Evidence map›Paper›PMID 27919371›Full record

ArticleInternational journal of medical informatics2017

A machine learning-based framework to identify type 2 diabetes through electronic health records.

Tao Zheng, Wei Xie, Liling Xu, Xiaoying He, Ya Zhang, Mingrong You, Gong Yang, You Chen

Abstract read
In one paragraph

Article in International journal of medical informatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 81 papers, 5 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
81citing papers in PubMed, 5 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

81 citing papers in PubMed, 5 syntheses or guidelines pooled it.

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21 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Tao ZhengInstitute of Image Communication and Networking, Shanghai Jiao Tong University, Shanghai, China; Tongren Hospital Shanghai Jiao Tong University, Shanghai, China.
Wei XieDepartment of Electrical Engineering & Computer Science, Vanderbilt University, Nashville, TN, USA.
Liling XuTongren Hospital Shanghai Jiao Tong University, Shanghai, China.
Xiaoying HeDepartment of Endocrinology, the First Affiliated Hospital of Sun Yat-Sen University, Guangzhou, China.
Ya ZhangInstitute of Image Communication and Networking, Shanghai Jiao Tong University, Shanghai, China.
Mingrong YouDivision of Epidemiology, Vanderbilt University, Nashville, TN, USA.
Gong YangDivision of Epidemiology, Vanderbilt University, Nashville, TN, USA.
You ChenDepartment of Biomedical Informatics, Vanderbilt University, Nashville, TN, USA. Electronic address: you.chen@vanderbilt.edu.

Funding

Learning Patterns of Collaboration to Optimize the Management of Care ProvidersR00LM011933 · NLM · VANDERBILT UNIVERSITY MEDICAL CENTER · PI CHEN, YOU · 2016 to 2018
$738k
NLM NIH HHS R00 LM011933
6 · The paper itself

Abstract

objectiveTo discover diverse genotype-phenotype associations affiliated with Type 2 Diabetes Mellitus (T2DM) via genome-wide association study (GWAS) and phenome-wide association study (PheWAS), more cases (T2DM subjects) and controls (subjects without T2DM) are required to be identified (e.g., via Electronic Health Records (EHR)). However, existing expert based identification algorithms often suffer in a low recall rate and could miss a large number of valuable samples under conservative filtering standards. The goal of this work is to develop a semi-automated framework based on machine learning as a pilot study to liberalize filtering criteria to improve recall rate with a keeping of low false positive rate. MATERIALS AND

methodsWe propose a data informed framework for identifying subjects with and without T2DM from EHR via feature engineering and machine learning. We evaluate and contrast the identification performance of widely-used machine learning models within our framework, including k-Nearest-Neighbors, Naïve Bayes, Decision Tree, Random Forest, Support Vector Machine and Logistic Regression. Our framework was conducted on 300 patient samples (161 cases, 60 controls and 79 unconfirmed subjects), randomly selected from 23,281 diabetes related cohort retrieved from a regional distributed EHR repository ranging from 2012 to 2014.

resultsWe apply top-performing machine learning algorithms on the engineered features. We benchmark and contrast the accuracy, precision, AUC, sensitivity and specificity of classification models against the state-of-the-art expert algorithm for identification of T2DM subjects. Our results indicate that the framework achieved high identification performances (∼0.98 in average AUC), which are much higher than the state-of-the-art algorithm (0.71 in AUC). DISCUSSION: Expert algorithm-based identification of T2DM subjects from EHR is often hampered by the high missing rates due to their conservative selection criteria. Our framework leverages machine learning and feature engineering to loosen such selection criteria to achieve a high identification rate of cases and controls.

conclusionsOur proposed framework demonstrates a more accurate and efficient approach for identifying subjects with and without T2DM from EHR.

Indexed as

Electronic Health RecordsMachine LearningAlgorithmsBayes TheoremDiabetes Mellitus, Type 2Genome-Wide Association StudyHumansLogistic ModelsPilot ProjectsSupport Vector MachineData miningElectronic health recordsFeature engineeringMachine learningType 2 diabetes

Identifiers

PMID27919371
PMCPMC5144921

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.