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A Sensitive and Controlled Data-Independent Acquisition Method for Proteomic Analysis of Cell Therapies
[Image: see text] Mass spectrometry (MS)-based proteomic measurements are uniquely poised to impact the development of cell and gene therapies. With the adoption of rigorous instrumental performance qualifications (PQs), large-scale proteomics can move from a research to a manufacturing control tool...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical Society
2022
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9087334/ https://www.ncbi.nlm.nih.gov/pubmed/35404046 http://dx.doi.org/10.1021/acs.jproteome.1c00887 |
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author | Lombard-Banek, Camille Pohl, Kerstin I. Kwee, Edward J. Elliott, John T. Schiel, John E. |
author_facet | Lombard-Banek, Camille Pohl, Kerstin I. Kwee, Edward J. Elliott, John T. Schiel, John E. |
author_sort | Lombard-Banek, Camille |
collection | PubMed |
description | [Image: see text] Mass spectrometry (MS)-based proteomic measurements are uniquely poised to impact the development of cell and gene therapies. With the adoption of rigorous instrumental performance qualifications (PQs), large-scale proteomics can move from a research to a manufacturing control tool. Especially suited, data-independent acquisition (DIA) approaches have distinctive qualities to extend multiattribute method (MAM) principles to characterize the proteome of cell therapies. Here, we describe the development of a DIA method for the sensitive identification and quantification of proteins on a Q-TOF instrument. Using the improved acquisition parameters, we defined a control strategy and highlighted some metrics to improve the reproducibility of SWATH acquisition-based proteomic measurements. Finally, we applied the method to analyze the proteome of Jurkat cells that here serves as a model for human T-cells. Raw and processed data were deposited in PRIDE (PXD029780). |
format | Online Article Text |
id | pubmed-9087334 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-90873342022-05-11 A Sensitive and Controlled Data-Independent Acquisition Method for Proteomic Analysis of Cell Therapies Lombard-Banek, Camille Pohl, Kerstin I. Kwee, Edward J. Elliott, John T. Schiel, John E. J Proteome Res [Image: see text] Mass spectrometry (MS)-based proteomic measurements are uniquely poised to impact the development of cell and gene therapies. With the adoption of rigorous instrumental performance qualifications (PQs), large-scale proteomics can move from a research to a manufacturing control tool. Especially suited, data-independent acquisition (DIA) approaches have distinctive qualities to extend multiattribute method (MAM) principles to characterize the proteome of cell therapies. Here, we describe the development of a DIA method for the sensitive identification and quantification of proteins on a Q-TOF instrument. Using the improved acquisition parameters, we defined a control strategy and highlighted some metrics to improve the reproducibility of SWATH acquisition-based proteomic measurements. Finally, we applied the method to analyze the proteome of Jurkat cells that here serves as a model for human T-cells. Raw and processed data were deposited in PRIDE (PXD029780). American Chemical Society 2022-04-11 2022-05-06 /pmc/articles/PMC9087334/ /pubmed/35404046 http://dx.doi.org/10.1021/acs.jproteome.1c00887 Text en © 2022 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by-nc-nd/4.0/Permits non-commercial access and re-use, provided that author attribution and integrity are maintained; but does not permit creation of adaptations or other derivative works (https://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Lombard-Banek, Camille Pohl, Kerstin I. Kwee, Edward J. Elliott, John T. Schiel, John E. A Sensitive and Controlled Data-Independent Acquisition Method for Proteomic Analysis of Cell Therapies |
title | A Sensitive and
Controlled Data-Independent Acquisition
Method for Proteomic Analysis of Cell Therapies |
title_full | A Sensitive and
Controlled Data-Independent Acquisition
Method for Proteomic Analysis of Cell Therapies |
title_fullStr | A Sensitive and
Controlled Data-Independent Acquisition
Method for Proteomic Analysis of Cell Therapies |
title_full_unstemmed | A Sensitive and
Controlled Data-Independent Acquisition
Method for Proteomic Analysis of Cell Therapies |
title_short | A Sensitive and
Controlled Data-Independent Acquisition
Method for Proteomic Analysis of Cell Therapies |
title_sort | sensitive and
controlled data-independent acquisition
method for proteomic analysis of cell therapies |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9087334/ https://www.ncbi.nlm.nih.gov/pubmed/35404046 http://dx.doi.org/10.1021/acs.jproteome.1c00887 |
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