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ProteomicsDeMix:efficient identification of co-fragmented peptides
A data analysis workflow with a simple deconvolution method based on high resolution data-dependent tandem mass spectrometry.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-28 | MSV000080702 | MassIVE
ProteomicsSlight deuterium enrichment in water acts as an antioxidant: is deuterium a cell growth regulator?
Small admixtures in water, e.g. of metal ions, often act as cell growth regulators. Here we report that enrichment of deuterium content in water, normally found at 8 mM concentration, two-three folds increases cell proliferation and lowers the oxidative stress level as well. Acting as an anti-oxidan...
ORGANISM(S): Homo sapiens (Human) 
2020-08-10 | PXD018216 | Pride
Cell growth regulator Antioxidant Deuterium-enriched water Oxidantion-reduction balance 
ProteomicsAnticancer effect of deuterium depleted water - comprehensive proteomics analysis suggests a redox disbalance mechanism
The proteomics data is derived from 4 parts of samples prepared and analysed by nanoLC-MS/MS. In order to make appropriate statistical analysed could be performed, all treatments were performed in biological replicates. The number of replicates was 4 for protein abundances analysis (part 1), 2 for t...
ORGANISM(S): Homo sapiens (Human) 
2019-09-26 | PXD011085 | Pride
Anticancer Proteomics Redox disbalance Deuterium depleted water 
ProteomicsProteome Integral Solubility Alteration (PISA): a high-throughput proteomics assay for target deconvolution
Various agents, including drugs as well as non-molecular influences, induce alterations in the physic-chemical properties of proteins in cell lysates, living cells and organisms. These alterations can be probed by applying a stability-modifying factor, such as elevated temperature, to a varying degr...
ORGANISM(S): Homo sapiens (Human) 
2020-04-01 | PXD013182 | Pride
Protein stability Target deconvolution Tmt Thermal profiling Quantitative proteomics 
ProteomicsTowards a species search engine: KISSE offers a rigorous statistical framework for bone collagen tandem mass spectrometry data
DNA and bone collagen are two key sources of resilient molecular markers used to identify species from their remains. Collagen is more stable than DNA, and thus it is preferred for ancient and degraded samples. Current mass spectrometry-based collagen sequencing approaches are empirical and lack a r...
ORGANISM(S): Ziphius cavirostris Physeter Cygnus cygnus Hydrodamalis gigas Ursus maritimus (Polar bear) (Thalarctos maritimus) Phoca vitulina Ursus arctos (Brown bear) (Grizzly bear) Mirounga leonina Eschrichtius robustus Halichoerus grypus Balaena mysticetus Rangifer tarandus (Reindeer) (Cervus tarandus) Falco peregrinus 
2025-11-10 | PXD060919 | Pride
Collagen Lc-ms/ms Species identification 
ProteomicsInvestigation of the effects on the proteome composition of Escherichia coli producing a recombinant protein in the periplasm under non-optimized and optimized conditions
Recombinant proteins containing disulfide bonds, like antibody fragments, are usually produced in the periplasm of E. coli, because in this compartment of the E. coli cell the formation of disulfide bonds is catalyzed. A recombinant protein is targeted to the periplasm with the help of an N-termina...
ORGANISM(S): Escherichia coli 
2019-11-12 | PXD008777 | Pride
Recombinant protein Proteomics Protein production Lemo21(de3) Escherichia coli Periplasm 
ProteomicsProTargetMiner: A proteome library of anticancer molecules for functional discovery
As a further development of our Functional Identification of drug Targets by Expression Proteomics (FITExP) method, a reference dataset was built of the proteomic responses of A549 human adenocarcinoma cells to 56 clinical and experimental anticancer molecules. For each molecule, a concentration was...
ORGANISM(S): Homo sapiens (Human) 
2019-11-01 | PXD009644 | Pride
Cancer Drug Proteomics Mass spectrometry A549 Resource Expression Chemotherapeutic Database Compound 
ProteomicsProTargetMiner: A proteome library of anticancer molecules for functional discovery
As a further development of our Functional Identification of drug Targets by Expression Proteomics (FITExP) method, a reference dataset was built of the proteomic responses of A549 human adenocarcinoma cells to 56 clinical and experimental anticancer molecules. For each molecule, a concentration was...
ORGANISM(S): Homo sapiens (Human) 
2019-11-01 | PXD009775 | Pride
Cancer Drug Proteomics Mass spectrometry A549 Resource Expression Chemotherapeutic Database Compound 
ProteomicsProTargetMiner: A proteome library of anticancer molecules for functional discovery
ProTargetMiner is the first publicly available expandable proteome signature library of anticancer molecules in cancer cell lines. The compounds cluster into groups by their proteomic signatures based on their targets and mechanisms. These can be deconvoluted by orthogonal partial least square (OPLS...
ORGANISM(S): Homo sapiens (Human) 
2019-11-01 | PXD013134 | Pride
Cancer Drug Proteomics Mass spectrometry Mcf-7 Resource Rko Expression Chemotherapeutic Database Compound 
ProteomicsProteomics to determine metallodrug targets and optimal drug combinations
The FITExP profiling approach was used to identify protein hits from cells incubated with RAPTA-T or RAPTA-EA. Validation experiments with paclitaxel and cisplatin underlined the reliability of the method and hit lists for both test compounds (and?) gave physiologically viable anti-cancer mechanisms...
ORGANISM(S): Homo sapiens (Human) 
2018-02-09 | PXD005766 | Pride
Drug targets Fitexp Cancer 
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