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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 
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 
ProteomicsA novel ultra-high resolution multi-reflecting time-of-flight mass spectrometer in Y-MRT configuration for bottom-up proteomics
The first results of using a new type of ultrahigh-resolution mass analyzer based on a planar multi-pass time-of-flight mass spectrometer with periodic reflecting lenses (Y-MRT MS) for bottom-up whole-proteome analysis are presented. The instrument achieves a resolving power of 1,000,000 for peptide...
ORGANISM(S): Homo sapiens (Human) 
2025-11-05 | PXD065853 | Pride
Dia Lc-ms1 Tof 
ProteomicsVenom gland transcriptome and venom proteome of the Tibellus oblongus spider unveil molecular diversity of polypeptide toxins
The Tibellus genus spider is an active hunter that does not spin webs and remains highly underinvestigated in terms of the venom composition. Here, we present a combination of venom glands transcriptome cDNA analysis, venom proteome analysis for unveiling of the Tibellus genus spider venom compositi...
ORGANISM(S): Tibellus oblongus 
2023-10-23 | PXD040219 | Pride
Spider  venom  multiprotease 
ProteomicsChemical proteomics reveals that the anticancer drug everolimus affects ubiquitin-proteasome system
Rapamycin is a natural antifungal, immunosuppressive, and antiproliferative compound allosterically inhibiting mTOR complex 1. The ubiquitin-proteasome system (UPS) responsible for protein turnover is usually not listed among the pathways affected by mTOR signaling; however, a number of reports indi...
ORGANISM(S): Homo sapiens (Human) 
2024-02-09 | PXD045774 | Pride
Ubiquitin-proteasome system Expression proteomics Everolimus Ubiquitination Rapamycin Diglycine modification Semi-tryptic peptides Drug treatment Cell line 
ProteomicsOn the utility of ultrafast MS1-only proteomics in drug target discovery studies based on thermal proteome profiling method
Advances in high-throughput high-resolution mass spectrometry and the development of thermal proteome profiling approach (TPP) have made it possible to accelerate a drug target search. Since its introduction in 2014, TPP quickly became a method of choice in chemical proteomics for identifying drug-t...
ORGANISM(S): Homo sapiens (Human) 
2024-10-07 | PXD051712 | Pride
Ultra-short gradient hplc-ms Thermal proteome profiling Drug targets Chemical proteomics 
ProteomicsChr18 Consortium MS-data for missing proteins mining
Despite direct or indirect efforts of proteomic community, the fraction of blind spots on the protein map is still significant. Almost 10% (?) of human master protein has no experimental validation up to now. Apparently, proteomics has reached the stage where all easy scores are achieved (?), and ev...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-11-11 | MSV000086439 | MassIVE
ProteomicsExome-based proteogenomics of HEK-293 human cell line: coding genomic variants identified at the level of shotgun proteome
Genomic and proteomic data were integrated into the proteogenomic workflow to identify coding genomic variants of Human Embryonic Kidney 293 (HEK-293) standard cell line at the proteome level. Shotgun proteome data published by Geiger et al (2012) and obtained in this work for HEK-293 were searched ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-28 | MSV000080712 | MassIVE
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