Assessment for Alzheimer’s Disease Advancement Using Classification Models with Rules
Abstract
:1. Introduction
- (1)
- To improve current neuropsychological method performances in terms of dementia detection rate using machine learning;
- (2)
- To identify the few cognitive items that can be symptoms of the advancement of dementia experimentally;
- (3)
- To use a classification algorithm with the ability to provide clinicians with a useful and easy-to-understand knowledge derived from real data related to the dementia stages.
- (1)
- The ability to predict the signs of dementia progression objectively using sets of features and machine learning to analyse the data subjects;
- (2)
- To disseminate a rule-based classification model comprised of rules on the association of the cognitive items to the DSM-5 framework as a toolkit that can be used during prodromal dementia assessment;
- (3)
- To measure the classification accuracy of dementia progression when using models derived from real data subjects by classification algorithms;
- (4)
- To discover a few cognitive items that are signs of dementia progression.
- A.
- How can we derive predictive models from dementia data that are competitive in performance with reference to sensitivity, accuracy and specificity rates?
- B.
- Can a few cognitive items be used as symptoms of dementia progression using machine learning?
2. Literature Review
3. The Algorithm
3.1. Terms
- Data Observation: A collection of features with their values plus a target class value represented as ;
- Training Dataset D: A combination of data observations, each associated with a target class c;
- Feature in D: An attribute that relates to the individual undergoing the screening process of dementia, such as age, gender, visit code, etc. The feature can be categorical (linked with a predefined set of values) or continuous (numeric or decimal);
- Target Class in D: An attribute that represents the progression of dementia stage presented in a multi-class categorical form (0,1,−1). We limit the problem to progression (1) or no progression (0);
- 1-Rule_Item (1-RIk) in D: Is represented as ;
- Support of the RIk, i.e., supp (RIk): Calculated from D as . When Supp (RIk) min_supp_threshold, the RI is considered frequent;
- Minimum Support Threshold: Denoted as min_supp and is employed to differentiate between frequent and infrequent RIs;
- Confidence of the rule_item (RIk), i.e., Conf (RIk): Calculated from D as . When Conf (RIk) ≥ min_conf_threshold, the RI is considered a potential rule;
- Minimum Confidence Threshold: Denoted as min_conf and employed to measure the strength of a rule generated from a RI;
- Potential Rule: Takes the form (I1 ∧ I2 ∧ … ∧ Ik) ⇾ Class;
- Test Dataset: A combination of data observations, each is associated with a true class c.
3.2. Learning Phase
Algorithm 1. The AD-CR Algorithm. |
Input: A classification dataset D, the min-supp and min-conf thresholds Output: Candidate Rule (CR): If-Then interpretable rules
|
3.3. Classification Phase
- It has the best ranking among all other rules in terms of confidence and support values;
- The attribute values in its body are contained within the test data, thus ensuring the similarity of the attributes’ values.
- Only rules with significant frequency and confidence are formed;
- Fewer rules are formed; thus smaller in size models are produced;
- Unlike association rule mining, no rules share data examples, thus reducing the search space of items and potential rules;
- Rules can be associated with some degree of error to minimise overfitting;
- A simple and effective classification method is used in the prediction phase.
4. Data, Features and Pre-Processing
Algorithm 2. Modelling Process of the Data. |
Input: D: a dataset of all patients’ information and visits Output: D’: A dataset with the new target variable ‘Dx Progress’
|
5. Empirical Results and Discussion
5.1. Experimental Settings
- (1)
- The dissimilarities in the learning mechanisms used by these algorithms;
- (2)
- The different types of classifier formats they offer;
- (3)
- Many of these methods have been used in medical-related research;
- (4)
- To assist in obtaining a general conclusion wherein we can compare with the AD-CR algorithms in terms of performance measures.
5.2. Results and Discussion
5.2.1. Feature Assessment
- High-ranked features derived using the scores calculated by the IG method;
- The similarity of features based on feature–feature assessment where a low intercorrelation is preferred.
5.2.2. Classification Assessment
5.2.3. Strengths and Weaknesses
- What are the cognitive features that relate to the progression of AD?
- Why does the output of the screening show no progression or potential progression?
- Why is the patient being screened for AD, MCI, or CN?
- What further assessment can be made based on the outcome?
6. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Reference | Classification Algorithms | Features | Dataset | Medical Assessment Method | Aim |
---|---|---|---|---|---|
[27] | Decision Trees (C4.5), Naïve Bayes, and Logistic Regression | Cognitive items, Functional activities measured by the Instrumental Activities of Daily Living (IADL), and items related to Geriatric Depression Scale (GDS) method | Two datasets: Clinical diagnosis and CDR approved by the Washington State University Institutional Review Board | Clinical Dementia Rating (CDR) and clinical diagnosis | To identify a few clinical indicators to classify individuals as demented, MCI or Cognitively Normal using machine-learning techniques |
[26] | ANN, Decision Tree, and support vector machine (SVM) | Cognitive, functional, and demographic items | CREDOS dataset; data collected by 37 universities in Korea from 2005–2013 | Clinical Dementia Rating-Sum of Boxes (CDR-SB) | To identify clinical measures that can help classify data subjects with dementia levels, if any |
[28] | SVM, Random Forest, Naïve Bayes, and Logistic Regression | Pathological, cognitive, behavioural, and demographic items | Primary care data from NHS Devon (now part of Northern, Eastern and Western Devon Clinical Commissioning Group) | Multiple pathological and behavioural assessments | To implement a system that is able to detect dementia during clinical evaluation |
[24] | SVM, Random Forest, Decision Tree | Biomarkers, cognitive tests’ total scores, and demographic items | Biomarkers Consortium Plasma Proteomics Project RBM multiplex data, and ADNI-Merge common cognitive tests’ scores | MMSE score, cerebrospinal fluid (CSF) and plasma protein features like tau, amyloid-β (Aβ) and phosphorylated tau (p-tau) proteins | To design an affordable dementia diagnosis system using a data-driven process |
[22] | RIPPER, PART, Random Forest and Decision Tree (C4.5) | eCOG cognitive items | ADNI | Everyday Cognition (eCOG) test (patient and informant versions) | Compare rule-based classification on dementia prediction |
[6] | Decision Trees (C4.5), Bayesian Network, and Logistic Regression | ADAS-13 Cognitive items, demographics attributes | ADAS-13 sheet + ADNI | ADAS-13 cognitive test | Assessing cognitive items in the problem of dementia progression using machine learning techniques |
[29] | Decision Trees (C4.5), Bayesian Network, and Logistic Regression | FAQ Functional items, demographics attributes | FAQ sheet + ADNI | FAQ test | Assessing functional elements for dementia progression using a data-driven process with rule-based algorithms and non-rule-based algorithms |
[31] | Decision Tree, Random Forest and the local interpretable model-agnostic explanations (LIME) | Demographic information, medical history, physical examination findings, laboratory results, and imaging studies | OPTIMA (Oxford Project to Investigate Memory and Ageing) dataset | Demographic characteristics, YES/NO questions related to health and well-being, rating scales, medical history, physical examinations, neuropsychological assessments, and performance of cognitive tests | Assisting clinicians in the early identification and diagnosis of dementia by providing useful and accessible machine learning models |
[32] | DS-ANFIS, C4.5, SVM, Random Forest, SGERD, SLAVE2, QuickRules | Demographic, clinical variables | Open Access Series of Imaging Studies (OASIS) repository | Demographic, Mini-Mental State Examination (MMSE), Clinical Dementia Rating (CDR), and Global Deterioration Scale (GDS) | Developing a fuzzy logic-based automated system for the diagnosis of dementia |
Dataset Name | # of Patients before Sampling | # of Data Observations (Visits) | DX Progress—Class Distribution before Data Balancing | DX Progress—Class Distribution after Data Balancing |
---|---|---|---|---|
ADNI-Merge-ADAS-Cog dataset | 1710 | 6330 | Total observations: 6330 ‘0’: 6020 (majority 95%) ‘1’: 310 (5%) | Total observations: 11,943 ‘0’: 6020 (50.40%) ‘1’: 5923 (49.60%) |
Analysis Approach Used | Feature Subset |
---|---|
All Items in ADAS-Cog13 | 1 |
Pearson correlation subset | 2 |
IG subset | 3 |
Criteria Used | Items Description | Subset |
---|---|---|
- | All Cog items | Cog-subset1 |
Remove highly correlated items based on the feature–feature Pearson correlation | COMMAND, CONSTRUCT, DELAYWORD, NAMING, IDEATIONAL, ORIENT, WORDRECOG, RMBRTESTINSTR, SPOKENLG, NUMBERCANCEL | Cog-subset2 |
Feature to class correlation scores of IG method | WORDRECALL, DELAYWORD, WORDRECOG | Cog-subset3 |
Cluster analysis based on the drop score % | WORDRECALL, DELAYWORD, WORDRECOG, ORIENT, COMMAND, WORDFIND | Cog-subset4 |
IG | Feature |
---|---|
Score | |
0.135 | WORDRECALL |
0.084 | DELAYWORD |
0.062 | WORDRECOG |
0.049 | COMMAND |
0.044 | ORIENT |
0.042 | WORDFIND |
0.038 | IDEATIONAL |
0.032 | NAMING |
0.032 | CONSTRUCT |
0.028 | LANGUAGE |
0.025 | SPOKENLG |
0.021 | RMBRTESTINSTR |
0.021 | NUMBERCANCEL |
Including Demographic Features | Excluding Demographic Features | Algorithm | Subset | ||||
---|---|---|---|---|---|---|---|
Specificity% | Sensitivity% | Accuracy% | Specificity% | Sensitivity% | Accuracy% | ||
79.30 | 87.10 | 83.15 | 72.90 | 76.90 | 74.88 | LR | Cog-subset1 (baseline) |
86.40 | 87.70 | 87.03 | 77.80 | 83.60 | 80.64 | MLP | |
76.70 | 88.60 | 82.59 | 70.70 | 77.00 | 73.82 | SMO | |
84.10 | 93.50 | 88.78 | 82.30 | 92.10 | 87.13 | KNN | |
35.18 | 94.50 | 70.54 | 34.30 | 94.40 | 64.07 | NB | |
94.50 | 86.10 | 90.32 | 91.10 | 79.70 | 85.44 | Ridor | |
92.80 | 91.60 | 92.22 | 88.40 | 86.90 | 87.64 | Nnge | |
93.50 | 91.30 | 92.38 | 89.10 | 86.90 | 88.00 | AD-CR | |
87.30 | 93.30 | 90.26 | 72.70 | 69.90 | 71.28 | LR | Cog-subset2 |
86.30 | 87.70 | 86.97 | 77.60 | 76.90 | 77.29 | MLP | |
75.40 | 88.30 | 81.81 | 76.30 | 63.00 | 69.72 | SMO | |
84.30 | 92.90 | 88.52 | 81.50 | 89.80 | 85.64 | KNN | |
48.80 | 93.20 | 70.81 | 33.30 | 93.50 | 63.15 | NB | |
92.10 | 86.70 | 89.41 | 88.50 | 90.20 | 89.32 | Ridor | |
92.50 | 91.80 | 92.16 | 84.70 | 82.60 | 83.68 | Nnge | |
93.00 | 90.80 | 91.90 | 86.60 | 83.80 | 85.21 | AD-CR | |
73.30 | 80.90 | 77.03 | 63.60 | 58.60 | 61.11 | LR | Cog-subset3 |
82.30 | 85.30 | 83.78 | 60.30 | 64.60 | 62.42 | MLP | |
70.30 | 84.20 | 77.20 | 64.90 | 58.90 | 61.96 | SMO | |
86.30 | 91.90 | 89.10 | 76.80 | 88.90 | 82.81 | KNN | |
71.30 | 85.90 | 78.51 | 57.30 | 61.90 | 59.59 | NB | |
94.20 | 82.90 | 88.59 | 81.50 | 77.30 | 79.46 | Ridor | |
92.00 | 91.50 | 91.77 | 77.20 | 76.80 | 77.01 | Nnge | |
92.90 | 89.50 | 91.25 | 77.40 | 83.80 | 80.53 | AD-CR | |
87.60 | 93.10 | 90.35 | 74.80 | 84.10 | 79.40 | LR | Cog-subset4 |
84.20 | 87.80 | 85.97 | 65.90 | 84.20 | 74.10 | MLP | |
73.60 | 88.10 | 80.80 | 69.60 | 66.90 | 68.26 | SMO | |
86.60% | 92.70 | 89.61 | 81.60 | 90.30 | 85.91 | KNN | |
65.00 | 90.50 | 77.63 | 44.80 | 93.20 | 68.78 | NB | |
92.90% | 86.30 | 89.63 | 90.10 | 75.80 | 83.06 | Ridor | |
92.30 | 92.00 | 92.12 | 83.20 | 83.50 | 83.34 | Nnge | |
93.20 | 90.70% | 91.93 | 84.20 | 85.40 | 84.77 | AD-CR |
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Thabtah, F.; Peebles, D. Assessment for Alzheimer’s Disease Advancement Using Classification Models with Rules. Appl. Sci. 2023, 13, 12152. https://doi.org/10.3390/app132212152
Thabtah F, Peebles D. Assessment for Alzheimer’s Disease Advancement Using Classification Models with Rules. Applied Sciences. 2023; 13(22):12152. https://doi.org/10.3390/app132212152
Chicago/Turabian StyleThabtah, Fadi, and David Peebles. 2023. "Assessment for Alzheimer’s Disease Advancement Using Classification Models with Rules" Applied Sciences 13, no. 22: 12152. https://doi.org/10.3390/app132212152
APA StyleThabtah, F., & Peebles, D. (2023). Assessment for Alzheimer’s Disease Advancement Using Classification Models with Rules. Applied Sciences, 13(22), 12152. https://doi.org/10.3390/app132212152