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Data Analysis and Knowledge Discovery  2022, Vol. 6 Issue (1): 134-144    DOI: 10.11925/infotech.2096-3467.2021.0612
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Disease Knowledge Discovery Based on SPO Predications
Cai Miaozhi,Li Xiaoying,Zhao Jiawei,Feng Fengxiang,Ren Huiling()
Institute of Medical Information, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100020, China
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Abstract  

[Objective] This study tries to discover knowledge from the high-level evidence-based literature on diseases indexed by PubMed, aiming to provide reference for clinical diagnosis, treatment, as well as routine prevention and control of diseases. [Methods] We proposed a diseases knowledge discovery model based on SPO predications with the semantic extraction tool SemRep. Then we selected the diabetes-related literature to evaluate this model, and discovered knowledge based on SPO visualization and clinical knowledge. [Results] We obtained 1 258 SPO predications and 16 semantic relationships, which identified diabetes-related genes, common complications, as well as detection and treatment methods. [Limitations] We only examined our model with publicly accessible literature. More research is needed to include knowledge bases and electronic medical records. [Conclusions] The disease knowledge discovery model based on SPO predication could identify the biomedical knowledge from literature, which provides potential research hypotheses and ideas for biomedical researchers.

Key wordsSPO      Diabetes Mellitus      Knowledge Discovery      Knowledge Organization     
Received: 21 June 2021      Published: 22 February 2022
ZTFLH:  G250  
Fund:National Key Research and Development Program of China(2019AAA0104901);National Social Science Fund of China(20BTQ062);China-WHO Biennial Collaborative Projects(GJ2-2021-WHOSO-01)
Corresponding Authors: Ren Huiling,ORCID:0000-0002-1067-408X     E-mail: wangjd@sic.gov.cn

Cite this article:

Cai Miaozhi, Li Xiaoying, Zhao Jiawei, Feng Fengxiang, Ren Huiling. Disease Knowledge Discovery Based on SPO Predications. Data Analysis and Knowledge Discovery, 2022, 6(1): 134-144.

URL:

https://manu44.magtech.com.cn/Jwk_infotech_wk3/EN/10.11925/infotech.2096-3467.2021.0612     OR     https://manu44.magtech.com.cn/Jwk_infotech_wk3/EN/Y2022/V6/I1/134

Diseases Knowledge Discovery Model
SemRep Output Example
类型 语义关系 语义模式示例 三元组示例
诊断治疗 TREATS phsu-TREATS-dsyn Metformin-TREATS-Diabetes Mellitus, Non-Insulin-Dependent
topp-TREATS-dsyn Interventional procedure-TREATS-Diabetes Mellitus, Non-Insulin-
Dependent
horm-TREATS-dsyn Insulin-TREATS-Diabetes Mellitus, Non-Insulin-Dependent
DIAGNOSES diap-DIAGNOSES-dsyn Oral Glucose Tolerance Test-DIAGNOSES-Diabetes
lbpr-DIAGNOSES-dsyn Glucose tolerance test-DIAGNOSES-Gestational Diabetes
PREVENTS dora-PREVENTS-dsyn Exercise-PREVENTS-Gestational Diabetes
phsu-PREVENTS-dsyn Metformin-PREVENTS-Diabetes
相关疾病 PRECEDES dsyn-PRECEDES-dsyn Myocardial Infarction-PRECEDES-Diabetes
COEXISTS_WITH dsyn-COEXISTS_WITH-dsyn Hypoglycemia-COEXISTS_WITH-Diabetes Mellitus, Insulin-Dependent
patf-COEXISTS_WITH-dsyn Insulin Resistance-COEXISTS_WITH-Diabetes Mellitus, Non-Insulin-Dependent
疾病特征 LOCATION_OF bpoc-LOCATION_OF-dsyn Eye-LOCATION_OF-Diabetic macular edema
ISA dsyn-ISA-dsyn Diabetes Mellitus, Non-Insulin-Dependent-ISA-Metabolic Diseases
影响/关联因素 CAUSES dsyn-CAUSES-dsyn Diabetic Nephropathy-CAUSES-Kidney Failure, Chronic
patf-CAUSES-dsyn Insulin Resistance-CAUSES-Diabetes Mellitus, Non-Insulin-Dependent
AFFECTS orch-AFFECTS-dsyn Blood Glucose-AFFECTS-Diabetes Mellitus, Insulin-Dependent
PREDISPOSES dsyn-PREDISPOSES-dsyn Diabetes Mellitus, Non-Insulin-Dependent-PREDISPOSES-
Cardiovascular Diseases
ASSOCIATED_WITH aapp-ASSOCIATED_WITH-dsyn Insulin-ASSOCIATED_WITH-Diabetes Mellitus, Insulin-Dependent
gngm-ASSOCIATED_WITH-dsyn IMPACT gene-ASSOCIATED_WITH-Diabetes Mellitus, Non-Insulin-Dependent
药理作用 AUGMENTS aapp-AUGMENTS-celf Insulin-AUGMENTS-glucose uptake
STIMULATES phsu-STIMULATES-aapp Insulin-STIMULATES-Glucose
INHIBITS phsu-INHIBITS-bacs canagliflozin-INHIBITS-Glucose
DISRUPTS aapp-DISRUPTS-dsyn ranibizumab-DISRUPTS-Diabetic macular edema
INTERACTS_WITH aapp-INTERACTS_WITH-orch CD69 protein, human-INTERACTS_WITH-Blood Glucose
The Semantic Relationship and Semantic Pattern of Diabetes Mellitus SPO
SPO Visualization
类型 S P O 出现频次
基因 SLC5A2 gene ASSOCIATED_WITH Diabetes Mellitus, Non-Insulin-Dependent 5
HSD11B1 wt Allele ASSOCIATED_WITH Diabetes Mellitus, Non-Insulin-Dependent 3
FABP4 gene ASSOCIATED_WITH Insulin Resistance 3
并发症 Hypoglycemia COEXISTS_WITH Diabetes Mellitus, Insulin-Dependent 40
Cardiovascular Diseases COEXISTS_WITH Diabetes Mellitus, Non-Insulin-Dependent 20
Diabetic Nephropathy ISA Complication 18
Diabetic Foot ISA Complication 16
Diabetic Retinopathy ISA Complication 12
检测手段 Body mass index procedure DIAGNOSES Diabetes Mellitus, Non-Insulin-Dependent 13
Oral Glucose Tolerance Test DIAGNOSES Diabetes 13
治疗 Metformin TREATS Diabetes Mellitus, Non-Insulin-Dependent 338
Insulin TREATS Diabetes Mellitus, Non-Insulin-Dependent 202
sitagliptin TREATS Diabetes Mellitus, Non-Insulin-Dependent 130
liraglutide TREATS Diabetes Mellitus, Non-Insulin-Dependent 97
dapagliflozin TREATS Diabetes Mellitus, Non-Insulin-Dependent 67
pioglitazone TREATS Diabetes Mellitus, Non-Insulin-Dependent 66
canagliflozin TREATS Diabetes Mellitus, Non-Insulin-Dependent 61
exenatide TREATS Diabetes Mellitus, Non-Insulin-Dependent 59
empagliflozin TREATS Diabetes Mellitus, Non-Insulin-Dependent 52
Exercise TREATS Diabetes Mellitus, Non-Insulin-Dependent 101
Exercise Training TREATS Diabetes Mellitus, Non-Insulin-Dependent 28
High-Intensity Interval Training TREATS Diabetes Mellitus, Non-Insulin-Dependent 13
Diet, Carbohydrate-Restricted TREATS Diabetes Mellitus, Non-Insulin-Dependent 13
Very low energy diet TREATS Diabetes Mellitus, Non-Insulin-Dependent 13
Diet, High-Protein TREATS Diabetes Mellitus, Non-Insulin-Dependent 5
Diet, Mediterranean TREATS Diabetes Mellitus, Non-Insulin-Dependent 3
diabetes education ISA Self-Management 68
Resistance education TREATS Diabetes Mellitus, Non-Insulin-Dependent 26
Examples of diabetic mellitus SPO
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