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Immunogenic cell death-led discovery of COVID-19 biomarkers and inflammatory infiltrates.

作者信息

Zhuo Jianzhen, Wang Ke, Shi Zijun, Yuan Chunlei

机构信息

Guangdong Medical University, Dongguan, Guangdong, China.

Clinical Laboratory, Boai Hospital of Zhongshan Affiliated to Southern Medical University, Zhongshan, China.

出版信息

Front Microbiol. 2023 May 9;14:1191004. doi: 10.3389/fmicb.2023.1191004. eCollection 2023.


DOI:10.3389/fmicb.2023.1191004
PMID:37228369
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10203236/
Abstract

Immunogenic cell death (ICD) serves a critical role in regulating cell death adequate to activate an adaptive immune response, and it is associated with various inflammation-related diseases. However, the specific role of ICD-related genes in COVID-19 remains unclear. We acquired COVID-19-related information from the GEO database and a total of 14 ICD-related differentially expressed genes (DEGs) were identified. These ICD-related DEGs were closely associated with inflammation and immune activity. Afterward, CASP1, CD4, and EIF2AK3 among the 14 DEGs were selected as feature genes based on LASSO, Random Forest, and SVM-RFE algorithms, which had reliable diagnostic abilities. Moreover, functional enrichment analysis indicated that these feature genes may have a potential role in COVID-19 by being involved in the regulation of immune response and metabolism. Further CIBERSORT analysis demonstrated that the variations in the immune microenvironment of COVID-19 patients may be correlated with CASP1, CD4, and EIF2AK3. Additionally, 33 drugs targeting 3 feature genes had been identified, and the ceRNA network demonstrated a complicated regulative association based on these feature genes. Our work identified that CASP1, CD4, and EIF2AK3 were diagnostic genes of COVID-19 and correlated with immune activity. This study presents a reliable diagnostic signature and offers an overview to investigate the mechanism of COVID-19.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/04fe7b8caab4/fmicb-14-1191004-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/1ab1e458d222/fmicb-14-1191004-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0b8af09fb2d7/fmicb-14-1191004-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/1993dc4628a5/fmicb-14-1191004-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/d028b10bc5fc/fmicb-14-1191004-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0a965d756c23/fmicb-14-1191004-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0db41c9c28e3/fmicb-14-1191004-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/cbf3d17ae079/fmicb-14-1191004-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/30cdaa377ebb/fmicb-14-1191004-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/04fe7b8caab4/fmicb-14-1191004-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/1ab1e458d222/fmicb-14-1191004-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0b8af09fb2d7/fmicb-14-1191004-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/1993dc4628a5/fmicb-14-1191004-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/d028b10bc5fc/fmicb-14-1191004-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0a965d756c23/fmicb-14-1191004-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/0db41c9c28e3/fmicb-14-1191004-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/cbf3d17ae079/fmicb-14-1191004-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/30cdaa377ebb/fmicb-14-1191004-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cacd/10203236/04fe7b8caab4/fmicb-14-1191004-g009.jpg

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引用本文的文献

[1]
Analysis of immunogenic cell death in periodontitis based on scRNA-seq and bulk RNA-seq data.

Front Immunol. 2024

[2]
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[3]
Comprehensive analysis of immunogenic cell death-related gene and construction of prediction model based on WGCNA and multiple machine learning in severe COVID-19.

Sci Rep. 2024-4-11

本文引用的文献

[1]
Potential therapeutic value of necroptosis inhibitor for the treatment of COVID-19.

Eur J Med Res. 2022-12-9

[2]
Neutrophil autophagy and NETosis in COVID-19: perspectives.

Autophagy. 2023-3

[3]
Ferroptosis of Pacemaker Cells in COVID-19.

Circ Res. 2022-4

[4]
Immunogenic cell stress and death.

Nat Immunol. 2022-4

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Omicron variant of SARS-CoV-2: Genomics, transmissibility, and responses to current COVID-19 vaccines.

J Med Virol. 2022-5

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Molecular docking and dynamic simulation of conserved B cell epitope of SARS-CoV-2 glycoprotein Indonesian isolates: an immunoinformatic approach.

F1000Res. 2021

[7]
An Immunogenic Cell Death-Related Classification Predicts Prognosis and Response to Immunotherapy in Head and Neck Squamous Cell Carcinoma.

Front Immunol. 2021

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Nucleic Acids Res. 2022-1-7

[9]
Covid-19 vaccines and variants of concern: A review.

Rev Med Virol. 2022-7

[10]
Immunogenic cell death inducers for enhanced cancer immunotherapy.

Chem Commun (Camb). 2021-11-16

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