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Issam El Naqa, PhD

Chair, Machine Learning
Program: Machine Learning

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Radiation Oncology Medical Physics

Education & Training

Participating Trials

If you believe you are eligible for one of these trials or studies, please call
813-745-6100 or toll-free 1-800-679-0775.


  • Putora PM, Baudis M, Beadle BM, El Naqa I, Giordano FA, Nicolay NH. Oncology Informatics: Status Quo and Outlook. Oncology-Basel. 2020 May.98(6):329-331. Pubmedid: 32408309.
  • El Naqa I, Das S. The role of machine and deep learning in modern medical physics. Med Phys. 2020 Jun.47(5):e125-e126. Pubmedid: 32418342.
  • Cui S, Tseng HH, Pakela J, Ten Haken RK, El Naqa I. Introduction to machine and deep learning for medical physicists. Med Phys. 2020 Jun.47(5):e127-e147. Pubmedid: 32418339. Pmcid: PMC7331753.
  • Avanzo M, Wei L, Stancanello J, Vallières M, Rao A, Morin O, Mattonen SA, El Naqa I. Machine and deep learning methods for radiomics. Med Phys. 2020 Jun.47(5):e185-e202. Pubmedid: 32418336.
  • Oraiqat I, Zhang W, Litzenberg D, Lam K, Ba Sunbul N, Moran J, Cuneo K, Carson P, Wang X, El Naqa I. An Ionizing Radiation Acoustic Imaging (iRAI) Technique for Real-Time Dosimetric Measurements for FLASH Radiotherapy. Med Phys. 2020 Jun. Pubmedid: 32592212.
  • Li H, El Naqa I, Rong Y. Current status of Radiomics for cancer management: Challenges versus opportunities for clinical practice. J Appl Clin Med Phys. 2020 Jul.21(7):7-10. Pubmedid: 32697032. Pmcid: PMC7386181.
  • Pakela JM, Tseng HH, Matuszak MM, Ten Haken RK, McShan DL, El Naqa I. Quantum-inspired algorithm for radiotherapy planning optimization. Med Phys. 2020 Jan.47(1):5-18. Pubmedid: 31574176. Pmcid: PMC6980234.
  • El Naqa I, Haider MA, Giger ML, Ten Haken RK. Artificial Intelligence: reshaping the practice of radiological sciences in the 21st century. Br J Radiol. 2020 Feb.93(1106):20190855. Pubmedid: 31965813. Pmcid: PMC7055429.
  • Pursley J, El Naqa I, Sanford NN, Noe B, Wo JY, Eyler CE, Hwang M, Brock KK, Yeap BY, Wolfgang JA, Hong TS, Grassberger C. Dosimetric Analysis and Normal-Tissue Complication Probability Modeling of Child-Pugh Score and Albumin-Bilirubin Grade Increase After Hepatic Irradiation. Int J Radiat Oncol Biol Phys. 2020 Apr.107(5):986-995. Pubmedid: 32353390. Pmcid: PMC7381375.
  • Wilkie JR, Mierzwa ML, Casper KA, Mayo CS, Schipper MJ, Eisbruch A, Worden FP, El Naqa I, Viglianti BL, Rosen BS. Predicting late radiation-induced xerostomia with parotid gland PET biomarkers and dose metrics. Radiother Oncol. 2020 Apr.148:30-37. Pubmedid: 32311598.
  • Cui S, Luo Y, Tseng HH, Ten Haken RK, El Naqa I. Combining handcrafted features with latent variables in machine learning for prediction of radiation-induced lung damage. Med Phys. 2019 May.46(5):2497-2511. Pubmedid: 30891794. Pmcid: PMC6510637.
  • Zlateva Y, Muir BR, El Naqa I, Seuntjens JP. Cherenkov emission-based external radiotherapy dosimetry: I. Formalism and feasibility. Med Phys. 2019 May.46(5):2370-2382. Pubmedid: 31034637.
  • Zlateva Y, Muir BR, Seuntjens JP, El Naqa I. Cherenkov emission-based external radiotherapy dosimetry: II. Electron beam quality specification and uncertainties. Med Phys. 2019 May.46(5):2383-2393. Pubmedid: 30706493.
  • Marciscano AE, Haimovitz-Friedman A, Lee P, Tran PT, Tomé WA, Guha C, Spring Kong FM, Sahgal A, El Naqa I, Rimner A, Marks LB, Formenti SC, DeWeese TL. Immunomodulatory Effects of Stereotactic Body Radiation Therapy: Preclinical Insights and Clinical Opportunities. Int J Radiat Oncol Biol Phys. 2019 Mar. Pubmedid: 30836168.
  • Avanzo M, Pirrone G, Mileto M, Massarut S, Stancanello J, Baradaran-Ghahfarokhi M, Rink A, Barresi L, Vinante L, Piccoli E, Trovo M, El Naqa I, Sartor G. Prediction of skin dose in low-kV intraoperative radiotherapy using machine learning models trained on results of in vivo dosimetry. Med Phys. 2019 Mar.46(3):1447-1454. Pubmedid: 30620412.
  • Cui S, Luo Y, Hsin Tseng H, Ten Haken RK, El Naqa I. Artificial Neural Network with Composite Architectures for Prediction of Local Control in Radiotherapy. IEEE Trans Radiat Plasma Med Sci. 2019 Mar.3(2):242-249. Pubmedid: 30854501. Pmcid: PMC6404537.
  • Luo Y, McShan D, Ray D, Matuszak M, Jolly S, Lawrence T, Ming Kong F, Ten Haken R, El Naqa I. Development of a Fully Cross-Validated Bayesian Network Approach for Local Control Prediction in Lung Cancer. IEEE Trans Radiat Plasma Med Sci. 2019 Mar.3(2):232-241. Pubmedid: 30854500. Pmcid: PMC6404542.
  • Nie K, Al-Hallaq H, Li XA, Benedict SH, Sohn JW, Moran JM, Fan Y, Huang M, Knopp MV, Michalski JM, Monroe J, Obcemea C, Tsien CI, Solberg T, Wu J, Xia P, Xiao Y, El Naqa I. NCTN Assessment on Current Applications of Radiomics in Oncology. Int J Radiat Oncol Biol Phys. 2019 Jun.104(2):302-315. Pubmedid: 30711529. Pmcid: PMC6499656.
  • Cuneo KC, Devasia T, Sun Y, Schipper MJ, Karnak D, Davis MA, Owen D, Feng M, El Naqa I, Bazzi L, Ten Haken R, Lawrence TS. Serum Levels of Hepatocyte Growth Factor and CD40 Ligand Predict Radiation-Induced Liver Injury. Transl Oncol. 2019 Jul.12(7):889-894. Pubmedid: 31078059. Pmcid: PMC6514276.
  • Deist TM, Dankers FJWM, Valdes G, Wijsman R, Hsu IC, Oberije C, Lustberg T, van Soest J, Hoebers F, Jochems A, El Naqa I, Wee L, Morin O, Raleigh DR, Bots W, Kaanders JH, Belderbos J, Kwint M, Solberg T, Monshouwer R, Bussink J, Dekker A, Lambin P. Erratum: "Machine learning algorithms for outcome prediction in (chemo)radiotherapy: An empirical comparison of classifiers" [Med. Phys. 45 (7), 3449-3459 (2018)]. Med Phys. 2019 Feb.46(2):1080-1087. Pubmedid: 30730570.
  • Chotchutipan T, Rosen BS, Hawkins PG, Lee JY, Saripalli AL, Thakkar D, Eisbruch A, El Naqa I, Mierzwa ML. Volumetric 18 F-FDG-PET parameters as predictors of locoregional failure in low-risk HPV-related oropharyngeal cancer after definitive chemoradiation therapy. Head Neck. 2019 Feb.41(2):366-373. Pubmedid: 30548704. Pmcid: PMC6411288.
  • Veit-Haibach P, El Naqa I, Visvikis D. Radiomics in nuclear medicine and hybrid imaging: current standings on clinical applicability. Q J Nucl Med Mol Imaging. 2019 Dec.63(4):321-322. Pubmedid: 31560184.
  • Waninger JJ, Green MD, Cheze Le Rest C, Rosen B, El Naqa I. Integrating radiomics into clinical trial design. Q J Nucl Med Mol Imaging. 2019 Dec.63(4):339-346. Pubmedid: 31527581.
  • Wei L, Osman S, Hatt M, El Naqa I. Machine learning for radiomics-based multimodality and multiparametric modeling. Q J Nucl Med Mol Imaging. 2019 Dec.63(4):323-338. Pubmedid: 31527580.
  • Lee P, Loo BW, Biswas T, Ding GX, El Naqa IM, Jackson A, Kong FM, LaCouture T, Miften M, Solberg T, Tome WA, Tai A, Yorke E, Li XA. Local Control After Stereotactic Body Radiation Therapy for Stage I Non-Small Cell Lung Cancer. Int J Radiat Oncol Biol Phys. 2019 Apr. Pubmedid: 30954520.
  • El Naqa I, Irrer J, Ritter TA, DeMarco J, Al-Hallaq H, Booth J, Kim G, Alkhatib A, Popple R, Perez M, Farrey K, Moran JM. Machine learning for automated quality assurance in radiotherapy: A proof of principle using EPID data description. Med Phys. 2019 Apr.46(4):1914-1921. Pubmedid: 30734324.
  • Deng J, El Naqa I, Xing L. Editorial: Machine Learning With Radiation Oncology Big Data. Front Oncol. 2018 Sep.8:416. Pubmedid: 30319978. Pmcid: PMC6170661.
  • El Naqa I, Ten Haken RK. Can radiomics personalise immunotherapy?. Lancet Oncol. 2018 Sep.19(9):1138-1139. Pubmedid: 30120042.
  • El Naqa I, Ruan D, Valdes G, Dekker A, McNutt T, Ge Y, Wu QJ, Oh JH, Thor M, Smith W, Rao A, Fuller C, Xiao Y, Manion F, Schipper M, Mayo C, Moran JM, Ten Haken R. Machine learning and modeling: Data, validation, communication challenges. Med Phys. 2018 Oct.45(10):e834-e840. Pubmedid: 30144098. Pmcid: PMC6181755.
  • El Naqa I, Napel S, Zaidi H. Radiogenomics is the future of treatment response assessment in clinical oncology. Med Phys. 2018 Oct.45(10):4325-4328. Pubmedid: 29863785.
  • Tseng HH, Wei L, Cui S, Luo Y, Ten Haken RK, El Naqa I. Machine Learning and Imaging Informatics in Oncology. Oncology-Basel. 2018 Nov.98(6):344-362. Pubmedid: 30472716. Pmcid: PMC6533165.
  • Rosen BS, Hawkins PG, Polan DF, Balter JM, Brock KK, Kamp JD, Lockhart CM, Eisbruch A, Mierzwa ML, Ten Haken RK, El Naqa I. Early Changes in Serial CBCT-Measured Parotid Gland Biomarkers Predict Chronic Xerostomia After Head and Neck Radiation Therapy. Int J Radiat Oncol Biol Phys. 2018 Nov.102(4):1319-1329. Pubmedid: 30003997. Pmcid: PMC6411287.
  • Owen DR, Boonstra PS, Viglianti BL, Balter JM, Schipper MJ, Jackson WC, El Naqa I, Jolly S, Ten Haken RK, Kong FS, Matuszak MM. Modeling Patient-Specific Dose-Function Response for Enhanced Characterization of Personalized Functional Damage. Int J Radiat Oncol Biol Phys. 2018 Nov.102(4):1265-1275. Pubmedid: 30108006. Pmcid: PMC6202237.
  • Lei H, Zhang W, Oraiqat I, Liu Z, Ni J, Wang X, El Naqa I. Toward in vivo dosimetry in external beam radiotherapy using x-ray acoustic computed tomography: A soft-tissue phantom study validation. Med Phys. 2018 Jun. Pubmedid: 29956335.
  • Luo Y, McShan DL, Matuszak MM, Ray D, Lawrence TS, Jolly S, Kong FM, Ten Haken RK, El Naqa I. A multiobjective Bayesian networks approach for joint prediction of tumor local control and radiation pneumonitis in nonsmall-cell lung cancer (NSCLC) for response-adapted radiotherapy. Med Phys. 2018 Jun. Pubmedid: 29862533. Pmcid: PMC6279602.
  • Milano MT, Sharma M, Soltys SG, Sahgal A, Usuki KY, Saenz JM, Grimm J, El Naqa I. Radiation-Induced Edema After Single-Fraction or Multifraction Stereotactic Radiosurgery for Meningioma: A Critical Review. Int J Radiat Oncol Biol Phys. 2018 Jun.101(2):344-357. Pubmedid: 29726362.
  • Deist TM, Dankers FJWM, Valdes G, Wijsman R, Hsu IC, Oberije C, Lustberg T, van Soest J, Hoebers F, Jochems A, El Naqa I, Wee L, Morin O, Raleigh DR, Bots W, Kaanders JH, Belderbos J, Kwint M, Solberg T, Monshouwer R, Bussink J, Dekker A, Lambin P. Machine learning algorithms for outcome prediction in (chemo)radiotherapy: An empirical comparison of classifiers. Med Phys. 2018 Jul.45(7):3449-3459. Pubmedid: 29763967. Pmcid: PMC6095141.
  • Tseng HH, Luo Y, Ten Haken RK, El Naqa I. The Role of Machine Learning in Knowledge-Based Response-Adapted Radiotherapy. Front Oncol. 2018 Jul.8:266. Pubmedid: 30101124. Pmcid: PMC6072876.
  • Hickling S, Xiang L, Jones KC, Parodi K, Assmann W, Avery S, Hobson M, El Naqa I. Ionizing radiation-induced acoustics for radiotherapy and diagnostic radiology applications. Med Phys. 2018 Jul.45(7):e707-e721. Pubmedid: 29679491.
  • Milano MT, Grimm J, Soltys SG, Yorke E, Moiseenko V, Tomé WA, Sahgal A, Xue J, Ma L, Solberg TD, Kirkpatrick JP, Constine LS, Flickinger JC, Marks LB, El Naqa I. Single- and Multi-Fraction Stereotactic Radiosurgery Dose Tolerances of the Optic Pathways. Int J Radiat Oncol Biol Phys. 2018 Jan. Pubmedid: 29534899.
  • El Naqa I, Brock K, Yu Y, Langen K, Klein EE. On the Fuzziness of Machine Learning, Neural Networks, and Artificial Intelligence in Radiation Oncology. Int J Radiat Oncol Biol Phys. 2018 Jan.100(1):1-4. Pubmedid: 29254765.
  • El Naqa I, Johansson A, Owen D, Cuneo K, Cao Y, Matuszak M, Bazzi L, Lawrence TS, Ten Haken RK. Modeling of Normal Tissue Complications Using Imaging and Biomarkers After Radiation Therapy for Hepatocellular Carcinoma. Int J Radiat Oncol Biol Phys. 2018 Feb.100(2):335-343. Pubmedid: 29353652. Pmcid: PMC5779633.
  • Vallières M, Laberge S, Diamant A, El Naqa I. Enhancement of multimodality texture-based prediction models via optimization of PET and MR image acquisition protocols: a proof of concept. Phys Med Biol. 2017 Oct.62(22):8536-8565. Pubmedid: 28872054.
  • Jochems A, Deist TM, El Naqa I, Kessler M, Mayo C, Reeves J, Jolly S, Matuszak M, Ten Haken R, van Soest J, Oberije C, Faivre-Finn C, Price G, de Ruysscher D, Lambin P, Dekker A. Developing and Validating a Survival Prediction Model for NSCLC Patients Through Distributed Learning Across 3 Countries. Int J Radiat Oncol Biol Phys. 2017 Oct.99(2):344-352. Pubmedid: 28871984. Pmcid: PMC5575360.
  • Avanzo M, Stancanello J, El Naqa I. Beyond imaging: The promise of radiomics. Phys Med. 2017 Jun.38:122-139. Pubmedid: 28595812.
  • Perez JR, Ybarra N, Chagnon F, Serban M, Lee S, Seuntjens J, Lesur O, El Naqa I. Tracking of Mesenchymal Stem Cells with Fluorescence Endomicroscopy Imaging in Radiotherapy-Induced Lung Injury. Sci Rep. 2017 Jan.7:40748. Pubmedid: 28102237. Pmcid: PMC5244404.
  • Hickling S, Lei H, Hobson M, Léger P, Wang X, El Naqa I. Experimental evaluation of x-ray acoustic computed tomography for radiotherapy dosimetry applications. Med Phys. 2017 Feb.44(2):608-617. Pubmedid: 28121381.
  • Liu F, Tai A, Lee P, Biswas T, Ding GX, El Naqa I, Grimm J, Jackson A, Kong FS, LaCouture T, Loo B, Miften M, Solberg T, Li XA. Tumor control probability modeling for stereotactic body radiation therapy of early-stage lung cancer using multiple bio-physical models. Radiother Oncol. 2017 Feb.122(2):286-294. Pubmedid: 27871671. Pmcid: PMC5649355.
  • Constanzo J, Wei L, Tseng HH, El Naqa I. Radiomics in precision medicine for lung cancer. Transl Lung Cancer Res. 2017 Dec.6(6):635-647. Pubmedid: 29218267. Pmcid: PMC5709132.
  • Vallières M, Kay-Rivest E, Perrin LJ, Liem X, Furstoss C, Aerts HJWL, Khaouam N, Nguyen-Tan PF, Wang CS, Sultanem K, Seuntjens J, El Naqa I. Radiomics strategies for risk assessment of tumour failure in head-and-neck cancer. Sci Rep. 2017 Aug.7(1):10117. Pubmedid: 28860628. Pmcid: PMC5579274.
  • El Naqa I, Kerns SL, Coates J, Luo Y, Speers C, West CML, Rosenstein BS, Ten Haken RK. Radiogenomics and radiotherapy response modeling. Phys Med Biol. 2017 Aug.62(16):R179-R206. Pubmedid: 28657906. Pmcid: PMC5557376.
  • Berthon B, Spezi E, Galavis P, Shepherd T, Apte A, Hatt M, Fayad H, De Bernardi E, Soffientini CD, Ross Schmidtlein C, El Naqa I, Jeraj R, Lu W, Das S, Zaidi H, Mawlawi OR, Visvikis D, Lee JA, Kirov AS. Toward a standard for the evaluation of PET-Auto-Segmentation methods following the recommendations of AAPM task group No. 211: Requirements and implementation. Med Phys. 2017 Aug.44(8):4098-4111. Pubmedid: 28474819. Pmcid: PMC5575543.
  • Luo Y, El Naqa I, McShan DL, Ray D, Lohse I, Matuszak MM, Owen D, Jolly S, Lawrence TS, Kong FS, Ten Haken RK. Unraveling biophysical interactions of radiation pneumonitis in non-small-cell lung cancer via Bayesian network analysis. Radiother Oncol. 2017 Apr.123(1):85-92. Pubmedid: 28237401. Pmcid: PMC5386796.
  • Mayo CS, Kessler ML, Eisbruch A, Weyburne G, Feng M, Hayman JA, Jolly S, El Naqa I, Moran JM, Matuszak MM, Anderson CJ, Holevinski LP, McShan DL, Merkel SM, Machnak SL, Lawrence TS, Ten Haken RK. The big data effort in radiation oncology: Data mining or data farming?. Adv Radiat Oncol. 2016 Oct.1(4):260-271. Pubmedid: 28740896. Pmcid: PMC5514231.
  • Markel D, Levesque I, Larkin J, Léger P, El Naqa I. A 4D biomechanical lung phantom for joint segmentation/registration evaluation. Phys Med Biol. 2016 Oct.61(19):7012-7030. Pubmedid: 27649100.
  • Sapir E, Tao Y, Feng F, Samuels S, El Naqa I, Murdoch-Kinch CA, Feng M, Schipper M, Eisbruch A. Predictors of Dysgeusia in Patients With Oropharyngeal Cancer Treated With Chemotherapy and Intensity Modulated Radiation Therapy. Int J Radiat Oncol Biol Phys. 2016 Oct.96(2):354-361. Pubmedid: 27473816.
  • Pater P, Bäckstöm G, Villegas F, Ahnesjö A, Enger SA, Seuntjens J, El Naqa I. Proton and light ion RBE for the induction of direct DNA double strand breaks. Med Phys. 2016 May.43(5):2131. Pubmedid: 27147325.
  • Hickling S, Leger P, El Naqa I. On the Detectability of Acoustic Waves Induced Following Irradiation by a Radiotherapy Linear Accelerator. Ieee Trans Ultrason Ferroelectr Freq Control. 2016 May.63(5):683-690. Pubmedid: 26886983.
  • Coates J, El Naqa I. Outcome modeling techniques for prostate cancer radiotherapy: Data, models, and validation. Phys Med. 2016 Mar.32(3):512-520. Pubmedid: 27053448.
  • Coates J, Souhami L, El Naqa I. Big Data Analytics for Prostate Radiotherapy. Front Oncol. 2016 Jun.6:149. Pubmedid: 27379211. Pmcid: PMC4905980.
  • Ohri N, Duan F, Snyder BS, Wei B, Machtay M, Alavi A, Siegel BA, Johnson DW, Bradley JD, DeNittis A, Werner-Wasik M, El Naqa I. Pretreatment 18F-FDG PET Textural Features in Locally Advanced Non-Small Cell Lung Cancer: Secondary Analysis of ACRIN 6668/RTOG 0235. J Nucl Med. 2016 Jun.57(6):842-848. Pubmedid: 26912429. Pmcid: PMC4987286.
  • Benedict SH, El Naqa I, Klein EE. Introduction to Big Data in Radiation Oncology: Exploring Opportunities for Research, Quality Assessment, and Clinical Care. Int J Radiat Oncol Biol Phys. 2016 Jul.95(3):871-872. Pubmedid: 27302502.
  • Sloan JA, Halyard M, El Naqa I, Mayo C. Lessons From Large-Scale Collection of Patient-Reported Outcomes: Implications for Big Data Aggregation and Analytics. Int J Radiat Oncol Biol Phys. 2016 Jul.95(3):922-929. Pubmedid: 27302508. Pmcid: PMC6544440.
  • El Naqa I. Perspectives on making big data analytics work for oncology. Methods. 2016 Dec.111:32-44. Pubmedid: 27586524.
  • Klein EE, El Naqa I, Langen K, Dogan N. Physics: The Use of Magnetic Resonance Imaging for Radiation Therapy is Accelerating in Utility and Novelty. Int J Radiat Oncol Biol Phys. 2015 Dec.93(5):953-956. Pubmedid: 26581131.
  • Lu W, Low DA, Parikh PJ, Nystrom MM, El Naqa IM, Wahab SH, Handoko M, Fooshee D, Bradley JD. Comparison of spirometry and abdominal height as four-dimensional computed tomography metrics in lung. Med Phys. 2005 Jul.32(7Part1):2351-2357. Pubmedid: 28493581.

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