Radiogenomic Analysis of F-18-Fluorodeoxyglucose Positron Emission Tomography and Gene Expression Data Elucidates the Epidemiological Complexity of Colorectal Cancer Landscape
| العنوان: | Radiogenomic Analysis of F-18-Fluorodeoxyglucose Positron Emission Tomography and Gene Expression Data Elucidates the Epidemiological Complexity of Colorectal Cancer Landscape |
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| المؤلفون: | Alexandros Pintzas, Sven Klippel, Aristotelis Chatziioannou, Dirk Koczan, Caixia Cheng, Christos Sachpekidis, Vasilis Gregoriou, Stefan Willis, Olga Papadodima, Eleftherios Pilalis, Antonia Dimitrakopoulou-Strauss, Efstathios Iason Vlachavas, Leyun Pan |
| المصدر: | Computational and Structural Biotechnology Journal Computational and Structural Biotechnology Journal, Vol 17, Iss, Pp 177-185 (2019) |
| بيانات النشر: | Research Network of Computational and Structural Biotechnology, 2019. |
| سنة النشر: | 2019 |
| مصطلحات موضوعية: | Multivariate analysis, Colorectal cancer, Radiogenomics, PET, Positron Emission Tomography, FDG, F-18-Fluorodeoxyglucose, Biochemistry, 0302 clinical medicine, Structural Biology, TCGA-COAD, The Cancer Genome Atlas-Colon Adenocarcinoma, GEO, Gene Expression Omnibus, CD44, CD44 Molecule (Indian Blood Group), 0303 health sciences, Translational bioinformatics, medicine.diagnostic_test, Lasso, least absolute shrinkage and selection operator, KIT, Proto-Oncogene Receptor Tyrosine Kinase, Computer Science Applications, Positron emission tomography, 030220 oncology & carcinogenesis, Biotechnology, Research Article, 18F-FDG PET, GSTP1, Glutathione S-Transferase Pi 1, lcsh:Biotechnology, Biophysics, Computational biology, Biology, FD, Fractal Dimension, 03 medical and health sciences, lcsh:TP248.13-248.65, Genetics, medicine, SUV, Standardized Uptake Value, CRC, Colorectal cancer, AUC, Area Under the Curve, PCs, Principal Components, 030304 developmental biology, ROC, Receiver-operator Characteristic curve, GDC, Genomics Data Commons, Microarray analysis techniques, Genetic heterogeneity, ACADM, Acyl-Coenzyme A Dehydrogenase, Dimensionality reduction, Microarray analysis, TCGA, medicine.disease, DE, Differentially Expressed, CCT7, Chaperonin Containing TCP1 Subunit 7, MFA, Multiple Factor Analysis |
| الوصف: | Purpose Transcriptomic profiling has enabled the neater genomic characterization of several cancers, among them colorectal cancer (CRC), through the derivation of genes with enhanced causal role and informative gene sets. However, the identification of small-sized gene signatures, which can serve as potential biomarkers in CRC, remains challenging, mainly due to the great genetic heterogeneity of the disease. Methods We developed and exploited an analytical framework for the integrative analysis of CRC datasets, encompassing transcriptomic data and positron emission tomography (PET) measurements. Profiling data comprised two microarray datasets, pertaining biopsy specimen from 30 untreated patients with primary CRC, coupled by their F-18-Fluorodeoxyglucose (FDG) PET values, using tracer kinetic analysis measurements. The computational framework incorporates algorithms for semantic processing, multivariate analysis, data mining and dimensionality reduction. Results Transcriptomic and PET data feature sets, were evaluated for their discrimination performance between primary colorectal adenocarcinomas and adjacent normal mucosa. A composite signature was derived, pertaining 12 features: 7 genes and 5 PET variables. This compact signature manifests superior performance in classification accuracy, through the integration of gene expression and PET data. Conclusions This work represents an effort for the integrative, multilayered, signature-oriented analysis of CRC, in the context of radio-genomics, inferring a composite signature with promising results for patient stratification. Graphical Abstract Unlabelled Image |
| اللغة: | English |
| تدمد: | 2001-0370 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::23e2c956748941640069306f295781c0 http://europepmc.org/articles/PMC6374701 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....23e2c956748941640069306f295781c0 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 20010370 |
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