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MetabolomicsData processing, multi-omic pathway mapping, and metabolite activity analysis using XCMS Online

Systems biology is the study of complex living organisms, and as such, analysis on a systems-wide scale involves the collection of information-dense data sets that are representative of an entire phenotype. To uncover dynamic biological mechanisms, bioinformatics tools have become essential to fa...

2017-11-23 | MTBLS572 | MetaboLights
ProteomicsData-Independent Acquisition Enhancement of a Competitive Activity-Based Protein Profiling Platform for Kinase Inhibitor Screening
Kinase inhibitors represent a vital class of therapeutic agents widely used in cancer research, immunology, and other disease areas. Mass spectrometry (MS) employing specially designed small molecule kinase-binding probes has become an essential strategy for identifying novel kinase drug targets. Wh...
ORGANISM(S): Homo sapiens (Human) 
2026-02-23 | PXD072729 | Pride
Proteomics Mass spectrometry Activity-based protein profiling Kinase Data-independent acquisition 
ProteomicsQuantitative chemical proteomics profile target proteins of ITCs
Quantitative chemical proteomics was performed to profile the target proteins of ITCs.For the forward SILAC experiment, heavy-labeled cells were treated with the ITC probe (20 μM) for 30 min and light-labeled cells were pre-treated with the natural ITC (60 μM) for 30 min, followed by the ITC probe (...
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD051941 | Pride
Human Silac Chemical proteomics Isothiocyanates Hf-x 
ProteomicsProteomics study on caffeine for 10 min
Proteomics study on the HepG2 cells which were treated with 6 doses of caffeine for 10 min
ORGANISM(S): Homo Sapiens 
2022-01-14 | PXD030943 |
ProteomicsA Universal 384-Well Proteomic Sample Preparation Platform for High-Throughput Screening and Biomarker Discovery
Major advances have been made to improve the sensitivity of mass analyzers, spectral quality, and the speed of data processing enabling more comprehensive proteome discovery and quantitation. While focus has recently begun shifting toward robust proteomic sample preparation efforts, a high throughpu...
ORGANISM(S): Homo sapiens (Human) 
2021-06-14 | PXD023374 | Pride
High-throughput Hplc-ms/ms Proteomics Biomarker Compound screen 
MetabolomicsA Comprehensive and Ultrasensitive Isotope Calibration Method for Soil Amino Compounds Using Orbitrap Mass Spectrometry
Bound amino compounds (amino acid and amino sugar polymers) comprise a significant proportion (~40%) of soil organic nitrogen and therefore represent an essential source of nitrogen for plant and microbial nutrition. The analysis of their content and isotope enrichment still represents a significant...
2025-06-16 | MTBLS12550 | MetaboLights
ProteomicsTime-Dependent Proteome Study: Human-in-mouse xenograft breast cancer tumor samples (0, 5, 30, 60 min)
The objective of the Time-Dependent Proteome Study was to evaluate changes in the proteome and phosphoproteome when there is a delay in freezing tissues following sample (tumor) excision. The biospecimens used are from human-in-mouse breast cancer tumor samples.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2019-08-30 | MSV000084260 | MassIVE
ProteomicsMethotrexate-based PROTACs as DHFR chemical probes
Methotrexate (MTX) is a potent inhibitor of dihydrofolate reductase (DHFR), where is it used as both an antineoplastic and an immunosuppressant. Mechanisms of MTX resistance in cancers include MTX polyglutamylation and upregulation of DHFR. A series of MTX-based PROteolysis TArgeting Chimeras (PROTA...
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD030140 | Pride
Dhfr Targeted protein degradation Methotrexate Chemical probe Protac One carbon metabolism 
ProteomicsThe Ser/Thr Protein Kinase Protein-Protein Interaction Map of M. tuberculosis
Mycobacterium tuberculosis (Mtb) is the causative agent of tuberculosis, the leading cause of death among all infectious diseases. There are 11 eukaryotic-like serine/threonine protein kinases (STPKs) in Mtb, which are thought to play pivotal roles in cell growth, signal transduction and pathogenesi...
ORGANISM(S): Mycobacterium tuberculosis H37Rv 
2017-06-06 | PXD006389 | Pride
Protein-protein interaction Cell wall Murc Ser/thr protein kinase 
ProteomicsPafA-ABESF - Identification of Serine 119 as an Effective Inhibitor Binding Site of M
Identified AEBSF binding site of PafA by LC-MS/MS analysis.
ORGANISM(S): Escherichia coli 
2018-03-21 | PXD006930 | Pride
Pafa abesf 
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