Identification of Gene Signatures Associated with COVID-19 across Children, Adolescents, and Adults in the Nasopharynx and Peripheral Blood by Using a Machine Learning Approach.
Significant variations in immune profiles across different age groups manifest distinct clinical symptoms and prognoses in Coronavirus Disease 2019 (COVID-19) patients. Predominantly, severe COVID-19 cases that require hospitalization occur in the elderly, with the risk of severe illness escalating with age among young adults, children, and adolescents. This study aimed to delineate the unique immune characteristics of COVID-19 across various age groups and evaluate the feasibility of detecting COVID-19-induced immune alterations through peripheral blood analysis. By employing a machine learning approach, we analyzed gene expression data from nasopharyngeal and peripheral blood samples of COVID-19 patients across different age brackets. Nasopharyngeal data reflected the immune response to COVID-19 in the upper respiratory tract, while peripheral blood samples provided insights into the overall immune system status. Both datasets encompassed COVID-19 patients and healthy controls, with patients divided into children, adolescents, and adult age groups. The analysis included the expression levels of 62,703 genes per patient. Then, 9 feature-sequencing methods (least absolute shrinkage and selection operator, light gradient boosting machine, Monte Carlo feature selection, random forest, ridge regression, adaptive boosting, categorical boosting, extremely randomized trees, and extreme gradient boosting) were employed to evaluate the association of the genes with COVID-19. Key genes were then utilized to develop efficient classification models. The findings identified specific markers: insulin-like growth factor binding protein 3 (downregulated in the peripheral blood of COVID-19 patients), interferon alpha-inducible protein 27 (upregulated), and SERPING1 (upregulated in nasopharyngeal tissues). In addition, fibulin-2 was downregulated in adolescent patients, but upregulated in the other groups, while epoxide hydrolase 3 was upregulated in healthy controls, but downregulated in children and adolescents. This study offers valuable insights into the local and systemic immune responses of COVID-19 patients across age groups, aiding in identifying potential therapeutic targets and formulating personalized treatment strategies.
- Peer Review Report
- 10.7554/elife.70458.sa1
- Aug 3, 2021
Decision letter: SARS-CoV-2 shedding dynamics across the respiratory tract, sex, and disease severity for adult and pediatric COVID-19
- Discussion
31
- 10.1016/j.jinf.2020.08.017
- Aug 14, 2020
- The Journal of infection
Medical features of COVID-19 and influenza infection: A comparative study in Paris, France
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62
- 10.1111/ajt.16261
- Oct 2, 2020
- American Journal of Transplantation
Evidence of potent humoral immune activity in COVID-19-infected kidney transplant recipients.
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14
- 10.1097/jom.0000000000002297
- Jun 16, 2021
- Journal of Occupational & Environmental Medicine
Firefighters and COVID-19: An Occupational Health Perspective.
- Front Matter
10
- 10.1016/j.cdtm.2020.04.001
- Apr 23, 2020
- Chronic Diseases and Translational Medicine
Interpretation of the 7th edition of the “diagnosis and treatment guidelines of coronavirus disease 2019 in China”: Progress and challenges
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27
- 10.1016/j.cgh.2020.04.039
- Apr 22, 2020
- Clinical Gastroenterology and Hepatology
Current Knowledge and Research Priorities in the Digestive Manifestations of COVID-19
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10
- 10.1016/j.ejim.2022.04.009
- Apr 13, 2022
- European Journal of Internal Medicine
Anticoagulation as secondary prevention of massive lung thromboses in hospitalized patients with COVID-19
- Research Article
50
- 10.1089/ham.2020.0098
- Aug 17, 2020
- High Altitude Medicine & Biology
Woolcott, Orison O., and Richard N. Bergman. Mortality attributed to COVID-19 in high-altitude populations. High Alt Med Biol. 21:409-416, 2020. Background: Since partial oxygen pressure decreases as altitude increases, environmental hypoxia could worsen Coronavirus Disease 2019 (COVID-19) patient's hypoxemia. We compared COVID-19 mortality at different altitudes. Methods: Retrospective analysis of population-level data on COVID-19 deaths was conducted in the United States (1,016 counties) and Mexico (567 municipalities). Mixed-model Poisson regression analysis of the association between altitude and COVID-19 mortality was conducted using individual-level data from 40,168 Mexican subjects with COVID-19, adjusting for multiple covariates. Results: Between January 20 and April 13, 2020, mortality rates were higher in U.S. counties located at ≥2,000 m elevation versus those located <1,500 m (12.3 vs. 3.2 per 100,000; p < 0.001). In Mexico, between March 13 and May 13, 2020, mortality rates were higher in municipalities located at ≥2,000 m versus those located <1,500 m (5.3 vs. 3.9 per 100,000; p < 0.001). Among Mexican subjects younger than 65 years, the risk of death was 36% higher in those living at ≥2,000 m versus those living at <1,500 m (adjusted incidence rate ratio [IRR]: 1.36; confidence interval [95% CI], 1.05-1.78; p = 0.022). Among Mexican men, the risk of death was 31% higher at ≥2,000 m versus that at <1,500 m (adjusted IRR: 1.31; 95% CI, 1.03-1.66; p = 0.025). No association between altitude and COVID-19 mortality was found among Mexican women or among Mexican subjects 65 years of age and older. Conclusions: Altitude is associated with COVID-19 mortality in men younger than 65 years.
- Research Article
157
- 10.1111/bjh.16725
- May 14, 2020
- British Journal of Haematology
To the Editor: Coronavirus disease 2019 (COVID-19) is widely spread and poses a critical threat to global health.1 Prominent changes in coagulation function in severe patients of COVID-19 have been reported in a recent study.2 Therefore, we conducted this quantitative meta-analysis to explore the difference in blood coagulation parameters between severe and mild cases of COVID-19. Literature published from December 1, 2019 to March 30, 2020 was searched systematically using PubMed and Embase without language limits. The keywords were: coronavirus, laboratory, clinical manifestations, clinical characteristics, and clinical features. All documents comparing information on coagulation parameters between mild and severe cases of COVID-19 patients were finally referred to in our meta-analysis. The pooled standardised mean difference (SMD) and 95% confidence interval (CI) were computed by applying the random-effect model using Stata software (STATA 14.0, Stata Corp, College Station, TX, USA). The study quality was measured by adopting an 11-item checklist, which was suggested by the Agency for Healthcare Research and Quality (AHRQ). Table I displays the main characteristics of the included studies. Nine studies, including one study from medRxiv, with 1105 patients were eventually included for detailed evaluation. Platelet count (PLT), activated partial thromboplastin time (APTT), prothrombin time (PT) and D-dimer (D-D) levels were available in five, six, six and eight studies, respectively. All the studies were conducted in China. Quality score varied from 3 to 7 points, with a mean of 5·4 (Table I). All the studies were of moderate quality, except one of low quality. The main difference in coagulation function between severe and mild COVID-19 patients is shown in Fig 1. Pooled results revealed that PT and D-D levels were significantly higher in patients with severe COVID-19 (0·68, 95% CI = 0·43–0·93, I2 = 53·7%; 0·53, 95% CI = 0·22–0·84, I2 = 78·9%, respectively). However, no significant difference in PLT and APTT values between severe and mild patients was observed (−0·08, 95% CI = −0·34 to 0·18, I2 = 60·5%; −0·03, 95% CI = −0·40 to 0·34, I2 = 79·5%, respectively). Increasing values of D-D and PT support the notion that disseminated intravascular coagulation (DIC) may be common in COVID-19 patients.2 In addition, the rise of D-D level also indicates secondary fibrinolysis conditions in these patients. According to Berri et al.,3 fibrin clot formation helps people to fight against influenza virus infections. Hence, fibrinolysis may potentially induce following severe COVID-19 infection. Future studies should aim to discover more biomarkers of severe cases of COVID-19, and studies exploring the underlying mechanism of deranged coagulation function in COVID-19 are urgently needed. The haemostatic system might be explored for underlying treatment against coronavirus. Due to the lack of sufficient study data, we cannot perform a more thorough analysis to prove beneficial screening parameters for PLT, APTT, PT and D-D for prediction of severity of COVID-19. However, we suggest that clinical practitioners pay attention to the changes in coagulation function in COVID-19 patients on a daily basis.
- Discussion
67
- 10.7326/m20-1550
- May 12, 2020
- Annals of Internal Medicine
Pharmacokinetics of Lopinavir and Ritonavir in Patients Hospitalized With Coronavirus Disease 2019 (COVID-19).
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19
- 10.1053/j.gastro.2021.09.009
- Sep 8, 2021
- Gastroenterology
Targeting the Gut Microbiota in Coronavirus Disease 2019: Hype or Hope?
- Discussion
12
- 10.1111/ijlh.13290
- Jul 13, 2020
- International Journal of Laboratory Hematology
Analysis of hematological indexes of COVID-19 patients from fever clinics in Suzhou, China.
- Front Matter
95
- 10.1016/j.bja.2020.09.045
- Oct 21, 2020
- British Journal of Anaesthesia
The ‘third wave’: impending cognitive and functional decline in COVID-19 survivors
- Research Article
106
- 10.1016/j.jaip.2020.05.006
- May 14, 2020
- The Journal of Allergy and Clinical Immunology: In Practice
Asthma prolongs intubation in COVID-19
- Front Matter
18
- 10.1053/j.jvca.2021.01.014
- Jan 15, 2021
- Journal of Cardiothoracic and Vascular Anesthesia
The Right Ventricle in COVID-19 Lung Injury: Proposed Mechanisms, Management, and Research Gaps
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