| Literature DB >> 35982218 |
Manfred Musigmann1, Burak Han Akkurt1, Hermann Krähling1, Benjamin Brokinkel2, Dylan J H A Henssen3, Thomas Sartoretti4,5,6, Nabila Gala Nacul1, Walter Stummer2, Walter Heindel1, Manoj Mannil7.
Abstract
Our aim is to predict possible gross total and subtotal resections of skull meningiomas from pre-treatment T1 post contrast MR-images using radiomics and machine learning in a representative patient cohort. We analyse the accuracy of our model predictions depending on the tumor location within the skull and the postoperative tumor volume. In this retrospective, IRB-approved study, image segmentation of the contrast enhancing parts of the tumor was semi-automatically performed using the 3D Slicer open-source software platform. Imaging data were split into training data and independent test data at random. We extracted a total of 107 radiomic features by hand-delineated regions of interest on T1 post contrast MR images. Feature preselection and model construction were performed with eight different machine learning algorithms. Each model was estimated 100 times on new training data and then tested on a previously unknown, independent test data set to avoid possible overfitting. Our cohort included 138 patients. A gross total resection of the meningioma was performed in 107 cases and a subtotal resection in the remaining 31 cases. Using the training data, the mean area under the curve (AUC), mean accuracy, mean kappa, mean sensitivity and mean specificity were 0.901, 0.875, 0.629, 0.675 and 0.933 respectively. We obtained very similar results with the independent test data: mean AUC = 0.900, mean accuracy = 0.881, mean kappa = 0.644, mean sensitivity = 0.692 and mean specificity = 0.936. Thus, our model exposes good and stable predictive performance with both training and test data. Our radiomics approach shows that with machine learning algorithms and comparatively few explanatory factors such as the location of the tumor within the skull as well as its shape, it is possible to make accurate predictions about whether a meningioma can be completely resected by surgery. Complete resections and resections with larger postoperative tumor volumes can be predicted with very high accuracy. However, cases with very small postoperative tumor volumes are comparatively difficult to predict correctly.Entities:
Mesh:
Year: 2022 PMID: 35982218 PMCID: PMC9388514 DOI: 10.1038/s41598-022-18458-4
Source DB: PubMed Journal: Sci Rep ISSN: 2045-2322 Impact factor: 4.996
Figure 1Meningioma of the skull base (above); semi-automatic segmentation with 3D Slicer (below).
Clinical and demographic characteristics.
| Training | Independent | Total | |
|---|---|---|---|
| Data | Test data | Data | |
| Number of patients | 111 | 27 | 138 |
| GTR | 77.48 | 77.78 | 77.54 |
| STR | 22.52 | 22.22 | 22.46 |
| Mean age (in years) | 58.80 | 59.12 | 58.86 |
| Male | 27.93 | 25.93 | 27.54 |
| Female | 72.07 | 74.07 | 72.46 |
| Convexity | 33.32 | 33.41 | 33.33 |
| Falx | 12.35 | 12.19 | 12.32 |
| Skull base | 46.57 | 45.59 | 46.38 |
| Posterior fossa | 7.77 | 8.81 | 7.97 |
| Irregular | 37.87 | 36.89 | 37.68 |
| Regular | 62.13 | 63.11 | 62.32 |
Figure 2Development and test of a model with 100 repetitions (100 cycles), fixed number of features und a fixed machine learning algorithm used for feature preselection and for the subsequent model estimation.
Most important five features for each of the eight feature preselection methods.
| Feature pre-selection method | Rank of feature importance | ||||
|---|---|---|---|---|---|
| Stepwise logistic | Tumor shape: irregular or regular | Tumor location: convexity | Tumor location: falx | orig.shape.Elongation | fd_vs_re: first diagnose or relapse |
| Lasso | Tumor shape: irregular or regular | Tumor location: skull base | orig.shape.Elongation | fd_vs_re: first diagnose or relapse | Tumor location: posterior fossa |
| Ridge | Tumor shape: irregular or regular | Tumor location: convexity | Tumor location: falx | Tumor location: skull base | orig,shape,Elongation |
| GBM | Tumor shape: irregular or regular | Tumor location: skull base | Tumor location: convexity | orig,glszm.SizeZone NonUniformity | orig,shape,Elongation |
| Random forest | Tumor location: convexity | Tumor location: skull base | orig.glszm.SizeZone NonUniformity | Shape: irregular or regular | fd_vs_re: first diagnose or relapse |
| Bagged trees | Tumor location: skull base | Tumor location: convexity | orig.shape.Sphericity | Shape: irregular or regular | orig.shape.Elongation |
| LDA | Tumor shape: irregular or regular | Tumor location: convexity | Tumor location: skull base | KPI | orig.glszm.Small AreaEmphasis |
| Naive Bayes | Tumor shape: irregular or regular | Tumor location: convexity | Tumor location: skull base | KPI | orig.glszm.Small AreaEmphasis |
Figure 3Pearson correlation matrix for the 10 most frequently selected features.
Figure 4Area Under the Curve (AUC) for the test samples, calculated as means of 100 repetitions (100 cycles).
Figure 5Accuracy and Kappa for the test samples, calculated as means of 100 repetitions (100 cycles).
Figure 6Sensitivity and Specificity for the test samples, calculated as means of 100 repetitions (100 cycles).
Classification results of the logistic regression model with three features for training data and independent test data, calculated as means of 100 repetitions (100 cycles). Values in brackets: 95% confidence interval.
| Training data | Test data | |
|---|---|---|
| AUC | 0.901 [0.879, 0.926] | 0.900 [0.786, 0.976] |
| Accuracy | 0.875 [0.856, 0.896] | 0.881 [0.778, 0.963] |
| Kappa | 0.629 [0.562, 0.692] | 0.644 [0.348, 0.899] |
| Sensitivity | 0.675 [0.600, 0.760] | 0.692 [0.333, 1.000] |
| Specificity | 0.933 [0.919, 0.953] | 0.936 [0.857, 1.000] |
Usual clinical outcomes and prediction error rates (using the test samples) for the stepwise logistic regression model with three features.
| Tumor location | Usual clinical outcome | Prediction error rate | ||
|---|---|---|---|---|
| Shape: irregular | Shape: regular | Shape: irregular | Shape: regular | |
| Convexity | GTR | GTR | 0.00% | 0.00% |
| Falx | GTR | GTR | 2.48% | 0.00% |
| Skull base | STR | GTR | 24.25% | 21.55% |
| Posterior fossa | STR | GTR | 22.32% | 11.90% |
Figure 7Classification results of the logistic regression model with three features for the STR cases, calculated with the test samples.