Selecting radiomic features from FDG-PET images for cancer treatment outcome prediction

As a vital task in cancer therapy, accurately predicting the treatment outcome is valuable for tailoring and adapting a treatment planning. To this end, multi-sources of information (radiomics, clinical characteristics, genomic expressions, etc) gathered before and during treatment are potentially profitable. In this paper, we propose such a prediction system primarily using radiomic features (e.g., texture features) extracted from FDG-PET images. The proposed system includes a feature selection method based on Dempster-Shafer theory, a powerful tool to deal with uncertain and imprecise information. It aims to improve the prediction accuracy, and reduce the imprecision and overlaps between different classes (treatment outcomes) in a selected feature subspace. Considering that training samples are often small-sized and imbalanced in our applications, a data balancing procedure and specified prior knowledge are taken into account to improve the reliability of the selected feature subsets. Finally, the Evidential K-NN (EK-NN) classifier is used with selected features to output prediction results. Our prediction system has been evaluated by synthetic and clinical datasets, consistently showing good performance.

[1]  Issam El-Naqa,et al.  Exploring feature-based approaches in PET images for predicting cancer treatment outcomes , 2009, Pattern Recognit..

[2]  Jason Weston,et al.  Gene Selection for Cancer Classification using Support Vector Machines , 2002, Machine Learning.

[3]  L. Thiberville,et al.  Areas of High 18F-FDG Uptake on Preradiotherapy PET/CT Identify Preferential Sites of Local Relapse After Chemoradiotherapy for Non–Small Cell Lung Cancer , 2015, The Journal of Nuclear Medicine.

[4]  Jesús Angulo,et al.  Advanced Statistical Matrices for Texture Characterization: Application to Cell Classification , 2014, IEEE Transactions on Biomedical Engineering.

[5]  Jean Dezert,et al.  Credal c-means clustering method based on belief functions , 2015, Knowl. Based Syst..

[6]  Kusum Deep,et al.  A real coded genetic algorithm for solving integer and mixed integer optimization problems , 2009, Appl. Math. Comput..

[7]  Thierry Denoeux,et al.  A k-nearest neighbor classification rule based on Dempster-Shafer theory , 1995, IEEE Trans. Syst. Man Cybern..

[8]  R. Yager On the dempster-shafer framework and new combination rules , 1987, Inf. Sci..

[9]  Jana Novovicová,et al.  Evaluating Stability and Comparing Output of Feature Selectors that Optimize Feature Subset Cardinality , 2010, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[10]  Hongwei Zhu,et al.  An adaptive fuzzy evidential nearest neighbor formulation for classifying remote sensing images , 2005, IEEE Transactions on Geoscience and Remote Sensing.

[11]  Thierry Denoeux,et al.  An evidential classifier based on feature selection and two-step classification strategy , 2015, Pattern Recognit..

[12]  Thierry Denoeux,et al.  Fusion of multi-tracer PET images for dose painting , 2014, Medical Image Anal..

[13]  Shan Tan,et al.  Spatial-temporal [¹⁸F]FDG-PET features for predicting pathologic response of esophageal cancer to neoadjuvant chemoradiation therapy. , 2013, International journal of radiation oncology, biology, physics.

[14]  Glenn Shafer,et al.  A Mathematical Theory of Evidence , 2020, A Mathematical Theory of Evidence.

[15]  Thierry Denoeux,et al.  ECM: An evidential version of the fuzzy c , 2008, Pattern Recognit..

[16]  Josef Kittler,et al.  Floating search methods in feature selection , 1994, Pattern Recognit. Lett..

[17]  Vicky Goh,et al.  Radiomics in PET: principles and applications , 2014, Clinical and Translational Imaging.

[18]  Guido Gerig,et al.  A brain tumor segmentation framework based on outlier detection , 2004, Medical Image Anal..

[19]  Thierry Denoeux A k -Nearest Neighbor Classification Rule Based on Dempster-Shafer Theory , 2008, Classic Works of the Dempster-Shafer Theory of Belief Functions.

[20]  Haibo He,et al.  Learning from Imbalanced Data , 2009, IEEE Transactions on Knowledge and Data Engineering.

[21]  Philippe Bertrand,et al.  Interim positron emission tomography scan associated with international prognostic index and germinal center B cell-like signature as prognostic index in diffuse large B-cell lymphoma , 2012, Leukemia & lymphoma.

[22]  Bram van Ginneken,et al.  A large-scale evaluation of automatic pulmonary nodule detection in chest CT using local image features and k-nearest-neighbour classification , 2009, Medical Image Anal..

[23]  Alessandro Saffiotti,et al.  The Transferable Belief Model , 1991, ECSQARU.

[24]  Frank J. Brooks,et al.  Tracer Uptake The Effect of Small Tumor Volumes on Studies of Intratumoral Heterogeneity of , 2013 .

[25]  M. Hatt,et al.  Intratumor Heterogeneity Characterized by Textural Features on Baseline 18F-FDG PET Images Predicts Response to Concomitant Radiochemotherapy in Esophageal Cancer , 2011, The Journal of Nuclear Medicine.

[26]  Nan Zhang,et al.  Kernel feature selection to fuse multi-spectral MRI images for brain tumor segmentation , 2011, Comput. Vis. Image Underst..

[27]  Philippe Smets,et al.  Classification Using Belief Functions: Relationship Between Case-Based and Model-Based Approaches , 2006, IEEE Transactions on Systems, Man, and Cybernetics, Part B (Cybernetics).

[28]  Su Ruan,et al.  Robust feature selection to predict tumor treatment outcome , 2014, Artif. Intell. Medicine.

[29]  Huijing Zhao,et al.  Multimodal information fusion for urban scene understanding , 2016, Machine Vision and Applications.

[30]  Isabelle Guyon,et al.  An Introduction to Variable and Feature Selection , 2003, J. Mach. Learn. Res..

[31]  Larry A. Rendell,et al.  The Feature Selection Problem: Traditional Methods and a New Algorithm , 1992, AAAI.

[32]  Dinggang Shen,et al.  Sampling the spatial patterns of cancer: Optimized biopsy procedures for estimating prostate cancer volume and Gleason Score , 2009, Medical Image Anal..

[33]  Fan Wang,et al.  Post-aggregation stereo matching method using Dempster-Shafer theory , 2014, 2014 IEEE International Conference on Image Processing (ICIP).

[34]  Thierry Denoeux,et al.  An evidence-theoretic k-NN rule with parameter optimization , 1998, IEEE Trans. Syst. Man Cybern. Part C.

[35]  Isabelle Bloch,et al.  Some aspects of Dempster-Shafer evidence theory for classification of multi-modality medical images taking partial volume effect into account , 1996, Pattern Recognit. Lett..

[36]  Nitesh V. Chawla,et al.  SMOTE: Synthetic Minority Over-sampling Technique , 2002, J. Artif. Intell. Res..

[37]  Xue-wen Chen,et al.  FAST: a roc-based feature selection metric for small samples and imbalanced data classification problems , 2008, KDD.

[38]  Andrea Rockall,et al.  Functional Imaging to Predict Tumor Response in Locally Advanced Cervical Cancer , 2013, Current Oncology Reports.

[39]  Pierre Michel,et al.  Pretreatment metabolic tumour volume is predictive of disease-free survival and overall survival in patients with oesophageal squamous cell carcinoma , 2014, European Journal of Nuclear Medicine and Molecular Imaging.

[40]  Olivier Colot,et al.  Introducing spatial neighbourhood in Evidential C-Means for segmentation of multi-source images: Application to prostate multi-parametric MRI , 2014, Inf. Fusion.

[41]  Nikos Paragios,et al.  DRAMMS: Deformable registration via attribute matching and mutual-saliency weighting. , 2011, Medical image analysis.

[42]  Lixu Gu,et al.  A homotopy-based sparse representation for fast and accurate shape prior modeling in liver surgical planning , 2015, Medical Image Anal..

[43]  Lei Wang,et al.  Feature Selection with Kernel Class Separability , 2008, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[44]  R. Tibshirani,et al.  Improvements on Cross-Validation: The 632+ Bootstrap Method , 1997 .

[45]  Thierry Denoeux,et al.  Outcome prediction in tumour therapy based on Dempster-Shafer theory , 2015, 2015 IEEE 12th International Symposium on Biomedical Imaging (ISBI).

[46]  P. Lambin,et al.  Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach , 2014, Nature Communications.