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Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona
Protein corona composition and precise physiological understanding of differentially expressed proteins are key for identifying disease biomarkers. In this report, we presented a distinctive quantitative proteomics table of molecular cell signaling differentially expressed proteins of corona that fo...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9500999/ https://www.ncbi.nlm.nih.gov/pubmed/36144499 http://dx.doi.org/10.3390/molecules27185754 |
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author | Hasan, Murtaza Zafar, Ayesha Jabbar, Maryum Tariq, Tuba Manzoor, Yasmeen Ahmed, Muhammad Mahmood Hassan, Shahbaz Gul Shu, Xugang Mahmood, Nasir |
author_facet | Hasan, Murtaza Zafar, Ayesha Jabbar, Maryum Tariq, Tuba Manzoor, Yasmeen Ahmed, Muhammad Mahmood Hassan, Shahbaz Gul Shu, Xugang Mahmood, Nasir |
author_sort | Hasan, Murtaza |
collection | PubMed |
description | Protein corona composition and precise physiological understanding of differentially expressed proteins are key for identifying disease biomarkers. In this report, we presented a distinctive quantitative proteomics table of molecular cell signaling differentially expressed proteins of corona that formed on iron carbide nanoparticles (NPs). High-performance liquid chromatography/electrospray ionization coupled with ion trap mass analyzer (HPLC/ESI-Orbitrap) and MASCOT helped quantify 142 differentially expressed proteins. Among these proteins, 104 proteins showed upregulated behavior and 38 proteins were downregulated with respect to the control, whereas 48, 32 and 24 proteins were upregulated and 8, 9 and 21 were downregulated CW (control with unmodified NPs), CY (control with modified NPs) and WY (modified and unmodified NPs), respectively. These proteins were further categorized on behalf of their regularity, locality, molecular functionality and molecular masses using gene ontology (GO). A STRING analysis was used to target the specific range of proteins involved in metabolic pathways and molecular processing in different kinds of binding functionalities, such as RNA, DNA, ATP, ADP, GTP, GDP and calcium ion bindings. Thus, this study will help develop efficient protocols for the identification of latent biomarkers in early disease detection using protein fingerprints. |
format | Online Article Text |
id | pubmed-9500999 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-95009992022-09-24 Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona Hasan, Murtaza Zafar, Ayesha Jabbar, Maryum Tariq, Tuba Manzoor, Yasmeen Ahmed, Muhammad Mahmood Hassan, Shahbaz Gul Shu, Xugang Mahmood, Nasir Molecules Article Protein corona composition and precise physiological understanding of differentially expressed proteins are key for identifying disease biomarkers. In this report, we presented a distinctive quantitative proteomics table of molecular cell signaling differentially expressed proteins of corona that formed on iron carbide nanoparticles (NPs). High-performance liquid chromatography/electrospray ionization coupled with ion trap mass analyzer (HPLC/ESI-Orbitrap) and MASCOT helped quantify 142 differentially expressed proteins. Among these proteins, 104 proteins showed upregulated behavior and 38 proteins were downregulated with respect to the control, whereas 48, 32 and 24 proteins were upregulated and 8, 9 and 21 were downregulated CW (control with unmodified NPs), CY (control with modified NPs) and WY (modified and unmodified NPs), respectively. These proteins were further categorized on behalf of their regularity, locality, molecular functionality and molecular masses using gene ontology (GO). A STRING analysis was used to target the specific range of proteins involved in metabolic pathways and molecular processing in different kinds of binding functionalities, such as RNA, DNA, ATP, ADP, GTP, GDP and calcium ion bindings. Thus, this study will help develop efficient protocols for the identification of latent biomarkers in early disease detection using protein fingerprints. MDPI 2022-09-06 /pmc/articles/PMC9500999/ /pubmed/36144499 http://dx.doi.org/10.3390/molecules27185754 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Hasan, Murtaza Zafar, Ayesha Jabbar, Maryum Tariq, Tuba Manzoor, Yasmeen Ahmed, Muhammad Mahmood Hassan, Shahbaz Gul Shu, Xugang Mahmood, Nasir Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title | Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title_full | Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title_fullStr | Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title_full_unstemmed | Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title_short | Trident Nano-Indexing the Proteomics Table: Next-Version Clustering of Iron Carbide NPs and Protein Corona |
title_sort | trident nano-indexing the proteomics table: next-version clustering of iron carbide nps and protein corona |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9500999/ https://www.ncbi.nlm.nih.gov/pubmed/36144499 http://dx.doi.org/10.3390/molecules27185754 |
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