Literature DB >> 32418335

Genomics models in radiotherapy: From mechanistic to machine learning.

John Kang1, James T Coates2, Robert L Strawderman3, Barry S Rosenstein4, Sarah L Kerns1.   

Abstract

Machine learning (ML) provides a broad framework for addressing high-dimensional prediction problems in classification and regression. While ML is often applied for imaging problems in medical physics, there are many efforts to apply these principles to biological data toward questions of radiation biology. Here, we provide a review of radiogenomics modeling frameworks and efforts toward genomically guided radiotherapy. We first discuss medical oncology efforts to develop precision biomarkers. We next discuss similar efforts to create clinical assays for normal tissue or tumor radiosensitivity. We then discuss modeling frameworks for radiosensitivity and the evolution of ML to create predictive models for radiogenomics.
© 2019 American Association of Physicists in Medicine.

Entities:  

Keywords:  black box model; modeling; radiogenomics; radiosensitivity

Mesh:

Year:  2020        PMID: 32418335      PMCID: PMC8725063          DOI: 10.1002/mp.13751

Source DB:  PubMed          Journal:  Med Phys        ISSN: 0094-2405            Impact factor:   4.071


  139 in total

1.  Principal components analysis corrects for stratification in genome-wide association studies.

Authors:  Alkes L Price; Nick J Patterson; Robert M Plenge; Michael E Weinblatt; Nancy A Shadick; David Reich
Journal:  Nat Genet       Date:  2006-07-23       Impact factor: 38.330

2.  Dose response explorer: an integrated open-source tool for exploring and modelling radiotherapy dose-volume outcome relationships.

Authors:  I El Naqa; G Suneja; P E Lindsay; A J Hope; J R Alaly; M Vicic; J D Bradley; A Apte; J O Deasy
Journal:  Phys Med Biol       Date:  2006-10-19       Impact factor: 3.609

3.  Development and Validation of a Novel Radiosensitivity Signature in Human Breast Cancer.

Authors:  Corey Speers; Shuang Zhao; Meilan Liu; Harry Bartelink; Lori J Pierce; Felix Y Feng
Journal:  Clin Cancer Res       Date:  2015-04-22       Impact factor: 12.531

Review 4.  Genetic variants and normal tissue toxicity after radiotherapy: a systematic review.

Authors:  Christian Nicolaj Andreassen; Jan Alsner
Journal:  Radiother Oncol       Date:  2009-08-14       Impact factor: 6.280

5.  The performance of normal-tissue complication probability models in the presence of confounding factors.

Authors:  Eva Onjukka; Colin Baker; Alan Nahum
Journal:  Med Phys       Date:  2015-05       Impact factor: 4.071

Review 6.  Patient-reported outcomes in the evaluation of toxicity of anticancer treatments.

Authors:  Massimo Di Maio; Ethan Basch; Jane Bryce; Francesco Perrone
Journal:  Nat Rev Clin Oncol       Date:  2016-01-20       Impact factor: 66.675

7.  Radiation-induced micro-RNA expression changes in peripheral blood cells of radiotherapy patients.

Authors:  Thomas Templin; Sunirmal Paul; Sally A Amundson; Erik F Young; Christopher A Barker; Suzanne L Wolden; Lubomir B Smilenov
Journal:  Int J Radiat Oncol Biol Phys       Date:  2011-03-21       Impact factor: 7.038

8.  Modeling radiation pneumonitis risk with clinical, dosimetric, and spatial parameters.

Authors:  Andrew J Hope; Patricia E Lindsay; Issam El Naqa; James R Alaly; Milos Vicic; Jeffrey D Bradley; Joseph O Deasy
Journal:  Int J Radiat Oncol Biol Phys       Date:  2006-05-01       Impact factor: 7.038

9.  Gene-gene interaction filtering with ensemble of filters.

Authors:  Pengyi Yang; Joshua Wk Ho; Yee Hwa Yang; Bing B Zhou
Journal:  BMC Bioinformatics       Date:  2011-02-15       Impact factor: 3.169

10.  Serum MicroRNA Signature Predicts Response to High-Dose Radiation Therapy in Locally Advanced Non-Small Cell Lung Cancer.

Authors:  Yilun Sun; Peter G Hawkins; Nan Bi; Robert T Dess; Muneesh Tewari; Jason W D Hearn; James A Hayman; Gregory P Kalemkerian; Theodore S Lawrence; Randall K Ten Haken; Martha M Matuszak; Feng-Ming Kong; Shruti Jolly; Matthew J Schipper
Journal:  Int J Radiat Oncol Biol Phys       Date:  2017-09-04       Impact factor: 7.038

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  5 in total

1.  Provider Engagement in Radiation Oncology Data Science: Workshop Report.

Authors:  Anshu K Jain; Sanjay Aneja; Clifton D Fuller; Adam P Dicker; Caroline Chung; Erika Kim; Justin S Kirby; Harry Quon; Clara J K Lam; William C Louv; Chris Ahern; Ying Xiao; Todd R McNutt; Nadine Housri; Ronald D Ennis; John Kang; Ying Tang; Howard Higley; Michelle A Berny-Lang; Kevin A Camphausen
Journal:  JCO Clin Cancer Inform       Date:  2020-08

Review 2.  Radiomic and radiogenomic modeling for radiotherapy: strategies, pitfalls, and challenges.

Authors:  James T T Coates; Giacomo Pirovano; Issam El Naqa
Journal:  J Med Imaging (Bellingham)       Date:  2021-03-23

Review 3.  Personalized radioiodine therapy for thyroid cancer patients with known disease.

Authors:  Sissy M Jhiang; Peng Cheng; Fadi A Nabhan; Jennifer A Sipos; Chia-Hsiang Menq
Journal:  Fac Rev       Date:  2021-04-07

4.  Biological Pathways Associated With the Development of Pulmonary Toxicities in Mesothelioma Patients Treated With Radical Hemithoracic Radiation Therapy: A Preliminary Study.

Authors:  Sergio Crovella; Alberto Revelant; Elena Muraro; Ronald Rodrigues Moura; Lucas Brandão; Marco Trovò; Agostino Steffan; Paola Zacchi; Giuliano Zabucchi; Emilio Minatel; Violetta Borelli
Journal:  Front Oncol       Date:  2021-12-22       Impact factor: 6.244

5.  National Cancer Institute Workshop on Artificial Intelligence in Radiation Oncology: Training the Next Generation.

Authors:  John Kang; Reid F Thompson; Sanjay Aneja; Constance Lehman; Andrew Trister; James Zou; Ceferino Obcemea; Issam El Naqa
Journal:  Pract Radiat Oncol       Date:  2020-06-13
  5 in total

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