Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis

In this protocol, we describe global proteome profiling for the respiratory specimen of COVID-19 patients, patients suspected with COVID-19, and H1N1 patients. In this protocol, details for identifying host, viral, or bacterial proteome (Meta-proteome) are provided. Major steps of the protocol inclu...

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Autores principales: Tripathi, Gaurav, Sharma, Nupur, Bindal, Vasundhra, Yadav, Manisha, Mathew, Babu, Sharma, Shvetank, Gupta, Ekta, Singh Maras, Jaswinder, Sarin, Shiv Kumar
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8626227/
https://www.ncbi.nlm.nih.gov/pubmed/34870243
http://dx.doi.org/10.1016/j.xpro.2021.101045
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author Tripathi, Gaurav
Sharma, Nupur
Bindal, Vasundhra
Yadav, Manisha
Mathew, Babu
Sharma, Shvetank
Gupta, Ekta
Singh Maras, Jaswinder
Sarin, Shiv Kumar
author_facet Tripathi, Gaurav
Sharma, Nupur
Bindal, Vasundhra
Yadav, Manisha
Mathew, Babu
Sharma, Shvetank
Gupta, Ekta
Singh Maras, Jaswinder
Sarin, Shiv Kumar
author_sort Tripathi, Gaurav
collection PubMed
description In this protocol, we describe global proteome profiling for the respiratory specimen of COVID-19 patients, patients suspected with COVID-19, and H1N1 patients. In this protocol, details for identifying host, viral, or bacterial proteome (Meta-proteome) are provided. Major steps of the protocol include virus inactivation, protein quantification and digestion, desalting of peptides, high-resolution mass spectrometry (HRMS)-based analysis, and downstream bioinformatics analysis. For complete details on the use and execution of this profile, please refer to Maras et al. (2021).
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spelling pubmed-86262272021-11-29 Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis Tripathi, Gaurav Sharma, Nupur Bindal, Vasundhra Yadav, Manisha Mathew, Babu Sharma, Shvetank Gupta, Ekta Singh Maras, Jaswinder Sarin, Shiv Kumar STAR Protoc Protocol In this protocol, we describe global proteome profiling for the respiratory specimen of COVID-19 patients, patients suspected with COVID-19, and H1N1 patients. In this protocol, details for identifying host, viral, or bacterial proteome (Meta-proteome) are provided. Major steps of the protocol include virus inactivation, protein quantification and digestion, desalting of peptides, high-resolution mass spectrometry (HRMS)-based analysis, and downstream bioinformatics analysis. For complete details on the use and execution of this profile, please refer to Maras et al. (2021). Elsevier 2021-11-27 /pmc/articles/PMC8626227/ /pubmed/34870243 http://dx.doi.org/10.1016/j.xpro.2021.101045 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Tripathi, Gaurav
Sharma, Nupur
Bindal, Vasundhra
Yadav, Manisha
Mathew, Babu
Sharma, Shvetank
Gupta, Ekta
Singh Maras, Jaswinder
Sarin, Shiv Kumar
Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title_full Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title_fullStr Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title_full_unstemmed Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title_short Protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (VTM) in COVID-19 patient by LC-MS/MS-based analysis
title_sort protocol for global proteome, virome, and metaproteome profiling of respiratory specimen (vtm) in covid-19 patient by lc-ms/ms-based analysis
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8626227/
https://www.ncbi.nlm.nih.gov/pubmed/34870243
http://dx.doi.org/10.1016/j.xpro.2021.101045
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