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Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry
Proteomics is the large scale study of protein structure and function from biological systems through protein identification and quantification. "Shotgun proteomics" or "bottom-up proteomics" is the prevailing strategy, in which proteins are hydrolyzed into peptides that are anal...
Autores principales: | , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cornell University
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10680866/ https://www.ncbi.nlm.nih.gov/pubmed/38013887 |
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author | Jiang, Yuming Rex, Devasahayam Arokia Balaya Schuster, Dina Neely, Benjamin A. Rosano, Germán L. Volkmar, Norbert Momenzadeh, Amanda Peters-Clarke, Trenton M. Egbert, Susan B. Kreimer, Simion Doud, Emma H. Crook, Oliver M. Yadav, Amit Kumar Vanuopadath, Muralidharan Mayta, Martín L. Duboff, Anna G. Riley, Nicholas M. Moritz, Robert L. Meyer, Jesse G. |
author_facet | Jiang, Yuming Rex, Devasahayam Arokia Balaya Schuster, Dina Neely, Benjamin A. Rosano, Germán L. Volkmar, Norbert Momenzadeh, Amanda Peters-Clarke, Trenton M. Egbert, Susan B. Kreimer, Simion Doud, Emma H. Crook, Oliver M. Yadav, Amit Kumar Vanuopadath, Muralidharan Mayta, Martín L. Duboff, Anna G. Riley, Nicholas M. Moritz, Robert L. Meyer, Jesse G. |
author_sort | Jiang, Yuming |
collection | PubMed |
description | Proteomics is the large scale study of protein structure and function from biological systems through protein identification and quantification. "Shotgun proteomics" or "bottom-up proteomics" is the prevailing strategy, in which proteins are hydrolyzed into peptides that are analyzed by mass spectrometry. Proteomics studies can be applied to diverse studies ranging from simple protein identification to studies of proteoforms, protein-protein interactions, protein structural alterations, absolute and relative protein quantification, post-translational modifications, and protein stability. To enable this range of different experiments, there are diverse strategies for proteome analysis. The nuances of how proteomic workflows differ may be challenging to understand for new practitioners. Here, we provide a comprehensive overview of different proteomics methods to aid the novice and experienced researcher. We cover from biochemistry basics and protein extraction to biological interpretation and orthogonal validation. We expect this work to serve as a basic resource for new practitioners in the field of shotgun or bottom-up proteomics. |
format | Online Article Text |
id | pubmed-10680866 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Cornell University |
record_format | MEDLINE/PubMed |
spelling | pubmed-106808662023-11-13 Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry Jiang, Yuming Rex, Devasahayam Arokia Balaya Schuster, Dina Neely, Benjamin A. Rosano, Germán L. Volkmar, Norbert Momenzadeh, Amanda Peters-Clarke, Trenton M. Egbert, Susan B. Kreimer, Simion Doud, Emma H. Crook, Oliver M. Yadav, Amit Kumar Vanuopadath, Muralidharan Mayta, Martín L. Duboff, Anna G. Riley, Nicholas M. Moritz, Robert L. Meyer, Jesse G. ArXiv Article Proteomics is the large scale study of protein structure and function from biological systems through protein identification and quantification. "Shotgun proteomics" or "bottom-up proteomics" is the prevailing strategy, in which proteins are hydrolyzed into peptides that are analyzed by mass spectrometry. Proteomics studies can be applied to diverse studies ranging from simple protein identification to studies of proteoforms, protein-protein interactions, protein structural alterations, absolute and relative protein quantification, post-translational modifications, and protein stability. To enable this range of different experiments, there are diverse strategies for proteome analysis. The nuances of how proteomic workflows differ may be challenging to understand for new practitioners. Here, we provide a comprehensive overview of different proteomics methods to aid the novice and experienced researcher. We cover from biochemistry basics and protein extraction to biological interpretation and orthogonal validation. We expect this work to serve as a basic resource for new practitioners in the field of shotgun or bottom-up proteomics. Cornell University 2023-11-13 /pmc/articles/PMC10680866/ /pubmed/38013887 Text en https://creativecommons.org/licenses/by-nc-nd/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator. |
spellingShingle | Article Jiang, Yuming Rex, Devasahayam Arokia Balaya Schuster, Dina Neely, Benjamin A. Rosano, Germán L. Volkmar, Norbert Momenzadeh, Amanda Peters-Clarke, Trenton M. Egbert, Susan B. Kreimer, Simion Doud, Emma H. Crook, Oliver M. Yadav, Amit Kumar Vanuopadath, Muralidharan Mayta, Martín L. Duboff, Anna G. Riley, Nicholas M. Moritz, Robert L. Meyer, Jesse G. Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title | Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title_full | Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title_fullStr | Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title_full_unstemmed | Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title_short | Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry |
title_sort | comprehensive overview of bottom-up proteomics using mass spectrometry |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10680866/ https://www.ncbi.nlm.nih.gov/pubmed/38013887 |
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