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RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool
[Image: see text] Every laboratory performing mass-spectrometry-based proteomics strives to generate high-quality data. Among the many factors that impact the outcome of any experiment in proteomics is the LC–MS system performance, which should be monitored within each specific experiment and also l...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical
Society
2021
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8041395/ https://www.ncbi.nlm.nih.gov/pubmed/33657803 http://dx.doi.org/10.1021/acs.jproteome.0c00956 |
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author | Morgenstern, David Barzilay, Rotem Levin, Yishai |
author_facet | Morgenstern, David Barzilay, Rotem Levin, Yishai |
author_sort | Morgenstern, David |
collection | PubMed |
description | [Image: see text] Every laboratory performing mass-spectrometry-based proteomics strives to generate high-quality data. Among the many factors that impact the outcome of any experiment in proteomics is the LC–MS system performance, which should be monitored within each specific experiment and also long term. This process is termed quality control (QC). We present an easy-to-use tool that rapidly produces a visual, HTML-based report that includes the key parameters needed to monitor the LC–MS system performance, with a focus on monitoring the performance within an experiment. The tool, named RawBeans, generates a report for individual files or for a set of samples from a whole experiment. We anticipate that it will help proteomics users and experts evaluate raw data quality independent of data processing. The tool is available at https://bitbucket.org/incpm/prot-qc/downloads. The mass-spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the data set identifier PXD022816. |
format | Online Article Text |
id | pubmed-8041395 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | American Chemical
Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-80413952021-04-13 RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool Morgenstern, David Barzilay, Rotem Levin, Yishai J Proteome Res [Image: see text] Every laboratory performing mass-spectrometry-based proteomics strives to generate high-quality data. Among the many factors that impact the outcome of any experiment in proteomics is the LC–MS system performance, which should be monitored within each specific experiment and also long term. This process is termed quality control (QC). We present an easy-to-use tool that rapidly produces a visual, HTML-based report that includes the key parameters needed to monitor the LC–MS system performance, with a focus on monitoring the performance within an experiment. The tool, named RawBeans, generates a report for individual files or for a set of samples from a whole experiment. We anticipate that it will help proteomics users and experts evaluate raw data quality independent of data processing. The tool is available at https://bitbucket.org/incpm/prot-qc/downloads. The mass-spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the data set identifier PXD022816. American Chemical Society 2021-03-04 2021-04-02 /pmc/articles/PMC8041395/ /pubmed/33657803 http://dx.doi.org/10.1021/acs.jproteome.0c00956 Text en © 2021 American Chemical Society Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Morgenstern, David Barzilay, Rotem Levin, Yishai RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool |
title | RawBeans: A Simple,
Vendor-Independent, Raw-Data Quality-Control
Tool |
title_full | RawBeans: A Simple,
Vendor-Independent, Raw-Data Quality-Control
Tool |
title_fullStr | RawBeans: A Simple,
Vendor-Independent, Raw-Data Quality-Control
Tool |
title_full_unstemmed | RawBeans: A Simple,
Vendor-Independent, Raw-Data Quality-Control
Tool |
title_short | RawBeans: A Simple,
Vendor-Independent, Raw-Data Quality-Control
Tool |
title_sort | rawbeans: a simple,
vendor-independent, raw-data quality-control
tool |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8041395/ https://www.ncbi.nlm.nih.gov/pubmed/33657803 http://dx.doi.org/10.1021/acs.jproteome.0c00956 |
work_keys_str_mv | AT morgensterndavid rawbeansasimplevendorindependentrawdataqualitycontroltool AT barzilayrotem rawbeansasimplevendorindependentrawdataqualitycontroltool AT levinyishai rawbeansasimplevendorindependentrawdataqualitycontroltool |