Identification of Cell Markers and Their Expression Patterns in Skin Based on Single-Cell RNA-Sequencing Profiles
Abstract
:1. Introduction
2. Materials and Methods
2.1. Single-Cell RNA-Sequencing Profiles of Skin Samples
2.2. Feature Selection
2.2.1. Feature Exclusion Based on the Maximum Relevance Criterion
2.2.2. Boruta Feature Filtering
2.2.3. Monte Carlo Feature Selection
2.3. Incremental Feature Selection
2.4. Synthetic Minority Oversampling Technique
2.5. Classification Algorithms
2.5.1. RF
2.5.2. DT
2.6. Performance Measurement
3. Results and Discussion
3.1. Features Selected by Using the Maximum Relevance Criterion, Boruta, and MCFS Methods
3.2. Determination of the Optimal Features by the IFS Method
3.3. Classification Rules Extracted by the Optimal DT Classifier
3.4. Computation Time vs. MCC
3.5. Analysis of Features
3.6. Analysis of the Rules
4. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Classification Algorithm | Number of Features | ACC | MCC |
---|---|---|---|
Random forest | 795 | 0.951 | 0.949 |
Random forest | 225 | 0.932 | 0.931 |
Decision tree | 805 | 0.815 | 0.810 |
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Zhou, X.; Ding, S.; Wang, D.; Chen, L.; Feng, K.; Huang, T.; Li, Z.; Cai, Y. Identification of Cell Markers and Their Expression Patterns in Skin Based on Single-Cell RNA-Sequencing Profiles. Life 2022, 12, 550. https://doi.org/10.3390/life12040550
Zhou X, Ding S, Wang D, Chen L, Feng K, Huang T, Li Z, Cai Y. Identification of Cell Markers and Their Expression Patterns in Skin Based on Single-Cell RNA-Sequencing Profiles. Life. 2022; 12(4):550. https://doi.org/10.3390/life12040550
Chicago/Turabian StyleZhou, Xianchao, Shijian Ding, Deling Wang, Lei Chen, Kaiyan Feng, Tao Huang, Zhandong Li, and Yudong Cai. 2022. "Identification of Cell Markers and Their Expression Patterns in Skin Based on Single-Cell RNA-Sequencing Profiles" Life 12, no. 4: 550. https://doi.org/10.3390/life12040550