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MetabolomicsThermal Profiling Maps Multilayered Organization of the Mitochondrial Proteome

Mitochondria execute essential metabolic, biosynthetic, and signaling functions, yet the regulatory principles governing their proteome remain incompletely understood. Here, we develop a thermal proteome profiling (TPP) workflow applied directly to purified mitochondria, enabling systematic analy...

2025-12-08 | MTBLS7386 | MetaboLights
MetabolomicsProteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation

Saccharomyces cerevisiae is a widely used cell factory; therefore, it is important to understand how it organizes key functional parts when cultured under different conditions. Here, we perform a multiomics analysis of S. cerevisiae by culturing the strain with a wide range of s...

2022-08-31 | MTBLS697 | MetaboLights
MetabolomicsNon-targeted in vitro metabolomics for proteome-scale identification of novel enzymes in Escherichia coli
Many yet undiscovered enzymes still limit our understanding of metabolism. Here, we develop a high-throughput mass spectrometry approach to comprehensively profile proteome-scale protein collections for in vitro enzymatic activity. Overexpressed or purified proteins are incubated in a supplemented m...
2016-01-11 | MTBLS373 | MetaboLights
MetabolomicsSequential lipidomic, metabolomic, and proteomic analyses of serum, liver, and heart tissue specimens from peroxisomal biogenesis factor 11α knockout mice
Peroxisomes are versatile single membrane-enclosed cytoplasmic organelles, involved in reactive oxygen species (ROS) and lipid metabolism and diverse other metabolic processes. Peroxisomal disorders result from mutations in Pex genes-encoded proteins named peroxins (PEX proteins) and single peroxiso...
2022-02-02 | MTBLS1887 | MetaboLights
ProteomicsExtracellular matrix proteome remodeling with substrate stiffness
Extracellular matrix proteomic profiling Mass spectrometry characterization illustrated a reprogrammed proteome in response to matrix stiffness, including a core subset of 84 ECM-specific proteins, including various ECM regulators and tissue-associated ECM-related proteins. Further, we observe remod...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000092971 | MassIVE
ProteomicsTissue and organ matrix arrays for high throughput screening and systems analysis of cell function
Cell and protein arrays have demonstrated remarkable utility in the high-throughput evaluation of biological responses; however, they lack the complexity of native tissue and organs and cannot replicate the environment of mature normal or diseased tissues. Here, we describe the development of tissue...
ORGANISM(S): Sus scrofa domesticus (domestic pig) 
2015-09-28 | PXD002571 | Pride
Tissue array Matrix Organ array Ecm 
ProteomicsProteomics of tissue matrix scaffold derived from decellularized mice mammary tissues, LC-MS/MS
This project is intended to identify the compositions of the tissue matrix scaffold (TMS) generated from the extracellular matrix (ECM) of decellularized NON-SCID mice breast tissues (DBT). Since ECM is the physicochemical support for the cells living in the tissue microenvironment, it is important ...
ORGANISM(S): Mus musculus (Mouse) 
2018-10-26 | PXD005697 | Pride
Ecm Breast/mammary tissue Tissue matrix scaffold Tms Decellularization Lc-ms/ms 
ProteomicsThe human diabetes-specific visceral adipose tissue proteome: insights into mechanisms of adipose tissue dysfunction in metabolic disease
Introduction: The human adipose tissue proteome associated with type 2 diabetes (DM) is not well described. An understanding of the DM-specific adipose tissue proteome would provide insight into mechanisms underlying the pathogenesis of DM. Methods: We used label-free proteomics analysis to quanti...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-03-27 | MSV000085169 | MassIVE
UnknownHeterogeneity of proteome dynamics between connective tissue phases of adult tendon.
Not available
S-EPMC7217697 | biostudies-literature
MetabolomicsMetabolic Drug Response Phenotyping in Colorectal Cancer Organoids by LC-QTOF-MS
As metabolic rewiring is crucial for cancer cell proliferation, metabolic phenotyping of patient-derived organoids is desirable to identify drug-induced changes and trace metabolic vulnerabilities of tumor subtypes. We established a novel protocol for metabolomic and lipidomic profiling of colorecta...
2021-10-12 | MTBLS2130 | MetaboLights
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