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OpenSep: a generalizable open source pipeline for SOFA score calculation and Sepsis-3 classification
Ist Teil von
JAMIA open, 2022-12, Vol.5 (4), p.ooac105-ooac105
Ort / Verlag
United States: Oxford University Press
Erscheinungsjahr
2022
Quelle
EZB Free E-Journals
Beschreibungen/Notizen
EHR-based sepsis research often uses heterogeneous definitions of sepsis leading to poor generalizability and difficulty in comparing studies to each other. We have developed OpenSep, an open-source pipeline for sepsis phenotyping according to the Sepsis-3 definition, as well as determination of time of sepsis onset and SOFA scores. The Minimal Sepsis Data Model was developed alongside the pipeline to enable the execution of the pipeline to diverse sources of electronic health record data. The pipeline's accuracy was validated by applying it to the MIMIC-IV version 1.0 data and comparing sepsis onset and SOFA scores to those produced by the pipeline developed by the curators of MIMIC. We demonstrated high reliability between both the sepsis onsets and SOFA scores, however the use of the Minimal Sepsis Data model developed for this work allows our pipeline to be applied to more broadly to data sources beyond MIMIC.