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ProteomicsHeLa benchmark datasets DirectMS1 MSGF+
This technical dataset contains LC-MS runs of HeLa protein digest analyzed with a common shotgun proteomics pipeline based on MSGF+ and Percolator and DirectMS1 pipeline.
ORGANISM(S): Homo sapiens (Human) 
2023-09-25 | PXD045495 | Pride
Hela Proteomics Technical Directms1 
ProteomicsBoosting MS1-only proteomics with machine learning allows 2000 protein identifications in single-shot human proteome analyses using 5-minute HPLC gradients
Proteome-wide analyses rely on tandem mass spectrometry and extensive separation of proteolytic mixtures imposing considerable instrumental time consumption that is one of the main obstacles in a broader acceptance of proteomics in biomedical and clinical research. Recently, we presented a fast prot...
ORGANISM(S): Homo sapiens (Human) 
2021-03-18 | PXD023977 | Pride
Faims Fusion lumos Mass spectrometry Ms1-only Hela Protein identification 
ProteomicsQuantitative assessment of microbiomes using ultra-fast MS/MS-free metaproteomics: model 2
This study presents an adaptation of the novel ultrafast MS1-based method called DirectMS1 to characterization of the single microorganisms and microbiomes. Using DirectMS1 we demonstrate the blind identification (with no prior knowledge of the bacterias in the sample) of a single bacterial species...
ORGANISM(S): Gordonia polyisoprenivorans Rhodococcus qingshengii Gordonia alkanivorans Rhodococcus opacus Rhodococcus erythropolis 
2026-08-07 | PXD050887 | Pride
Metaproteomics Ms1-only Microbiomes Directms1 
ProteomicsQuantitative assessment of microbiomes using ultra-fast MS/MS-free metaproteomics: model 1 and 3
This study presents an adaptation of the novel ultrafast MS1-based method called DirectMS1 to characterization of the single microorganisms and microbiomes. Using DirectMS1 we demonstrate the blind identification (with no prior knowledge of the bacterias in the sample) of a single bacterial species...
ORGANISM(S): Gordonia amicalis Gordonia alkanivorans Rhodococcus opacus Rhodococcus erythropolis Priestia aryabhattai 
2026-08-07 | PXD050587 | Pride
Metaproteomics Ms1-only Microbiomes Directms1 
ProteomicsQuantitative assessment of microbiomes using ultra-fast MS/MS-free metaproteomics: Rhodococcus opacus 1CP
This study presents an adaptation of the novel ultrafast MS1-based method called DirectMS1 to characterization of the single microorganisms and microbiomes. Using DirectMS1 we demonstrate the blind identification (with no prior knowledge of the bacterias in the sample) of a single bacterial species...
ORGANISM(S): Rhodococcus opacus 
2026-08-07 | PXD050761 | Pride
Proteomics Ms1-only Rhodococcus opacus 1cp Directms1 
ProteomicsQuantitative assessment of microbiomes using ultra-fast MS/MS-free metaproteomics: Rhodococcus erythropolis X5
This study presents an adaptation of the novel ultrafast MS1-based method called DirectMS1 to characterization of the single microorganisms and microbiomes. Using DirectMS1 we demonstrate the blind identification (with no prior knowledge of the bacterias in the sample) of a single bacterial species...
ORGANISM(S): Rhodococcus erythropolis 
2026-08-07 | PXD050807 | Pride
Proteomics Tmt Rhodococcus erythropolis x5 Lfq Directms1 
ProteomicsDirectMS1 analysis of cell response of A2780 to topotecan
Omics technologies focus on uncovering the complex nature of molecular mechanisms in cells and organisms, including biomarkers and drug targets discovery. Aiming at these tasks, we see that information extracted from omics data is still underused. In particular, characteristics of differentially reg...
ORGANISM(S): Homo sapiens (Human) 
2024-03-11 | PXD035055 | Pride
Directms1 Lc-ms A2780 Topotecan Cell line 
ProteomicsDirectMS1: MS/MS-free identification of 1000 proteins of cellular proteomes in 5 minutes
Proteome characterization relies heavily on tandem mass spectrometry (MS/MS) and is thus associated with instrumentation complexity, lengthy analysis time, and limited duty-cycle. It was always tempting to implement approaches which do not require MS/MS, yet, they were constantly failing in achievin...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2020-02-27 | PXD015669 | Pride
Qexactive hf Mass spectrometry Yeast Ms1-only Hela Protein identification Dda 
ProteomicsUltrafast proteomics revealed everolimus-induced inhibition of 20S proteasome subunit
In this study, we compare the proteomic responses of three cell lines (A549, HCT116, and MCF-7) to treatment with three antitumor drugs (bortezomib, everolimus, and lonidamine), with a particular focus on the effects on the ubiquitin-proteasome system. Liquid chromatography–mass spectrometry (LC-MS)...
ORGANISM(S): Homo sapiens (Human) 
2026-07-20 | PXD060076 | Pride
Lonidamine Directms1 Lc-ms Bortezomib Everolimus Chemical proteomics Cell line 
UnknownPotential of Negative-Ion-Mode Proteomics: An MS1-Only Approach.
Not available
S-EPMC10407931 | biostudies-literature
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