Article
Version 1
Preserved in Portico This version is not peer-reviewed
Observations from the proteomics bench
Version 1
: Received: 5 January 2024 / Approved: 5 January 2024 / Online: 5 January 2024 (12:07:01 CET)
A peer-reviewed article of this Preprint also exists.
König, S.; Schork, K.; Eisenacher, M. Observations from the Proteomics Bench. Proteomes 2024, 12, 6. König, S.; Schork, K.; Eisenacher, M. Observations from the Proteomics Bench. Proteomes 2024, 12, 6.
Abstract
Many challenges in proteomics result from the high-throughput nature of the experiments. The paper first presents pre-analytical problems, which still occur, although the call for standardisation in omics has been ongoing for many years. This article also discusses aspects, which affect bioinformatic analysis, based on three sets of reference data measured with different orbitrap instruments. Despite continuous advances in mass spectrometer technology as well as analysis software, data set-wise quality control is still necessary and decoy-based estimation, although challenged by modern instruments, should be utilized. We draw attention to the fact that numerous young researchers perceive proteomics as a mature, readily applicable technology. However, it is important to emphasize that the maximum potential of the technology can only be realized by an educated handling of its limitations.
Keywords
mass spectrometry; bioinformatics; proteomics; false-positives
Subject
Biology and Life Sciences, Biochemistry and Molecular Biology
Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Comments (0)
We encourage comments and feedback from a broad range of readers. See criteria for comments and our Diversity statement.
Leave a public commentSend a private comment to the author(s)
* All users must log in before leaving a comment
