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README.md

Robust health-score based survival prediction for a neonatal mouse model of polymicrobial sepsis

Byron Brook
Danny Harbeson
Nelly Amenyogbe
Rym Ben-Othman
Tobias R. Kollmann
Radhouane Aniba

Infectious disease and sepsis represent a serious problem in early life. Much of the associated morbidity and mortality is presumed to relate to fundamental differences between neonatal and adult immunity. Mechanistic insight into the way newborns’ immune systems handle infectious threats is lacking; as a result, there has only been limited success in providing effective immunomodulatory interventions to reduce mortality. Given the complexity of the host-pathogen interactions, neonatal mouse models can offer potential avenues providing valuable data. However, the small size of neonatal mice hampers the ability to collect biological samples without sacrificing the animals. Further, the lack of a standardized metric to quantify mouse health increases reliance on correlative biomarkers without a known relationship to ‘clinical’ outcome. To address this bottleneck, we developed a system that allows assessment neonatal mouse health in a readily standardized and quantifiable manner. The resulting health scores require no special equipment or sample collection and can be assigned in less than 20 seconds. Importantly, the health scores are highly predictive of survival.

A classifier constructed from the righting reflex and mobility revealed a positive relationship between bacterial load and survival, demonstrating how this scoring system can be used to bridge the gap between assumed relevance of biomarkers and the clinical outcome of interest. Adoption of this scoring system will not only provide a robust metric to assess health of newborn mice but allow for objective, prospective studies of infectious disease and possible interventions in early life.

This is a repo for the classifier used in the paper

Please Click Here to view the notebook describing the analysis

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