| Literature DB >> 31461884 |
Ming-Jer Jeng1,2, Mukta Sharma1, Lokesh Sharma3, Ting-Yu Chao1, Shiang-Fu Huang4,5, Liann-Be Chang6,7, Shih-Lin Wu3,8,9, Lee Chow10.
Abstract
Raman spectroscopy (RS) is widely used as a non-invasive technique in screening for the diagnosis of oral cancer. The potential of this optical technique for several biomedical applications has been proved. This work studies the efficacy of RS in detecting oral cancer using sub-site-wise differentiation. A total of 80 samples (44 tumor and 36 normal) were cryopreserved from three different sub-sites: The tongue, the buccal mucosa, and the gingiva of the oral mucosa during surgery. Linear discriminant analysis (LDA) and quadratic discriminant analysis (QDA) were used with principal component analysis (PCA) to classify the samples and the classifications were validated by leave-one-out-cross-validation (LOOCV) and k-fold cross-validation methods. The normal and tumor tissues were differentiated under the PCA-LDA model with an accuracy of 81.25% (sensitivity: 77.27%, specificity: 86.11%). The PCA-QDA classifier model differentiated these tissues with an accuracy of 87.5% (sensitivity: 90.90%, specificity: 83.33%). The PCA-QDA classifier model outperformed the PCA-LDA-based classifier. The model studies revealed that protein, amino acid, and beta-carotene variations are the main biomolecular difference markers for detecting oral cancer.Entities:
Keywords: PCA-LDA; PCA-QDA; Raman spectroscopy; cryopreserved tissue; oral cancer
Year: 2019 PMID: 31461884 PMCID: PMC6780219 DOI: 10.3390/jcm8091313
Source DB: PubMed Journal: J Clin Med ISSN: 2077-0383 Impact factor: 4.241
Description of all tested cryopreserved tissue samples under Raman spectroscopy.
| Sub-Sites | Tongue | Buccal Mucosa | Gingiva | Total |
|---|---|---|---|---|
| Tumor | 13 | 19 | 12 | 44 |
| Normal | 11 | 14 | 11 | 36 |
Figure 1Mean spectra of oral normal and tumor cryopreserved tissues.
Figure 2Mean spectra of: (a) Buccal mucosa, (b) gingiva, and (c) tongue.
Confusion and performance tables for point-wise approach.
| Dataset | Confusion Table | Performance Parameters | ||||
|---|---|---|---|---|---|---|
|
| Tumor | Normal | Total | Accuracy (%) | Sensitivity (%) | Specificity (%) |
| Tumor | 177 | 43 | 220 | 74.50 | 80.45 | 67.22 |
| Normal | 59 | 121 | 180 | |||
|
| Tumor | Normal | Total | Accuracy (%) | Sensitivity (%) | Specificity (%) |
| Tumor | 184 | 36 | 220 | 81.75 | 83.63 | 79.44 |
| Normal | 37 | 143 | 180 | |||
Figure 3Point-wise 3D decision boundary curve for (a) PCA-LDA and (b) PCA- QDA classifier model.
Confusion and performance tables for patient-wise approach.
| Dataset | Confusion Table | Performance Parameters | ||||
|---|---|---|---|---|---|---|
|
| Tumor | Normal | Total | Accuracy (%) | Sensitivity (%) | Specificity (%) |
| Tumor | 34 | 10 | 44 | 81.25 | 77.27 | 86.11 |
| Normal | 5 | 31 | 36 | |||
|
| Tumor | Normal | Total | Accuracy (%) | Sensitivity (%) | Specificity (%) |
| Tumor | 40 | 4 | 44 | 87.50 | 90.90 | 83.33 |
| Normal | 6 | 30 | 36 | |||
Figure 4Patient-wise 3D decision boundary curve for (a) PCA-LDA and (b) PCA-QDA classifier model.
Performance table of patient-wise tongue analysis.
| Patient-Wise: Tongue | Accuracy (%) | Sensitivity (%) | Specificity (%) |
|---|---|---|---|
| PCA-LDA | 79.16 | 92.30 | 63.63 |
| PCA-QDA | 87.50 | 100.00 | 72.72 |
Figure 5Tongue patient-wise 3D decision boundary curve for (a) PCA-LDA and (b) PCA-QDA classifier model.
Performance table of patient-wise buccal mucosa analysis.
| Patient-Wise: Buccal | Accuracy (%) | Sensitivity (%) | Specificity (%) |
|---|---|---|---|
| PCA-LDA | 84.84 | 78.94 | 92.85 |
| PCA-QDA | 87.87 | 84.21 | 92.85 |
Figure 6Buccal mucosa patient-wise 3D decision boundary curve for (a) PCA-LDA and (b) PCA-QDA classifier model.
Performance table of patient-wise gingiva analysis.
| Patient-Wise: Gingiva | Accuracy (%) | Sensitivity (%) | Specificity (%) |
|---|---|---|---|
| PCA-LDA | 91.30 | 91.66 | 90.90 |
| PCA-QDA | 87.12 | 75.00 | 100.00 |
Figure 7Gingiva patient-wise 3D decision boundary curve for (a) PCA-LDA and (b) PCA-QDA classifier model.
Error Rate of PCA-LDA, PCA-QDA, and validation methods for normal versus tumor.
| Error Rate | PCA-LDA (%) | PCA-QDA (%) | Validation: K-fold (%) | Validation: LOOCV (%) |
|---|---|---|---|---|
| Point-wise | 25.50 | 16.27 | 18.25 | 17.00 |
| Patient-wise | 18.75 | 12.50 | 16.25 | 11.25 |
Error Rate of PCA-LDA, PCA-QDA, and validation methods for each sub-site.
| Error Rate | PCA-LDA (%) | PCA-QDA (%) | Validation: K-fold (%) | Validation: LOOCV (%) |
|---|---|---|---|---|
| Tongue | 20.83 | 12.50 | 16.67 | 16.67 |
| Buccal | 15.16 | 12.13 | 18.18 | 21.21 |
| Gingiva | 8.60 | 12.88 | 13.04 | 19.04 |