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ProteomicsReversed-phase liquid chromatography of peptides for bottom-up proteomics: A tutorial
The data were recorded for a tutorial focused on reversed-phase liquid chromatography of peptides for bottom-up proteomics. The project does not have any biological/clinical relevance.
ORGANISM(S): Francisella tularensis subsp. holarctica FSC539 
2024-08-08 | PXD036783 | Pride
Method development  protein separation  tutorial Bottom-up proteomics  peptide separation  reversed-phase liquid chromatography  peptide properties 
ProteomicsImplementing 1.5 mm internal diameter columns into microflow LC-MS bottom-up proteomics
In this study, we systematically evaluated the 1.5 mm i.d. column and compared its performance with 1.0 mm i.d. columns in analyzing protein samples of varying complexity using a conventional chromatographic system.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) Homo sapiens (Human) 
2025-02-11 | PXD057525 | Pride
Proteomics Chromatography Columns Lc/ms Inner diameter 
ProteomicsEasy, robust, and reproducible online acid cleavage of proteins in mobile phase for fast quantitative LC-MS bottom-up proteomics – application for ricin detection
The data were recorded during the development, optimization, and characterization of a method for fast online acid cleavage of proteins directly in the mobile phase.
ORGANISM(S): Ricinus communis Homo sapiens (Human) 
2023-10-24 | PXD041124 | Pride
Bottom-up proteomics  lc-ms  online protein cleavage  acid hydrolysis  aspartic acid  ricin  artifacts 
ProteomicsPeptide artificial formylation in bottom–up proteomics analyses
The primary objective of this study was to explain excessive formylation rate of peptides that did not come in contact with concentrated formic acid.
ORGANISM(S): Francisella tularensis subsp. holarctica 
2020-06-10 | PXD016597 | Pride
Bottom–up proteomics Formic acid Peptide formylationartificial modifications  bottom–up proteomics  formic acid  peptide formylation Artificial modifications 
ProteomicsIn-column thermostability of peptides
The primary objective of this study was to revise the advantages of temperature in peptide separations using state-of-the-art columns, but more importantly, to reveal possible mechanisms elevated temperature can impair proteomic bottom-up LC-MS analyses.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) Homo sapiens (Human) 
2020-11-17 | PXD019996 | Pride
Column temperature  peptide stability  peptide degradation  artificial modifications 
ProteomicsEffect of lower formic acid concentration in the mobile phase in LC-MS proteomic experiments
The primary aim of this study was to evaluate the effect of lower formic acid concentration in the mobile phase on the LC separation and MS signal response in peptide separation using analytical columns packed with charged surface hybrid (CSH) stationary phase.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) Homo sapiens (Human) 
2024-08-08 | PXD044781 | Pride
Formic acid Separation performance Csh Detection sensitivity 
ProteomicsMitigating in-column artificial modification in HTLC for bottom-up proteomics and quality control of biopharmaceuticals
The study aimed to investigate the effect of an additional short trap column installed upstream of the separation column on the in-column artificial modification and separation performance in high-temperature LC-MS analyses of peptides.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) Homo sapiens (Human) 
2024-09-11 | PXD052716 | Pride
Biopharmaceuticals High-temperature liquid chromatography Column temperature Trap column Bottom-up proteomics Artifacts 
ProteomicsFrancisella tularensis LVS MSMS spectral library for SRM design
This analysis was performed in order to collect a library of MSMS spectra for tryptic peptides derived from Francisella tularensis LVS proteins. Such MSMS library facilities the design and refinement of LC-SRM assays.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) 
2019-06-04 | PXD001069 | Pride
Francisella tularensis lvs Msms Spectral library 
ProteomicsHigh-flow LC-MS/MS analyses - Conventional-Flow Liquid Chromatography-Mass Spectrometry for Exploratory Bottom-Up Proteomic Analyses
The major objective of our study was to find out what are the extra costs and what optimization and adjustment steps of a high-flow LC-MS system have to be undertaken to identify a comparable number of proteins as on a nanoLC-MS system.
ORGANISM(S): Homo sapiens (Human) 
2019-11-07 | PXD005481 | Pride
Microbore column Hela High-flow Narrow-bore column 
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