Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2024 Jul 4;7(3):ooae066.
doi: 10.1093/jamiaopen/ooae066. eCollection 2024 Oct.

phoenix: an R package and Python module for calculating the Phoenix pediatric sepsis score and criteria

Peter E DeWitt  1 , Seth Russell  1 , Margaret N Rebull  1 , L Nelson Sanchez-Pinto  2   3 , Tellen D Bennett  1   4
Affiliations

phoenix: an R package and Python module for calculating the Phoenix pediatric sepsis score and criteria

Peter E DeWitt et al. JAMIA Open. .

Abstract

Objectives: The publication of the Phoenix criteria for pediatric sepsis and septic shock initiates a new era in clinical care and research of pediatric sepsis. Tools to consistently and accurately apply the Phoenix criteria to electronic health records (EHRs) is one part of building a robust and internally consistent body of research across multiple research groups and datasets.

Materials and methods: We developed the phoenix R package and Python module to provide researchers with intuitive and simple functions to apply the Phoenix criteria to EHR data.

Results: The phoenix R package and Python module enable researchers to apply the Phoenix criteria to EHR datasets and derive the relevant indicators, total scores, and sub-scores.

Discussion: The transition to the Phoenix criteria marks a major change in the conceptual definition of pediatric sepsis. Applicable across differentially resourced settings, the Phoenix criteria should help improve clinical care and research.

Conclusion: The phoenix R package and Python model are freely available on CRAN, PyPi, and GitHub. These tools enable the consistent and accurate application of the Phoenix criteria to EHR datasets.

Keywords: EHR; computer software; pediatrics; sepsis; septic shock.

PubMed Disclaimer

Conflict of interest statement

None declared.

References

    1. Rudd KE, Johnson SC, Agesa KM, et al.Global, regional, and national sepsis incidence and mortality, 1990–2017: analysis for the global burden of disease study. Lancet. 2020;395(10219):200-211. - PMC - PubMed
    1. Goldstein B, Giroir B, Randolph A, International Consensus Conference on Pediatric Sepsis. International Pediatric Sepsis Consensus Conference: definitions for sepsis and organ dysfunction in pediatrics. Pediatr Crit Care Med. 2005;6(1):2-8. - PubMed
    1. Schlapbach LJ, Watson RS, Sorce LR, Society of Critical Care Medicine Pediatric Sepsis Definition Task Force, et al.International Consensus Criteria for pediatric sepsis and septic shock. JAMA. 2024;331(8):665-674. 10.1001/jama.2024.0179 - DOI - PMC - PubMed
    1. Sanchez-Pinto LN, Bennett TD, DeWitt PE, Society of Critical Care Medicine Pediatric Sepsis Definition Task Force, et al.Development and validation of the Phoenix criteria for pediatric sepsis and septic shock. JAMA. 2024;331(8):675-686. 10.1001/jama.2024.0196 - DOI - PMC - PubMed
    1. Seymour CW, Liu VX, Iwashyna TJ, et al.Assessment of clinical criteria for sepsis: for the Third International Consensus Definitions for sepsis and septic shock (sepsis-3). JAMA. 2016;315(8):762-774. - PMC - PubMed

LinkOut - more resources