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Quality Control—A Stepchild in Quantitative Proteomics: A Case Study for the Human CSF Proteome

open access: yesBiomolecules, 2023
Proteomic studies using mass spectrometry (MS)-based quantification are a main approach to the discovery of new biomarkers. However, a number of analytical conditions in front and during MS data acquisition can affect the accuracy of the obtained outcome.
Svitlana Rozanova   +7 more
doaj   +1 more source

Intact Transition Epitope Mapping—Serological Inspection by Epitope EXtraction (ITEM—SIX)

open access: yesMolecules, 2023
Precision medicine requests accurate serological inspections to precisely stratify patients for targeted treatment. Intact transition epitope mapping analysis proved surrogate seroconversion of a model organism’s serum when spiked with a monoclonal ...
Agatino Zammataro   +4 more
doaj   +1 more source

Mass Spectrometric Analysis of Antibody—Epitope Peptide Complex Dissociation: Theoretical Concept and Practical Procedure of Binding Strength Characterization

open access: yesMolecules, 2020
Electrospray mass spectrometry is applied to determine apparent binding energies and quasi equilibrium dissociation constants of immune complex dissociation reactions in the gas phase. Myoglobin, a natural protein-ligand complex, has been used to develop
Bright D. Danquah   +4 more
doaj   +1 more source

Tidyproteomics: an open-source R package and data object for quantitative proteomics post analysis and visualization

open access: yesBMC Bioinformatics, 2023
Background The analysis of mass spectrometry-based quantitative proteomics data can be challenging given the variety of established analysis platforms, the differences in reporting formats, and a general lack of approachable standardized post-processing ...
Jeff Jones   +5 more
doaj   +1 more source

An Ultrafast N-Glycoproteome Analysis Method Using Thermoresponsive Magnetic Fluid-Immobilized Enzymes

open access: yesFrontiers in Chemistry, 2021
N-Glycosylation is one of the most common and important post-translational modification methods, and it plays a vital role in controlling many biological processes.
Zhiya Fan   +5 more
doaj   +1 more source

Characterization of the E.coli proteome and its modifications during growth and ethanol stress

open access: yesFrontiers in Microbiology, 2015
We set out to provide a resource to the microbiology community especially with respect to systems biology based endeavors. To this end, we generated a comprehensive dataset monitoring the changes in protein expression, copy number, and post translational
Boumediene eSoufi   +3 more
doaj   +1 more source

Prion-like Domains in Spike Protein of SARS-CoV-2 Differ across Its Variants and Enable Changes in Affinity to ACE2

open access: yesMicroorganisms, 2022
Currently, the world is struggling with the coronavirus disease 2019 (COVID-19) pandemic, caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).
George Tetz, Victor Tetz
doaj   +1 more source

Recent advances in CRISPR-based genome editing technology and its applications in cardiovascular research

open access: yesMilitary Medical Research, 2023
The rapid development of genome editing technology has brought major breakthroughs in the fields of life science and medicine. In recent years, the clustered regularly interspaced short palindromic repeats (CRISPR)-based genome editing toolbox has been ...
Zhen-Hua Li   +4 more
doaj   +1 more source

Sampling the proteome by emerging single-molecule and mass-spectrometry methods [PDF]

open access: yesNat Methods 20, 339--346 (2023), 2022
Mammalian cells have about 30,000-fold more protein molecules than mRNA molecules. This larger number of molecules and the associated larger dynamic range have major implications in the development of proteomics technologies. We examine these implications for both liquid chromatography-tandem mass spectrometry (LC-MS/MS) and single-molecule counting ...
arxiv   +1 more source

RNA sequencing and transcriptome arrays analyses show opposing results for alternative splicing in patient derived samples

open access: yesBMC Genomics, 2017
Background RNA sequencing (RNA-seq) and microarrays are two transcriptomics techniques aimed at the quantification of transcribed genes and their isoforms.
Petr V. Nazarov   +8 more
doaj   +1 more source

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