A real-time integrated framework to support clinical decision making for covid-19 patients. (April 2022)

• Record Type: Journal Article
• Authors: Murri, Rita; Masciocchi, Carlotta; Lenkowicz, Jacopo; Fantoni, Massimo; Damiani, Andrea; Marchetti, Antonio; Sergi, Paolo Domenico Angelo; Arcuri, Giovanni; Cesario, Alfredo; Patarnello, Stefano; Antonelli, Massimo; Bellantone, Rocco; Bernabei, Roberto; Boccia, Stefania; Calabresi, Paolo; Cambieri, Andrea; Cauda, Roberto; Colosimo, Cesare; Crea, Filippo; De Maria, Ruggero; De Stefano, Valerio; Franceschi, Francesco; Gasbarrini, Antonio; Landolfi, Raffaele; Parolini, Ornella; Richeldi, Luca; Sanguinetti, Maurizio; Urbani, Andrea; Zega, Maurizio; Scambia, Giovanni; Valentini, Vincenzo;
• Is Part Of: Computer methods and programs in biomedicine. Volume 217(2022)
• Publication Date: 2022-04
• Subjects: Medicine -- Computer programs -- Periodicals; Biology -- Computer programs -- Periodicals; Computers -- Periodicals; Medicine -- Periodicals; Médecine -- Logiciels -- Périodiques; Biologie -- Logiciels -- Périodiques; Biology -- Computer programs; Medicine -- Computer programs; Periodicals; Electronic journals; 610.28
• DOI: 10.1016/j.cmpb.2022.106655
• Languages: English
• ISSNs: 0169-2607

Abstract

Highlights: An unexpected rapid spread of SARS-CoV-2, the agent of the coronavirus disease 2019 (COVID-19), had been observed in China since January 2020, which resulted in a worldwide pandemic and a high number of deaths. A real-time acquisition, centralization, and constant update of a COVID-19 Data Mart with information collected in healthcare systems of patients affected by COVID-19, and the availability of user-oriented data visualization tools, is a valuable source of information to support clinical practice and research on the pandemic. A detailed description of the structure and technologies used to construct the COVID-19 Data Mart architecture. Several views are presented to demonstrate how a large hospital had faced the challenge of pandemic emergency by creating a strong retrospective knowledge base, a real-time environment and integrated information dashboard for daily practice and early identification of critical condition at patient level. Abstract: Background: The COVID-19 pandemic affected healthcare systems worldwide. Predictive models developed by Artificial Intelligence (AI) and based on timely, centralized and standardized real world patient data could improve management of COVID-19 to achieve better clinical outcomes. The objectives of this manuscript are to describe the structure and technologies used to construct a COVID-19 Data Mart architecture and to present how a large hospital has tackled the challenge of supporting daily management of COVID-19 pandemic emergency, by creating a strong retrospective knowledge base, a real time environment and integrated information dashboard for daily practice and early identification of critical condition at patient level. This framework is also used as an informative, continuously enriched data lake, which is a base for several on-going predictive studies. Methods: The information technology framework for clinical practice and research was described. It was developed using SAS Institute software analytics tool and SAS® Vyia® environment and Open-Source environment R ® and Python ® for fast prototyping and modeling. The included variables and the source extraction procedures were presented. Results: The Data Mart covers a retrospective cohort of 5528 patients with SARS-CoV-2 infection. People who died were older, had more comorbidities, reported more frequently dyspnea at onset, had higher d -dimer, C-reactive protein and urea nitrogen. The dashboard was developed to support the management of COVID-19 patients at three levels: hospital, single ward and individual care level. Interpretation: The COVID-19 Data Mart based on integration of a large collection of clinical data and an AI-based integrated framework has been developed, based on a set of automated procedures for data mining and retrieval, transformation and integration, and has been embedded in the clinical practice to help managing daily care. Benefits from the availability of a Data Mart include the opportunity to build predictive models with a machine learning approach to identify undescribed clinical phenotypes and to foster hospital networks. A real-time updated dashboard built from the Data Mart may represent a valid tool for a better knowledge of epidemiological and clinical features of COVID-19, especially when multiple waves are observed, as well as for epidemic and pandemic events of the same nature (e. g. with critical clinical conditions leading to severe pulmonary inflammation). Therefore, we believe the approach presented in this paper may find several applications in comparable situations even at region or state levels. Finally, models predicting the course of future waves or new pandemics could largely benefit from network of DataMarts.