Skip to main content

ORIGINAL RESEARCH article

Front. Med.
Sec. Intensive Care Medicine and Anesthesiology
Volume 11 - 2024 | doi: 10.3389/fmed.2024.1400166
This article is part of the Research Topic Clinical Application of Artificial Intelligence in Emergency and Critical Care Medicine, Volume V View all 4 articles

The application of metagenomics, radiomics and machine learning for diagnosis of sepsis

Provisionally accepted
Xiefei Hu Xiefei Hu 1,2Shenshen Zhi Shenshen Zhi 2,3Wenyan Wu Wenyan Wu 1,2Yang Tao Yang Tao 1,4Yuanyuan Zhang Yuanyuan Zhang 1,2Lijuan Li Lijuan Li 1,2Xun Li Xun Li 1,2Liyan Pan Liyan Pan 1,2Haiping Fan Haiping Fan 1,2Wei Li Wei Li 1,2*
  • 1 Clinical Laboratory, Chongqing University Central Hospital, School of Medicine, Chongqing University, Chongqing, China
  • 2 Chongqing Key Laboratory of Emergency Medicine, Chongqing Emergency Medical Center, Chongqing, China
  • 3 Department of Blood Transfusion, Chongqing University Central Hospital, School of medicine, Chongqing University, Chongqing, China
  • 4 Intensive Care Unit, Chongqing Emergency Medical Center, Chongqing University Central Hospital, School of Medicine, Chongqing University, Chongqing, China

The final, formatted version of the article will be published soon.

    Sepsis seriously threatens the life and health of individuals. Early and accessible diagnosis and targeted treatment of this condition are of vital importance. This study aimed to sequence blood samples from sepsis patients to explore the relationship between microbes, metabolic pathways, and relevant blood test indicators. Additionally, machine learning algorithms were employed to develop a model based on medical records and radiomic features to aid in the clinical diagnosis of sepsis. The results of α -diversity and β -diversity analyses showed that the microbial diversity of sepsis group was significantly higher than that of normal group (p < 0.05). The top 10 microbial abundances in the sepsis and normal groups were Vitis vinifera, Mycobacterium canettii, Solanum pennellii, Ralstonia insidiosa, Ananas comosus, Moraxella osloensis, Escherichia coli, Staphylococcus hominis, Camelina sativa, and Cutibacterium acnes. The enriched metabolic pathways mainly included Protein families: genetic information processing, Translation, Protein families: signaling and cellular processes, and Unclassified: genetic information processing. The correlation analysis revealed a significant positive correlation (p < 0.05) between IL-6 and Membrane transport. Metabolism of other amino acids showed a significant positive correlation (p < 0.05) with Cutibacterium acnes, Ralstonia insidiosa, Moraxella osloensis, and Staphylococcus hominis. Ananas comosus showed a significant positive correlation (p < 0.05) with Poorly characterized and Unclassified: metabolism. Blood test-related indicators showed a significant negative correlation (p < 0.05) with microorganisms. Logistic regression (LR) was used as the optimal model in six machine learning models based on medical records and radiomic features. The nomogram, calibration curves, and AUC values demonstrated that LR performed best for prediction.

    Keywords: Sepsis, Metagenomics, Blood test indicators, Radiomics, machine learning

    Received: 13 Mar 2024; Accepted: 09 Sep 2024.

    Copyright: © 2024 Hu, Zhi, Wu, Tao, Zhang, Li, Li, Pan, Fan and Li. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

    * Correspondence: Wei Li, Clinical Laboratory, Chongqing University Central Hospital, School of Medicine, Chongqing University, Chongqing, China

    Disclaimer: All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.