Dataset Information

Genetic prediction of ICU hospitalization and mortality in COVID-19 patients using artificial neural networks.

ABSTRACT: There is an unmet need of models for early prediction of morbidity and mortality of Coronavirus disease-19 (COVID-19). We aimed to a) identify complement-related genetic variants associated with the clinical outcomes of ICU hospitalization and death, b) develop an artificial neural network (ANN) predicting these outcomes and c) validate whether complement-related variants are associated with an impaired complement phenotype. We prospectively recruited consecutive adult patients of Caucasian origin, hospitalized due to COVID-19. Through targeted next-generation sequencing, we identified variants in complement factor H/CFH, CFB, CFH-related, CFD, CD55, C3, C5, CFI, CD46, thrombomodulin/THBD, and A Disintegrin and Metalloproteinase with Thrombospondin motifs (ADAMTS13). Among 381 variants in 133 patients, we identified 5 critical variants associated with severe COVID-19: rs2547438 (C3), rs2250656 (C3), rs1042580 (THBD), rs800292 (CFH) and rs414628 (CFHR1). Using age, gender and presence or absence of each variant, we developed an ANN predicting morbidity and mortality in 89.47% of the examined population. Furthermore, THBD and C3a levels were significantly increased in severe COVID-19 patients and those harbouring relevant variants. Thus, we reveal for the first time an ANN accurately predicting ICU hospitalization and death in COVID-19 patients, based on genetic variants in complement genes, age and gender. Importantly, we confirm that genetic dysregulation is associated with impaired complement phenotype.

SUBMITTER: Asteris PG

PROVIDER: S-EPMC8899198 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Genetic prediction of ICU hospitalization and mortality in COVID-19 patients using artificial neural networks.

Asteris Panagiotis G PG Gavriilaki Eleni E Touloumenidou Tasoula T Koravou Evaggelia-Evdoxia EE Koutra Maria M Papayanni Penelope Georgia PG Pouleres Alexandros A Karali Vassiliki V Lemonis Minas E ME Mamou Anna A Skentou Athanasia D AD Papalexandri Apostolia A Varelas Christos C Chatzopoulou Fani F Chatzidimitriou Maria M Chatzidimitriou Dimitrios D Veleni Anastasia A Rapti Evdoxia E Kioumis Ioannis I Kaimakamis Evaggelos E Bitzani Milly M Boumpas Dimitrios D Tsantes Argyris A Sotiropoulos Damianos D Papadopoulou Anastasia A Kalantzis Ioannis G IG Vallianatou Lydia A LA Armaghani Danial J DJ Cavaleri Liborio L Gandomi Amir H AH Hajihassani Mohsen M Hasanipanah Mahdi M Koopialipoor Mohammadreza M Lourenço Paulo B PB Samui Pijush P Zhou Jian J Sakellari Ioanna I Valsami Serena S Politou Marianna M Kokoris Styliani S Anagnostopoulos Achilles A

Journal of cellular and molecular medicine 20220122 5

There is an unmet need of models for early prediction of morbidity and mortality of Coronavirus disease-19 (COVID-19). We aimed to a) identify complement-related genetic variants associated with the clinical outcomes of ICU hospitalization and death, b) develop an artificial neural network (ANN) predicting these outcomes and c) validate whether complement-related variants are associated with an impaired complement phenotype. We prospectively recruited consecutive adult patients of Caucasian orig ...[more]

PMID: 35064759

Similar Datasets

Project description:Background Since the beginning of coronavirus disease 2019 (COVID-19), the development of predictive models has sparked relevant interest due to the initial lack of knowledge about diagnosis, treatment, and prognosis. The present study aimed at developing a model, through a machine learning approach, to predict intensive care unit (ICU) mortality in COVID-19 patients based on predefined clinical parameters. Results Observational multicenter cohort study. All COVID-19 adult patients admitted to 25 ICUs belonging to the VENETO ICU network (February 28th 2020-april 4th 2021) were enrolled. Patients admitted to the ICUs before 4th March 2021 were used for model training (“training set”), while patients admitted after the 5th of March 2021 were used for external validation (“test set 1”). A further group of patients (“test set 2”), admitted to the ICU of IRCCS Ca’ Granda Ospedale Maggiore Policlinico of Milan, was used for external validation. A SuperLearner machine learning algorithm was applied for model development, and both internal and external validation was performed. Clinical variables available for the model were (i) age, gender, sequential organ failure assessment score, Charlson Comorbidity Index score (not adjusted for age), Palliative Performance Score; (ii) need of invasive mechanical ventilation, non-invasive mechanical ventilation, O2 therapy, vasoactive agents, extracorporeal membrane oxygenation, continuous venous-venous hemofiltration, tracheostomy, re-intubation, prone position during ICU stay; and (iii) re-admission in ICU. One thousand two hundred ninety-three (80%) patients were included in the “training set”, while 124 (8%) and 199 (12%) patients were included in the “test set 1” and “test set 2,” respectively. Three different predictive models were developed. Each model included different sets of clinical variables. The three models showed similar predictive performances, with a training balanced accuracy that ranged between 0.72 and 0.90, while the cross-validation performance ranged from 0.75 to 0.85. Age was the leading predictor for all the considered models. Conclusions Our study provides a useful and reliable tool, through a machine learning approach, for predicting ICU mortality in COVID-19 patients. In all the estimated models, age was the variable showing the most important impact on mortality. Supplementary Information The online version contains supplementary material available at 10.1186/s44158-021-00002-x.

Project description:AimTo perform a systematic review on the use of Artificial Intelligence (AI) techniques for predicting COVID-19 hospitalization and mortality using primary and secondary data sources.Study eligibility criteriaCohort, clinical trials, meta-analyses, and observational studies investigating COVID-19 hospitalization or mortality using artificial intelligence techniques were eligible. Articles without a full text available in the English language were excluded.Data sourcesArticles recorded in Ovid MEDLINE from 01/01/2019 to 22/08/2022 were screened.Data extractionWe extracted information on data sources, AI models, and epidemiological aspects of retrieved studies.Bias assessmentA bias assessment of AI models was done using PROBAST.ParticipantsPatients tested positive for COVID-19.ResultsWe included 39 studies related to AI-based prediction of hospitalization and death related to COVID-19. The articles were published in the period 2019-2022, and mostly used Random Forest as the model with the best performance. AI models were trained using cohorts of individuals sampled from populations of European and non-European countries, mostly with cohort sample size <5,000. Data collection generally included information on demographics, clinical records, laboratory results, and pharmacological treatments (i.e., high-dimensional datasets). In most studies, the models were internally validated with cross-validation, but the majority of studies lacked external validation and calibration. Covariates were not prioritized using ensemble approaches in most of the studies, however, models still showed moderately good performances with Area under the Receiver operating characteristic Curve (AUC) values >0.7. According to the assessment with PROBAST, all models had a high risk of bias and/or concern regarding applicability.ConclusionsA broad range of AI techniques have been used to predict COVID-19 hospitalization and mortality. The studies reported good prediction performance of AI models, however, high risk of bias and/or concern regarding applicability were detected.

Dataset Information

Genetic prediction of ICU hospitalization and mortality in COVID-19 patients using artificial neural networks.

Publications

Genetic prediction of ICU hospitalization and mortality in COVID-19 patients using artificial neural networks.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets