Radiomics as Applied in Precision Medicine

Radiomics can be defined as the extraction and analysis of large amounts of advanced quantitative imaging features with high throughput from medical images obtained with various modalities, including nuclear medicine modalities of Single photon emission computed tomography (SPECT) and Positron emission tomography (PET). We describe it as the process of transferring the medical imaging interpretation knowledge and skill set from humans to machines in a way that they can see more, process more information, and have deeper insights into what the disease is and how it behaves and might respond to therapeutic intervention. Radiomics methods can be applied across various cancers to identify tumor phenotype characteristics in the images that correlate with their likelihood of survival, as well as their association with the underlying driving biology. Identifying this characteristic set of features called tumor signature holds tremendous value in predicting cancer behavior and progression, which in turn has the potential to predict cancer’s response to various therapeutic options (Fig. 3.1). Moreover, we are beginning to see the application of radiomics principles in non-oncologic indications as well, such as cardiovascular disease. In allowing us to have this capacity, radiomics holds the promise of driving the engine of precision medicine. However, there are numerous challenges in the validation methods needed to establish radiomics as a clinically viable solution.

[1]  P. Sharp,et al.  Texture analysis of divers' brains using 99Tcm-HMPAO SPET , 1995, Nuclear medicine communications.

[2]  W. DuMouchel,et al.  Unlocking Clinical Data from Narrative Reports: A Study of Natural Language Processing , 1995, Annals of Internal Medicine.

[3]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[4]  P F Sharp,et al.  Decompression illness in sports divers detected with technetium-99m-HMPAO SPECT and texture analysis. , 1996, Journal of nuclear medicine : official publication, Society of Nuclear Medicine.

[5]  G Hripcsak,et al.  Natural language processing and its future in medicine. , 1999, Academic medicine : journal of the Association of American Medical Colleges.

[6]  Hongfang Liu,et al.  Representing information in patient reports using natural language processing and the extensible markup language. , 1999, Journal of the American Medical Informatics Association : JAMIA.

[7]  John D. Storey A direct approach to false discovery rates , 2002 .

[8]  Y. Benjamini,et al.  Quantitative Trait Loci Analysis Using the False Discovery Rate , 2005, Genetics.

[9]  Gersende Fort,et al.  Classification using partial least squares with penalized logistic regression , 2005, Bioinform..

[10]  F Rakebrandt,et al.  Development and validation of an in vivo analysis tool to identify changes in carotid plaque tissue types in serial 3-D ultrasound scans. , 2003, Ultrasound in medicine & biology.

[11]  Olivier Bodenreider,et al.  Bio-ontologies: current trends and future directions , 2006, Briefings Bioinform..

[12]  Aghini-Lombardi Fabrizio,et al.  Early textural and functional alterations of left ventricular myocardium in mild hypothyroidism. , 2006 .

[13]  G. Madycki,et al.  Carotid plaque texture analysis can predict the incidence of silent brain infarcts among patients undergoing carotid endarterectomy. , 2006, European journal of vascular and endovascular surgery : the official journal of the European Society for Vascular Surgery.

[14]  Donald A Adjeroh,et al.  Texton-based segmentation of retinal vessels. , 2007, Journal of the Optical Society of America. A, Optics, image science, and vision.

[15]  S. Libutti,et al.  Partial-Volume Correction in PET: Validation of an Iterative Postreconstruction Method with Phantom and Patient Data , 2007, Journal of Nuclear Medicine.

[16]  J. Triboulet,et al.  Efficient Tracking of the Heart Using Texture , 2007, 2007 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society.

[17]  Franz Baader,et al.  SNOMED CT's Problem List: Ontologists' and Logicians' Therapy Suggestions , 2007, MedInfo.

[18]  R. Eils,et al.  Systemic spread is an early step in breast cancer. , 2008, Cancer cell.

[19]  Stefan Schulz,et al.  Formal representation of complex SNOMED CT expressions , 2008, BMC Medical Informatics Decis. Mak..

[20]  Omar S. Al-Kadi,et al.  Texture Analysis of Aggressive and Nonaggressive Lung Tumor CE CT Images , 2008, IEEE Transactions on Biomedical Engineering.

[21]  R. Wahl,et al.  From RECIST to PERCIST: Evolving Considerations for PET Response Criteria in Solid Tumors , 2009, Journal of Nuclear Medicine.

[22]  Bethan Psaila,et al.  The metastatic niche: adapting the foreign soil , 2009, Nature Reviews Cancer.

[23]  Aymeric Histace,et al.  Segmentation of Myocardial Boundaries in Tagged Cardiac MRI Using Active Contours: A Gradient-Based Approach Integrating Texture Analysis , 2009, Int. J. Biomed. Imaging.

[24]  Franz Baader,et al.  SNOMED reaching its adolescence: Ontologists' and logicians' health check , 2009, Int. J. Medical Informatics.

[25]  S. Morrison,et al.  Heterogeneity in Cancer: Cancer Stem Cells versus Clonal Evolution , 2009, Cell.

[26]  I. Poon,et al.  Automated radiation targeting in head-and-neck cancer using region-based texture analysis of PET and CT images. , 2009, International journal of radiation oncology, biology, physics.

[27]  Michal Strzelecki,et al.  MaZda - A software package for image texture analysis , 2009, Comput. Methods Programs Biomed..

[28]  Sunghwan Sohn,et al.  Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications , 2010, J. Am. Medical Informatics Assoc..

[29]  R. Jeraj,et al.  Variability of textural features in FDG PET images due to different acquisition modes and reconstruction parameters , 2010, Acta oncologica.

[30]  A. Fenster,et al.  Texture analysis of carotid artery atherosclerosis from three-dimensional ultrasound images. , 2010, Medical physics.

[31]  Kjersti Engan,et al.  Exploratory data analysis of image texture and statistical features on myocardium and infarction areas in cardiac magnetic resonance images , 2010, 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology.

[32]  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.

[33]  Matthew Scotch,et al.  The Yale cTAKES extensions for document classification: architecture and application , 2011, J. Am. Medical Informatics Assoc..

[34]  K. Miles,et al.  Tumour heterogeneity in non-small cell lung carcinoma assessed by CT texture analysis: a potential marker of survival , 2012, European Radiology.

[35]  Arndt Meier,et al.  Application of texture analysis to ventilation SPECT/CT data , 2011, Comput. Medical Imaging Graph..

[36]  Lucila Ohno-Machado,et al.  Natural language processing: an introduction , 2011, J. Am. Medical Informatics Assoc..

[37]  Hernando Ombao,et al.  Penalized least squares regression methods and applications to neuroimaging , 2011, NeuroImage.

[38]  T. Lancet Moving toward precision medicine , 2011, The Lancet.

[39]  Zitong Li,et al.  Overview of LASSO-related penalized regression methods for quantitative trait mapping and genomic selection , 2012, Theoretical and Applied Genetics.

[40]  P. A. Futreal,et al.  Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. , 2012, The New England journal of medicine.

[41]  Vicky Goh,et al.  Quantifying tumour heterogeneity in 18F-FDG PET/CT imaging by texture analysis , 2012, European Journal of Nuclear Medicine and Molecular Imaging.

[42]  Andre Dekker,et al.  Radiomics: the process and the challenges. , 2012, Magnetic resonance imaging.

[43]  Patrick Granton,et al.  Radiomics: extracting more information from medical images using advanced feature analysis. , 2012, European journal of cancer.

[44]  Carole Lartizien,et al.  Computer-Aided Staging of Lymphoma Patients With FDG PET/CT Imaging Based on Textural Information , 2012, IEEE Journal of Biomedical and Health Informatics.

[45]  J. Bradley,et al.  Combined PET/CT image characteristics for radiotherapy tumor response in lung cancer. , 2012, Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology.

[46]  Dimitris Visvikis,et al.  Denoising of PET images by combining wavelets and curvelets for improved preservation of resolution and quantitation , 2013, Medical Image Anal..

[47]  Derek Abbott,et al.  Surface Roughness Detection of Arteries via Texture Analysis of Ultrasound Images for Early Diagnosis of Atherosclerosis , 2013, PloS one.

[48]  Marjan S. Bolouri,et al.  Triple-negative and non-triple-negative invasive breast cancer: association between MR and fluorine 18 fluorodeoxyglucose PET imaging. , 2013, Radiology.

[49]  P. Lambin,et al.  Stability of FDG-PET Radiomics features: An integrated analysis of test-retest and inter-observer variability , 2013, Acta oncologica.

[50]  Vicky Goh,et al.  Are Pretreatment 18F-FDG PET Tumor Textural Features in Non–Small Cell Lung Cancer Associated with Response and Survival After Chemoradiotherapy? , 2013, The Journal of Nuclear Medicine.

[51]  Lucila Ohno-Machado,et al.  Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature , 2013, J. Am. Medical Informatics Assoc..

[52]  D. Mollura,et al.  Predicting Future Morphological Changes of Lesions from Radiotracer Uptake in 18F-FDG-PET Images , 2013, PloS one.

[53]  R. Jain Normalizing tumor microenvironment to treat cancer: bench to bedside to biomarkers. , 2013, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[54]  Yu-Hua Dean Fang,et al.  The promise and limits of PET texture analysis , 2013, Annals of Nuclear Medicine.

[55]  Trygve Eftestøl,et al.  Probability mapping of scarred myocardium using texture and intensity features in CMR images , 2013, Biomedical engineering online.

[56]  D. Quail,et al.  Microenvironmental regulation of tumor progression and metastasis , 2014 .

[57]  Ching-Han Hsu,et al.  Zone-size nonuniformity of 18F-FDG PET regional textural features predicts survival in patients with oropharyngeal cancer , 2014, European Journal of Nuclear Medicine and Molecular Imaging.

[58]  Stefano Bromuri,et al.  Multi-label classification of chronically ill patients with bag of words and supervised dimensionality reduction algorithms , 2014, J. Biomed. Informatics.

[59]  T. Burnouf,et al.  Regulation of Tumor Growth and Metastasis: The Role of Tumor Microenvironment , 2014, Cancer growth and metastasis.

[60]  P. Ellis,et al.  The use of molecular imaging combined with genomic techniques to understand the heterogeneity in cancer metastasis. , 2014, British Journal of Radiology.

[61]  Mathukumalli Vidyasagar,et al.  Machine learning methods in the computational biology of cancer , 2014, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences.

[62]  Georgios Karanikas,et al.  Three-dimensional texture analysis of contrast enhanced CT images for treatment response assessment in Hodgkin lymphoma: comparison with F-18-FDG PET. , 2014, Medical physics.

[63]  Richard A Armstrong,et al.  When to use the Bonferroni correction , 2014, Ophthalmic & physiological optics : the journal of the British College of Ophthalmic Opticians.

[64]  Balaji Ganeshan,et al.  CT signal heterogeneity of abdominal aortic aneurysm as a possible predictive biomarker for expansion. , 2014, Atherosclerosis.

[65]  R. Weinberg,et al.  Tackling the cancer stem cells — what challenges do they pose? , 2014, Nature Reviews Drug Discovery.

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

[67]  F J Martinez-Murcia,et al.  Parametrization of textural patterns in 123I-ioflupane imaging for the automatic detection of Parkinsonism. , 2014, Medical physics.

[68]  Y. Oda,et al.  Eribulin mesylate reduces tumor microenvironment abnormality by vascular remodeling in preclinical human breast cancer models , 2014, Cancer science.

[69]  P. Groenen,et al.  The Current and Future Use of Ridge Regression for Prediction in Quantitative Genetics , 2015, BioMed research international.

[70]  M. Hatt,et al.  18F-FDG PET Uptake Characterization Through Texture Analysis: Investigating the Complementary Nature of Heterogeneity and Functional Tumor Volume in a Multi–Cancer Site Patient Cohort , 2015, The Journal of Nuclear Medicine.

[71]  Ralph A Bundschuh,et al.  Textural features in pre-treatment [F18]-FDG-PET/CT are correlated with risk of local recurrence and disease-specific survival in early stage NSCLC patients receiving primary stereotactic radiation therapy , 2015, Radiation oncology.

[72]  V Goh,et al.  Texture analysis of 125I-A5B7 anti-CEA antibody SPECT differentiates metastatic colorectal cancer model phenotypes and anti-vascular therapy response , 2015, British Journal of Cancer.

[73]  P. Marsden,et al.  False Discovery Rates in PET and CT Studies with Texture Features: A Systematic Review , 2015, PloS one.

[74]  Vicky Goh,et al.  Non-Small Cell Lung Cancer Treated with Erlotinib: Heterogeneity of (18)F-FDG Uptake at PET-Association with Treatment Response and Prognosis. , 2015, Radiology.

[75]  Jie Tian,et al.  Staging of cervical cancer based on tumor heterogeneity characterized by texture features on 18F-FDG PET images , 2015, Physics in medicine and biology.

[76]  Stefan Förster,et al.  Textural analysis of pre-therapeutic [18F]-FET-PET and its correlation with tumor grade and patient survival in high-grade gliomas , 2015, European Journal of Nuclear Medicine and Molecular Imaging.

[77]  Philippe Lambin,et al.  Is there a causal relationship between genetic changes and radiomics-based image features? An in vivo preclinical experiment with doxycycline inducible GADD34 tumor cells. , 2015, Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology.

[78]  Anant Madabhushi,et al.  Radiomics based targeted radiotherapy planning (Rad-TRaP): a computational framework for prostate cancer treatment planning with MRI , 2016, Radiation Oncology.

[79]  A. Carrato,et al.  18F-fluoromisonidazole PET and Activity of Neoadjuvant Nintedanib in Early HER2-Negative Breast Cancer: A Window-of-Opportunity Randomized Trial , 2016, Clinical Cancer Research.

[80]  José Luis Rojo-Álvarez,et al.  Support Vector Feature Selection for Early Detection of Anastomosis Leakage From Bag-of-Words in Electronic Health Records , 2016, IEEE Journal of Biomedical and Health Informatics.

[81]  Ronald Boellaard,et al.  [18F]FDG PET/CT-based response assessment of stage IV non-small cell lung cancer treated with paclitaxel-carboplatin-bevacizumab with or without nitroglycerin patches , 2016, European Journal of Nuclear Medicine and Molecular Imaging.

[82]  A. Rahmim,et al.  Application of texture analysis to DAT SPECT imaging: Relationship to clinical assessments , 2016, NeuroImage: Clinical.

[83]  Jian-Yue Jin,et al.  Personalized Radiation Therapy (PRT) for Lung Cancer. , 2016, Advances in experimental medicine and biology.

[84]  Vicky Goh,et al.  The effects of segmentation algorithms on the measurement of 18F-FDG PET texture parameters in non-small cell lung cancer , 2017, EJNMMI Research.

[85]  Su Ruan,et al.  Predictive value of initial FDG-PET features for treatment response and survival in esophageal cancer patients treated with chemo-radiation therapy using a random forest classifier , 2017, PloS one.

[86]  Christopher Marshall,et al.  Development and validation of a prognostic model incorporating texture analysis derived from standardised segmentation of PET in patients with oesophageal cancer , 2017, European Radiology.

[87]  V. Goh,et al.  The effect of post-injection 18F-FDG PET scanning time on texture analysis of peripheral nerve sheath tumours in neurofibromatosis-1 , 2017, EJNMMI Research.

[88]  C. Haie-meder,et al.  Prediction of cervical cancer recurrence using textural features extracted from 18F-FDG PET images acquired with different scanners , 2017, Oncotarget.

[89]  H. Okazawa,et al.  18F-FDG PET radiomics approaches: comparing and clustering features in cervical cancer , 2017, Annals of Nuclear Medicine.

[90]  N. Paragios,et al.  Promises and challenges for the implementation of computational medical imaging (radiomics) in oncology , 2017, Annals of oncology : official journal of the European Society for Medical Oncology.

[91]  Ganesh Rao,et al.  Identification of Histological Correlates of Overall Survival in Lower Grade Gliomas Using a Bag-of-words Paradigm: A Preliminary Analysis Based on Hematoxylin & Eosin Stained Slides from the Lower Grade Glioma Cohort of The Cancer Genome Atlas , 2017, Journal of pathology informatics.

[92]  Arman Rahmim,et al.  The impact of image reconstruction settings on 18F-FDG PET radiomic features: multi-scanner phantom and patient studies , 2017, European Radiology.

[93]  Issam El Naqa,et al.  Enhancement of multimodality texture-based prediction models via optimization of PET and MR image acquisition protocols: a proof of concept , 2017, Physics in medicine and biology.

[94]  Seunggyun Ha,et al.  Metabolic Radiomics for Pretreatment 18F-FDG PET/CT to Characterize Locally Advanced Breast Cancer: Histopathologic Characteristics, Response to Neoadjuvant Chemotherapy, and Prognosis , 2017, Scientific Reports.