Identifying the critical state of cancers by single-sample Markov flow entropy

PeerJ

article

Juntan Liu¹  Yuan Tao¹  Ruoqi Lan¹  Jiayuan Zhong¹  Rui Liu¹  Pei Chen¹ 

[1] School of Mathematics, South China University of Technology, Guangzhou, Guangdong Province;School of Mathematics and Big Data, Foshan University;Pazhou Lab, Guangzhou, Guangdong Province

关键词: Critical state;    Single-sample Markov flow entropy (sMFE);    Critical transition;    Dynamic network biomarker (DNB);    Prognostic biomarker;   

DOI  :  10.7717/peerj.15695

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

Background The progression of complex diseases sometimes undergoes a drastic critical transition, at which the biological system abruptly shifts from a relatively healthy state (before-transition stage) to a disease state (after-transition stage). Searching for such a critical transition or critical state is crucial to provide timely and effective scientific treatment to patients. However, in most conditions where only a small sample size of clinical data is available, resulting in failure when detecting the critical states of complex diseases, particularly only single-sample data. Methods In this study, different from traditional methods that require multiple samples at each time, a model-free computational method, single-sample Markov flow entropy (sMFE), provides a solution to the identification problem of critical states/pre-disease states of complex diseases, solely based on a single-sample. Our proposed method was employed to characterize the dynamic changes of complex diseases from the perspective of network entropy. Results The proposed approach was verified by unmistakably identifying the critical state just before the occurrence of disease deterioration for four tumor datasets from The Cancer Genome Atlas (TCGA) database. In addition, two new prognostic biomarkers, optimistic sMFE (O-sMFE) and pessimistic sMFE (P-sMFE) biomarkers, were identified by our method and enable the prognosis evaluation of tumors. Conclusions The proposed method has shown its capability to accurately detect pre-disease states of four cancers and provide two novel prognostic biomarkers, O-sMFE and P-sMFE biomarkers, to facilitate the personalized prognosis of patients. This is a remarkable achievement that could have a major impact on the diagnosis and treatment of complex diseases.

【 授权许可】

CC BY