Department Metrics

• An Ionizing Radiation Acoustics Imaging (iRAI) Approach for Guided Flash Radiotherapy
  Award Number:
  Sponsor: Nat Institutes of Health
  PI (MPI):El Naqa, I.

CLINICAL TRIAL 23241
Factors Determining Ovarian Cancer Outcomes Following Heated Intraperitoneal Chemotherapy (HiPEC)
Condition: Gynecological Tumor
Intervention:

CLINICAL TRIAL 23565
LUNAR-2: Pivotal, Randomized, Open-Label Study of Tumor Treating Fields (TTFields, 150 kHz) Concomitant with Pembrolizumab and Platinum Based Chemotherapy for the Treatment of Metastatic Non-Small Cell Lung Cancer
Condition: Thoracic
Intervention: Alimta (Pemetrexed); Nab-paclitaxel (Abraxane); Paraplatin (carboplatin); Pembrolizumab (Keytruda); Pemetrexed (); Taxol (paclitaxel); carboplatin (); cisplatin (); paclitaxel ()

CLINICAL TRIAL 23952
Treatment Effect vs. Tumor Progression - Quantitative Analysis Using Machine Learning
Condition: Neurologic Oncology
Intervention:

• Renaudineau Y, Hawkes J, Mizgalska K, Natoli V, Roachdown J, Cusin L, Sposito F, Sen E, Kinder A, Fusaro M, Brooks WH, Guida W, Karolak A, Charras A, Beresford MW, Hedrich CM. The private truncating Toll-like receptor 7 p.Glu834* variant associates with juvenile-onset systemic lupus erythematosus and pathological cytokine expression in vitro. Ann Rheum Dis. 2026 Aug. Pubmedid: 42632785.
• Qi XS, Wang Y, Yang X, Ren L, Liu W, Benedict SH, Xiao Y, Xing L, El Naqa IM. Generative AI, foundation models and large language models in radiation therapy physics: Clinical applications, challenges, and future directions. Med Phys. 2026 Aug.53(8):e70616. Pubmedid: 42563397. Pmcid: PMC13448089.
• Davis EW, Park MA, Basinski TL, Alhassan S, Gomez MF, Genilo-Delgado M, Sinnamon AJ, Hodul PJ, Karolak A, Sayegh Z, Nguyen J, Rummens B, Li J, Tripathi A, Parker NH, Pimiento JM, Rasool G, Tassielli AF, Chen DT, Centeno BA, Jiang K, Jeong D, Permuth JB. CT-Derived Radiomic Signature of MUC6 Expression Improves Guideline-Based Risk Stratification in Intraductal Papillary Mucinous Neoplasms. Cancers (Basel). 2026 Jul.18(14). Pubmedid: 42512328. Pmcid: PMC13406335.
• Grasel IO, Gorre N, El Naqa I. PROACTIVE-AI: An Intelligent Dashboard for Assessing and Predicting of FDA-approved AI Software Performance in Real-World Clinical Scenarios. Res Sq. 2026 Jul. Pubmedid: 42539029. Pmcid: PMC13419582.
• Cuneo KC, Zhang W, Litzenberg D, Huang Y, Hadley S, Oraiqat I, Chang KW, Gonzalez G, Dykstra S, Zhang M, Moros EG, Carson PL, Naqa IE, Wang X. Clinical Pilot Study of Ionizing Radiation Acoustic Imaging for Real-Time Visualization of Radiation Therapy Dose Delivery in Cancer Patients. Int J Radiat Oncol Biol Phys. 2026 Jul.125(3):959-969. Pubmedid: 41397468. Pmcid: PMC13373908.
• Ataya DK, Fernando KRM, Brainerd J, De La Cruz Y, Abdalah M, Stringfield O, Sobhani E, Raghunand N, Bui M, El Naqa I, Niell BL. Ductal Carcinoma In Situ Active Monitoring Trials: Do Eligibility Criteria Identify Patients at Low Risk for Upgrade to Invasive Carcinoma?. J Breast Imaging. 2026 Jul.8(4):387-394. Pubmedid: 41774047. Pmcid: PMC13408781.
• Pan B, Ren D, Rasool G, Brohl AS, Bui MM. Molecular Pathology of Soft-tissue Neoplasms. Surg Pathol Clin. 2026 Jun.19(2):263-274. Pubmedid: 42091273.
• Waqas A, Rasool G, Schabath MB. Trans-omics gene-smoking interactions: a new framework for stratifying smoking-related lung cancer risk. Am J Respir Crit Care Med. 2026 Jun.212(6):1089-1091. Pubmedid: 42085236.
• Tagal V, Li T, Kumar R, Shrestha P, Yu X, Miroshnychenko D, Olumoyin K, Marusyk A, Davies M, Maudsley S, El-Naqa I, Gomes AP, Duckett DR, Han HS, Andor N. Ploidy shapes gemcitabine response through altered potency and delayed cell death. bioRxiv. 2026 Jun. Pubmedid: 42282758. Pmcid: PMC13251900.
• Farooq H, Chen Y, Rasool G, Georgiou T, Lenglet C. Diffusion MRI experimental design optimization for microstructure imaging. Commun Biol. 2026 May. Pubmedid: 42156573.
• Sparrock LS, Vidrine JI, Vinci CE, El Naqa IM, Sutton SK, Salloum RG, Dallery J, Crane TE, Penedo FJ, Brockway SJ, Jones SR, Hoogland CE, Reich RR, Gonzalez-Calderon G, Simmons VN, Vidrine DJ. Creation of an mHealth Infrastructure to Support the Development and Delivery of mHealth Interventions: Protocol for Demonstration Projects Addressing Smoking Cessation in Cancer Care. JMIR Res Protoc. 2026 May.15:e92288. Pubmedid: 42214073. Pmcid: PMC13263659.
• Ullah E, Baig MM, Waqas A, Rasool G, Singh R, Shandilya A, GholamHossieni H, Parwani AV. Multimodal Generative AI for Anatomic Pathology-A Review of Current Applications to Envisage the Future Direction. Adv Anat Pathol. 2026 May.33(3):206-216. Pubmedid: 40298358.
• Dudas D, Dilling TJ, Jim H, Naqa IE. Effective use of PROs for survival prediction: Transformer-based modelling in NSCLC patients. Radiother Oncol. 2026 May.218:111441. Pubmedid: 41687720.
• Cho O, El Naqa I. Prognostic impact of pelvic bone magnetic resonance imaging features in patients with cervical cancer undergoing definitive concurrent chemoradiotherapy. Int J Gynecol Cancer. 2026 May.36(5):104648. Pubmedid: 41965225.
• Duong T, Le D, Williams V, Stewart S, Zhao Y, Zitu M, El Naqa I, Rollison D, Thieu T. OncoPT: long-context transformer models for in hospital tumor phenotype extraction from pathology reports. NPJ Digit Med. 2026 May. Pubmedid: 42069805.
• Mizgalska K, Urbaniak K, Imbody DJ, Haura EB, Guida WC, Branciamore S, Karolak A. Integrating computational chemistry and machine learning to predict KRAS mutation-induced resistance. bioRxiv. 2026 Apr. Pubmedid: 41993311. Pmcid: PMC13081811.
• Fang C, Li B, Litzenberg DW, El Naqa I, Zhang W, Wang X, Zou J. Fiber-Tip Surface-Micromachined Optical Ultrasound Transducer (SMOUT) Probe for Acoustic Detection Induced by Ultrahigh Dose Rate (UHDR) Electron Beam. IEEE Sens J. 2026 Apr.26(7):9869-9876. Pubmedid: 42037989. Pmcid: PMC13105313.
• Zheng D, El Naqa I, Qi XS, Sethi A, Alongi F. Imaging Biomarkers in Radiotherapy. Cancers (Basel). 2026 Apr.18(8). Pubmedid: 42073557. Pmcid: PMC13114503.
• Ahmed S, Parker N, Park M, Jeong D, Peres LC, Davis EW, Permuth JB, Siegel EM, Schabath MB, Yilmaz Y, Rasool G. Reliable Radiologic Skeletal Muscle Area Assessment-A Biomarker for Cancer Cachexia Diagnosis. Cells. 2026 Mar.15(6). Pubmedid: 41892306. Pmcid: PMC13025493.
• Hartsock I, Koutsoubis N, Ahmed S, Parker N, Schabath MB, Araujo C, Qayyum A, Lam C, Gatenby RA, Rasool G. Clinical AI in Radiology: Foundations, Trends, Applications, and Emerging Directions. Cancers (Basel). 2026 Mar.18(6). Pubmedid: 41899545. Pmcid: PMC13024777.
• Spiess PE, Zitu MM, Walker A, Anaya DA, Wenham RM, Vogelbaum M, Fernandez CG, Felipe L, ElNaqa I, Delgado E, Berler T, Valdes G. BPI26-015: Complementing NCCN Guidelines With a Clinician-Guided AI Reasoning Platform: Evaluation of The BlueScrubs. J Natl Compr Canc Ne. 2026 Mar.24(3.5). Pubmedid: 41916425.
• Zhang W, Oraiqat I, Park J, Gonzalez G, Liu Y, Huang Y, Dykstra S, Wei L, Litzenberg D, Cuneo K, Mendenhall W, Bryant C, Jean-Baptiste S, Johnson P, El Naqa I, Wang X. Ionizing radiation acoustic beam localization: one step towards "proton surgery". medRxiv. 2026 Mar. Pubmedid: 41959805. Pmcid: PMC13060993.
• Olumoyin KD, Aydin AM, Bazargan S, Bunch B, Chamseddine I, Karolak A, Beatty M, Pilon-Thomas S, Poch MA, Rejniak KA. PETIL: Predicting Expansion of Tumor Infiltrating Lymphocytes for the Adoptive Cell Immunotherapy in Bladder Cancers. bioRxiv. 2026 Mar. Pubmedid: 41959383. Pmcid: PMC13060882.
• Tripathi A, Waqas A, Venkatesan K, Ullah E, Khan A, Khalil F, Chen WS, Ozturk ZG, Saeed-Vafa D, Bui MM, Schabath MB, Rasool G. Using Consensus-Based Reasoning and Large Language Models to Extract Structured Data From Surgical Pathology Reports. Lab Invest. 2026 Feb.106(2):104272. Pubmedid: 41412350.
• Hartsock I, Araujo C, Folio L, Rasool G. Improving Radiology Report Conciseness and Structure via Local Large Language Models. J Imaging Inform Med. 2026 Feb.39(1):1005-1016. Pubmedid: 40259201. Pmcid: PMC12921097.
• Moassefi M, Houshmand S, Faghani S, Chang PD, Sun SH, Khosravi B, Triphati AG, Rasool G, Bhatia NK, Folio L, Andriole KP, Gichoya JW, Erickson BJ. Cross-Institutional Evaluation of Large Language Models for Radiology Diagnosis Extraction: A Prompt-Engineering Perspective. J Imaging Inform Med. 2026 Feb.39(1):989-994. Pubmedid: 40341981. Pmcid: PMC12920939.
• Abudalou S, Choi J, Gage K, Pow-Sang J, Yilmaz Y, Balagurunathan Y. Challenges in Using Deep Neural Networks Across Multiple Readers in Delineating Prostate Gland Anatomy. J Imaging Inform Med. 2026 Feb.39(1):532-547. Pubmedid: 40392414. Pmcid: PMC12921062.
• Chow R, Zheng A, Gao C, Vermeulen M, Yu F, Yacoub I, Chhabra AM, Choi JI, Lin H, Valdes G, Simone CB. ChatGPT Versus DeepSeek: Assessing Artificial Intelligence Performance on Radiation Oncology Examination Questions. Adv Radiat Oncol. 2026 Jan.11(1):101929. Pubmedid: 41404490. Pmcid: PMC12703953.
• Rockne RC, Andersen M, Anderson ARA, Basanta D, Bentivegna A, Benzekry S, Branciamore S, Brüningk SC, Conte M, Farahpour F, Karolak A, Köhn-Luque A, Lorenzo G, Manookian B, Rodin AS, Schmalenstroer L, Soler J, Tomasetti C, Urbaniak K. The future of mathematical oncology in the age of AI. NPJ Syst Biol Appl. 2026 Jan.12(1):22. Pubmedid: 41588010. Pmcid: PMC12890909.
• Park MA, Davis EW, Alhassan S, Arnoletti JP, Basinski TL, McKee AB, Bloomston M, Carson TL, Biachi de Castria T, Chen DT, Cortizas EM, Crowder SL, Delgado MG, Douglas WG, Fleming JB, Hodul P, Huguet KL, Jiang K, Kim DW, Koomen J, Luthra AK, Malafa M, Menon AA, Morales R, Merchant NB, Meredith K, Mo Q, Molina-Vega MA, Moreno-Urazan L, Olumoyin KD, Parker N, Pimiento JM, Rasool G, Rejniak KA, Sansil S, Sparks LM, Stewart P, Tassielli AF, Teer JK, Tran DV, Trevino JG, Velanovich V, Whelan CJ, Jeong D, Judge SM, Judge AR, Permuth JB. Race-based differences in serum biomarkers for cancer-associated cachexia in a diverse cohort of patients with pancreatic ductal adenocarcinoma. Commun Med (Lond). 2025 Dec.6(1):19. Pubmedid: 41413302. Pmcid: PMC12789063.
• Altinok O, Rasool G, Waqas A, Schabath MB, Guvenis A. Habitat Radiomics Predict HPV Status in Oropharyngeal Cancer. Cancer Med. 2025 Dec.14(24):e71481. Pubmedid: 41422495. Pmcid: PMC12718549.
• Olumoyin K, El Naqa L, Rejniak K. Learning Model Parameter Dynamics in a Combination Therapy for Bladder Cancer from Sparse Biological Data. ArXiv. 2025 Dec. Pubmedid: 41445818. Pmcid: PMC12723788.
• Cruz-Chamorro R, Bryant JM, Henning J, Robinson LA, Lee DH, Fontaine J, Toloza E, Rosenberg SA, Kim J, Naqa IE, Dilling TJ. Factors impacting cardiac dose and overall survival in post-operative non-small cell lung cancer patients. Radiother Oncol. 2025 Nov.212:111117. Pubmedid: 40854381.
• Nguyen T, Karolak A. Transformer graph variational autoencoder for generative molecular design. Biophys J. 2025 Nov.124(22):3867-3875. Pubmedid: 39885689. Pmcid: PMC12709429.
• Niraula D, Shotande MO, El Naqa I. Human-machine Interaction in the Age of Generative AI. Cancer J. 2025 Nov.31(6). Pubmedid: 41252128.
• Tripathi A, Waqas A, Schabath MB, Yilmaz Y, Rasool G. HONeYBEE: enabling scalable multimodal AI in oncology through foundation model-driven embeddings. NPJ Digit Med. 2025 Oct.8(1):622. Pubmedid: 41131352. Pmcid: PMC12549884.
• Abdelrahman A, El Naqa I. The Role of PET Image Quantification in Modern Radiation Therapy. PET Clin. 2025 Oct.20(4):525-534. Pubmedid: 40816963.
• Davis EW, Park MA, Basinski TL, Arnoletti JP, Bloomston M, Carson TL, Biachi De Castria T, Chen DT, Cortizas EM, Crowder SL, Genilo-Delgado M, Douglas WG, Huguet KL, Jiang K, Hodul PJ, Karolak A, Kim DW, Koomen JM, Menon AA, Mo Q, Mok SR, Molina-Vega MA, Moreno-Urazan L, Ahmed S, Parker NH, Pimiento JM, Rasool G, Sparks LM, Stewart PA, Tassielli AF, Teer JK, Trevino JG, Velanovich V, Wang X, Whelan CJ, Judge SM, Judge AR, Fleming JB, Malafa MP, Jeong D, Permuth JB. The Impact of Edema on Skeletal Muscle Changes among Patients with Pancreatic Ductal Adenocarcinoma. Cancer Epidemiol Biomarkers Prev. 2025 Sep.34(9):1609-1617. Pubmedid: 40553455.
• Flack D, Tripathi A, Waqas A, Rasool G, Dera D. Robust Multimodal Fusion for Survival Prediction in Cancer Patients. Cancer Inform. 2025 Sep.24. Pubmedid: 41024938. Pmcid: PMC12476512.
• Huang Y, Wei L, Litzenberg D, Li B, Ma C, Kim H, Liu Y, Zhang C, Carson PL, Naqa IE, Zhang W, Wang X. Towards quantitative ionizing radiation acoustic imaging (iRAI) for radiation dose measurement: Validation from simulations to experiments. Med Phys. 2025 Sep.52(9):e18091. Pubmedid: 40891090. Pmcid: PMC12402745.
• Gonzalez BD, Li X, Gudenkauf LM, Pullukkara JJ, Oswald LB, Hoogland AI, Le T, El Naqa I, Saltos AN, Haura EB, Luo Y. Using Bayesian Networks to Predict Urgent Care Visits in Patients Receiving Systemic Therapy for Non-Small Cell Lung Cancer. JCO Clin Cancer Inform. 2025 Sep.9:e2400315. Pubmedid: 40939115. Pmcid: PMC12483286.
• Ahmed S, Parker N, Park M, Davis EW, Jeong D, Permuth JB, Schabath MB, Yilmaz Y, Rasool G. Multimodal AI-driven Biomarker for Early Detection of Cancer Cachexia. medRxiv. 2025 Sep. Pubmedid: 41001462. Pmcid: PMC12458964.