytokines in innate immunity. This study identified a novel MAP kinase-independent regulatory function for TPL-2 in phagosome matur...
ORGANISM(S): Mus musculus (Mouse) 
2021-02-11 | PXD020401 | Pride
Macrophage  phagosome Staphylococcus aureus  tpl-2  v-atpase 
MetabolomicsCombining peak- and chromatogram-based retention time alignment algorithms for multiple chromatography-mass spectrometry datasets
Spring wheat (Triticum aestivum L.) was grown in a free-air carbon dioxide (CO2) enrichment (FACE) field experiment. Grain and biomass yield and its components were determined at maturity and the grain metabolome was analysed by gas chromatography-mass spectrometry (GC-MS) for elevated and ambient C...
2012-09-21 | MTBLS21 | MetaboLights
ProteomicsProteome Landscapes of the Human Colorectal Mucosa, and its Adenoma and Cancer
Adenomatous polyps in the colorectal tract are benign tumors with the potential to develop cancer. In this study we perform a large scale proteomic study of comparing the proteomes of colorectal enterocytes (N) and the cells of the adenoma (A) and cancer (C). Using formalin fixed and paraffin embedd...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-10 | MSV000080620 | MassIVE
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