COVID-19 and fibrosis: Mechanisms, clinical relevance, and future perspectives

Saifi, Mohd Aslam; Bansod, Sapana; Godugu, Chandraiah

doi:10.1016/j.drudis.2022.103345

Cited by 7 publications

(15 citation statements)

References 95 publications

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“…A SOFA score is considered helpful for ML model training because it directly reflects the patient’s condition based on the oxygen saturation, respiratory function, platelets count, blood pressure values, creatinine, and bilirubin test values as well as the Glasgow coma scale. SOFA score has demonstrated its reliability during its use for more than 25 years since it was developed [ 48 ]. The full clinical datasets for these patients were downloaded from Synapse with the identification number syn35874390 from synapse.org.…”

Section: Methodsmentioning

confidence: 99%

Integrating AI/ML Models for Patient Stratification Leveraging Omics Dataset and Clinical Biomarkers from COVID-19 Patients: A Promising Approach to Personalized Medicine

Bello

Bundey

Bhave

et al. 2023

IJMS

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The COVID-19 pandemic has presented an unprecedented challenge to the healthcare system. Identifying the genomics and clinical biomarkers for effective patient stratification and management is critical to controlling the spread of the disease. Omics datasets provide a wealth of information that can aid in understanding the underlying molecular mechanisms of COVID-19 and identifying potential biomarkers for patient stratification. Artificial intelligence (AI) and machine learning (ML) algorithms have been increasingly used to analyze large-scale omics and clinical datasets for patient stratification. In this manuscript, we demonstrate the recent advances and predictive accuracies in AI- and ML-based patient stratification modeling linking omics and clinical biomarker datasets, focusing on COVID-19 patients. Our ML model not only demonstrates that clinical features are enough of an indicator of COVID-19 severity and survival, but also infers what clinical features are more impactful, which makes our approach a useful guide for clinicians for prioritization best-fit therapeutics for a given cohort of patients. Moreover, with weighted gene network analysis, we are able to provide insights into gene networks that have a significant association with COVID-19 severity and clinical features. Finally, we have demonstrated the importance of clinical biomarkers in identifying high-risk patients and predicting disease progression.

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Section: Methodsmentioning

confidence: 99%

Integrating AI/ML Models for Patient Stratification Leveraging Omics Dataset and Clinical Biomarkers from COVID-19 Patients: A Promising Approach to Personalized Medicine

Bello

Bundey

Bhave

et al. 2023

IJMS

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“…As one of the fundamental processes that are activated in the primary stages of life, three types of EMT can produce different functional consequences. Among them, type II EMT may lead to certain pathophysiological conditions, including fibrosis and organ destruction (Acloque et al, 2009;Lee et al, 2021;Saifi et al, 2022). Type I and type III EMT are associated with development and cancer, respectively.…”

Section: Basic Mechanisms Of Pf 21 Emtmentioning

confidence: 99%

“…Among them, TGF-β1 has been observed to be upregulated in various fibrotic processes, it activates its downstream factors Smad 2, Smad 3, Smad 4, and Smad 7 through TGF-β receptor I (TβRI) and TβRII and plays a crucial role in EMT and fibrogenesis (Chen et al, 2018;Eser and Janne, 2018;Hu et al, 2018;. In fibrosis, TGF-β1 can affect multiple pathways such as fibroblast proliferation and EMT activation (Saifi et al, 2022).…”

Section: Role Of Tgf-βmentioning

confidence: 99%

“…The lung is the main organ of SARS-CoV-2 infection, its main manifestation are pulmonary diseases. In addition, organs such as kidney and liver may also be infected by the virus (Kolesova et al, 2021;Legrand et al, 2021;Jansen et al, 2022;Saifi et al, 2022). However, COVID-19-induced fibrosis is one of the most serious harms arising from viral infection (Wendisch et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

“…Approximately 30 percent of patients present with SARS-CoV-2-associated pulmonary fibrosis (PF), and this proportion increased with disease severity and duration. Established fibrosis worsened already impaired lung function in COVID-19 survivors (Francone et al, 2020;Fu et al, 2020;Vasarmidi et al, 2020;Bocchino et al, 2022;Saifi et al, 2022;Shmakova et al, 2023). Even after recovery from COVID-19, up to 17% of patients will develop PF (Pan et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

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Molecular mechanisms of COVID-19-induced pulmonary fibrosis and epithelial-mesenchymal transition

Pi,

Zeng,

Zeng

et al. 2023

Front. Pharmacol.

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As the outbreak of COVID-19 caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) first broke out in Hubei Province, China, at the end of 2019. It has brought great challenges and harms to global public health. SARS-CoV-2 mainly affects the lungs and is mainly manifested as pulmonary disease. However, one of the biggest crises arises from the emergence of COVID-19-induced fibrosis. At present, there are still many questions about how COVID-19 induced pulmonary fibrosis (PF) occurs and how to treat and regulate its long-term effects. In addition, as an important process of fibrosis, the effect of COVID-19 on epithelial-mesenchymal transition (EMT) may be an important factor driving PF. This review summarizes the main pathogenesis and treatment mechanisms of COVID-19 related to PF. Starting with the basic mechanisms of PF, such as EMT, transforming growth factor-β (TGF-β), fibroblasts and myofibroblasts, inflammation, macrophages, innate lymphoid cells, matrix metalloproteinases and tissue inhibitors of metalloproteinases, hedgehog pathway as well as Notch signaling. Further, we highlight the importance of COVID-19-induced EMT in the process of PF and provide an overview of the related molecular mechanisms, which will facilitate future research to propose new clinical therapeutic solutions for the treatment of COVID-19-induced PF.

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SARS-CoV-2 S and N protein peptides drive invasion abilities of colon cancer cells through TGF-β1 regulation

Woźniak

Sobierajska

2023

Biochimica et Biophysica Acta (BBA) - Molecular Cell Research

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COVID-19 and fibrosis: Mechanisms, clinical relevance, and future perspectives

Cited by 7 publications

References 95 publications

Integrating AI/ML Models for Patient Stratification Leveraging Omics Dataset and Clinical Biomarkers from COVID-19 Patients: A Promising Approach to Personalized Medicine

Integrating AI/ML Models for Patient Stratification Leveraging Omics Dataset and Clinical Biomarkers from COVID-19 Patients: A Promising Approach to Personalized Medicine

Molecular mechanisms of COVID-19-induced pulmonary fibrosis and epithelial-mesenchymal transition

SARS-CoV-2 S and N protein peptides drive invasion abilities of colon cancer cells through TGF-β1 regulation

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