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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.
  • Tripathi G; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Sharma N; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Bindal V; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Yadav M; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Mathew B; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Sharma S; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Gupta E; Department of Virology, Institute of Liver and Biliary Sciences, New Delhi, India.
  • Singh Maras J; Department of Molecular and Cellular Medicine, Institute of Liver and Biliary Sciences, New Delhi 110070, India.
  • Sarin SK; Department of Hepatology, Institute of Liver and Biliary Sciences, New Delhi, India.
STAR Protoc ; 3(1): 101045, 2022 03 18.
Article in English | MEDLINE | ID: covidwho-1537118
ABSTRACT
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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Full text: Available Collection: International databases Database: MEDLINE Main subject: Genomics / Proteomics / COVID-19 Type of study: Diagnostic study / Reviews Limits: Humans Language: English Journal: STAR Protoc Year: 2022 Document Type: Article Affiliation country: J.xpro.2021.101045

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Genomics / Proteomics / COVID-19 Type of study: Diagnostic study / Reviews Limits: Humans Language: English Journal: STAR Protoc Year: 2022 Document Type: Article Affiliation country: J.xpro.2021.101045