Peer-Reviewed Journal Publications

1. Konkel B, Macdonald JA, Lafata KJ, Zaki I, Bozdogan E, Chaudhry M, Wang Y, Janas G, Wiggins W, Bashir MR. Systematic Analysis of Common Factors Impacting Deep Learning Model Generalizability in Liver Segmentation. Radiology: Art. Int. 2023. Accepted.

2. Rigiroli F, Hoye J, Lerebours R, Lyu P, Lafata KJ, Zhang A, Erkanli A, Mettu NB, Morgan DE, Samei E, Marin D. Exploratory analysis of mesenteric-portal axis CT radiomic features for survival prediction of patients with pancreatic ductal adenocarcinoma. Eur Radiol. 2023. Accepted.

3. Yang Z, Hu Z, Ji H, Lafata KJ, Vaios E, Floyd S, Yin FF, Wang C. A Neural ODE Model for Visualizing Deep Neural Network Behaviors in Multi-Parametric MRI based Glioma Segmentation. Med Phys. 2023. Accepted.

4. Chen Y, Zee J, Janowczyk A, Toro P, Lafata KJ, Mariani L, Holzman L, Hodgin J, Madabhushi A, Barisoni L. Clinical relevance of computationally derived attributes of peritubular capillaries from kidney biopsies. Kidney360. 2023. Accepted.

5. Kelleher CB, Macdonald J, Jaffe TA, Allen BC, Kalisz KR, Kauffman TH, Smith JD, Maurer KR, Thomas SP, Coleman AD, Zaki IH, Kannengiesser S, Lafata KJ, Gupta RT, Bashir MR. A Faster Prostate MRI: Comparing a Novel Denoised, Single-Average T2 Sequence to the Conventional Multiaverage T2 Sequence Regarding Lesion Detection and PI-RADS Score Assessment. J Magn Reson Imaging. 2023 Jan 6. doi: 10.1002/jmri.28577. Epub ahead of print. PMID: 36607254.

6. Wang Y, Li X, Konanur M, Konkel B, Seyferth E, Brajer N, Liu JG, Bashir MR, Lafata KJ. Towards optimal deep fusion of imaging and clinical data via a model-based description of fusion quality. Med Phys. 2022 Dec 22. doi: 10.1002/mp.16181. Epub ahead of print. PMID: 36548913.

7. Carpenter DJ, Natarajan B, Arshad M, Natesan D, Schultz O, Moravan MJ, Read C, Lafata KJ, Giles W, Fecci P, Mullikin TC, Reitman ZJ, Kirkpatrick JP, Floyd SR, Chmura SJ, Hong JC, Salama JK. Prognostic Model for Intracranial Progression after Stereotactic Radiosurgery: A Multicenter Validation Study. Cancers(Basel). 2022 Oct 22;14(21):5186. doi: 10.3390/cancers14215186. PMID: 36358606.

8. DeFreitas MR, Toronka A, Nedrud MA, Cubberley S, Zaki IH, Konkel B, Uronis HE, Palta M, Blazer DG, Lafata KJ#, Bashir MR#. CT-derived body composition measurements as predictors for neoadjuvant treatment tolerance and survival in gastroesophageal adenocarcinoma. Abdom Radiol (NY). 2022 Oct 9. doi: 10.1007/s00261-022-03695-y. Epub ahead of print. PMID: 36209446.

9. Lafata KJ, Wang Y, Konkel B, Yin FF, Bashir MR. Radiomics: a primer on high-throughput image phenotyping. Abdom Radiol (NY). 2022 Sep;47(9):2986-3002. doi: 10.1007/s00261-021-03254-x. PMID: 34435228.

10. Jiang H, Song B, Qin Y, Konanur M, Wu Y, McInnes MDF, Lafata KJ, Bashir MR. Modifying LI-RADS on Gadoxetate Disodium-Enhanced MRI: A Secondary Analysis of a Prospective Observational Study. J Magn Reson Imaging. 2022 Aug;56(2):399-412. doi: 10.1002/jmri.28056. PMID: 34994029.

11. Yang Z, Lafata KJ, Chen X, Bowsher J, Chang Y, Wang C, Yin FF. Quantification of lung function on CT images based on pulmonary radiomic filtering. Med Phys. 2022 Jun 30. doi: 10.1002/mp.15837. Epub ahead of print. PMID: 35770964.

12. Ding Y, Meyer M, Lyu P, Rigiroli F, Ramirez-Giraldo JC, Lafata KJ, Yang S, Marin D. Can radiomic analysis of a single-phase dual-energy CT improve the diagnostic accuracy of differentiating enhancing from non-enhancing small renal lesions? Acta Radiol. 2022 Jun;63(6):828-838. doi: 10.1177/02841851211010396. PMID: 33878931.

13. Hu Z, Yang Z, Lafata KJ, Yin FF, Wang C. A radiomics-boosted deep-learning model for COVID-19 and non-COVID-19 pneumonia classification using chest x-ray images. Med Phys. 2022 May;49(5):3213-3222. doi: 10.1002/mp.15582. PMID: 35263458; PMCID: PMC9088469.

14. Kierans AS, Lafata KJ, Ludwig DR, Burke LMB, Chernyak V, Fowler KJ, Fraum TJ, McGinty KA, McInnes MDF, Mendiratta-Lala M, Cunha GM, Allen BC, Hecht EM, Jaffe TA, Kalisz KR, Ranathunga DS, Wildman-Tobriner B, Cardona DM, Aslam A, Gaur S, Bashir MR. Comparing Survival Outcomes of Patients With LI-RADS-M Hepatocellular Carcinomas and Intrahepatic Cholangiocarcinomas. J Magn Reson Imaging. 2022 May 5. doi: 10.1002/jmri.28218. Epub ahead of print. PMID: 35512243.

15. Ji H, Lafata KJ, Mowery Y, Brizel D, Bertozzi AL, Yin FF, Wang C. Post-Radiotherapy PET Image Outcome Prediction by Deep Learning Under Biological Model Guidance: A Feasibility Study of Oropharyngeal Cancer Application. Front Oncol. 2022 May 13;12:895544. doi: 10.3389/fonc.2022.895544. PMID: 35646643; PMCID: PMC9135979.

16. Allphin AJ, Mowery YM, Lafata KJ, Clark DP, Bassil AM, Castillo R, Odhiambo D, Holbrook MD, Ghaghada KB, Badea CT. Photon Counting CT and Radiomic Analysis Enables Differentiation of Tumors Based on Lymphocyte Burden. Tomography. 2022 Mar 10;8(2):740-753. doi: 10.3390/tomography8020061. PMID: 35314638; PMCID: PMC8938796.

17. Jiang H, Song B, Qin Y, Wei Y, Konanur M, Wu Y, Zaki IH, McInnes MDF, Lafata KJ, Bashir MR. Data-Driven Modification of the LI-RADS Major Feature System on Gadoxetate Disodium-Enhanced MRI: Toward Better Sensitivity and Simplicity. J Magn Reson Imaging. 2022 Feb;55(2):493-506. doi: 10.1002/jmri.27824. PMID: 34236120.

18. Glass C*, Lafata KJ*, Jeck W, Horstmeyer R, Cooke C, Everitt J, Glass M, Dov D, Seidman MA. The Role of Machine Learning in Cardiovascular Pathology. Can J Cardiol. 2022 Feb;38(2):234-245. doi: 10.1016/j.cjca.2021.11.008. PMID: 34813876.

19. Rigiroli F, Hoye J, Lerebours R, Lafata KJ, Li C, Meyer M, Lyu P, Ding Y, Schwartz FR, Mettu NB, Zani S Jr, Luo S, Morgan DE, Samei E, Marin D. CT Radiomic Features of Superior Mesenteric Artery Involvement in Pancreatic Ductal Adenocarcinoma: A Pilot Study. Radiology. 2021 Dec;301(3):610-622. doi: 10.1148/radiol.2021210699. PMID: 34491129.

20. Li X, Davis RC, Xu Y, Wang Z, Souma N, Sotolongo G, Bell J, Ellis M, Howell D, Shen X, Lafata KJ#, Barisoni L#. Deep learning segmentation of glomeruli on kidney donor frozen sections. J Med Imaging(Bellingham). 2021 Nov;8(6):067501. doi: 10.1117/1.JMI.8.6.067501. PMID: 34950750; PMCID: PMC8685284.

21. Jiang H, Chen HC, Lafata KJ, Bashir MR. Week 4 Liver Fat Reduction on MRI as an Early Predictor of Treatment Response in Participants with Nonalcoholic Steatohepatitis. Radiology. 2021 Aug;300(2):361-368. doi: 10.1148/radiol.2021204325. PMID: 34060937.

22. Lafata KJ, Chang Y, Wang C, Mowery YM, Vergalasova I, Niedzwiecki D, Yoo DS, Liu JG, Brizel DM, Yin FF. Intrinsic radiomic expression patterns after 20 Gy demonstrate early metabolic response of oropharyngeal cancers. Med Phys. 2021 Jul;48(7):3767-3777. doi: 10.1002/mp.14926. PMID: 33959972; PMCID: PMC9113754.

23. Chang Y, Jiang Z, Segars WP, Zhang Z, Lafata KJ, Cai J, Yin FF, Ren L. A generative adversarial network (GAN)-based technique for synthesizing realistic respiratory motion in the extended cardiac-torso (XCAT) phantoms. Phys Med Biol. 2021 May 31;66(11):10.1088/1361-6560/ac01b4. doi: 10.1088/1361-6560/ac01b4. PMID: 34061044; PMCID: PMC9139421.

24. Lafata KJ, Corradetti MN, Gao J, Jacobs CD, Weng J, Chang Y, Wang C, Hatch A, Xanthopoulos E, Jones G, Kelsey CR, Yin FF. Radiogenomic Analysis of Locally Advanced Lung Cancer Based on CT Imaging and Intratreatment Changes in Cell-Free DNA. Radiol Imaging Cancer. 2021 Apr;3(4):e200157. doi: 10.1148/rycan.2021200157. PMID: 34114913; PMCID: PMC8344351.

25. Barisoni L, Lafata KJ, Hewitt SM, Madabhushi A, Balis UGJ. Digital pathology and computational image analysis in nephropathology. Nat Rev Nephrol. 2020 Nov;16(11):669-685. doi: 10.1038/s41581-020-0321-6. PMID: 32848206; PMCID: PMC7447970.

26. Liu C, Hu SC, Wang C, Lafata KJ, Yin FF. Automatic detection of pulmonary nodules on CT images with YOLOv3: development and evaluation using simulated and patient data. Quant Imaging Med Surg. 2020 Oct;10(10):1917-1929. doi: 10.21037/qims-19-883. PMID: 33014725; PMCID: PMC7495314.

27. Wang C, Liu C, Chang Y, Lafata KJ, Cui Y, Zhang J, Sheng Y, Mowery Y, Brizel D, Yin FF. Dose-Distribution-Driven PET Image-Based Outcome Prediction (DDD-PIOP): A Deep Learning Study for Oropharyngeal Cancer IMRT Application. Front Oncol. 2020 Aug 18;10:1592. doi: 10.3389/fonc.2020.01592. PMID: 33014811; PMCID: PMC7461989.

28. Chang Y, Lafata KJ, Segars WP, Yin FF, Ren L. Development of realistic multi-contrast textured XCAT (MT-XCAT) phantoms using a dual-discriminator conditional-generative adversarial network (D-CGAN). Phys Med Biol. 2020 Mar 19;65(6):065009. doi: 10.1088/1361-6560/ab7309. PMID: 32023555; PMCID: PMC7252912.

29. Chang Y, Lafata KJ, Wang C, Duan X, Geng R, Yang Z, Yin FF. Digital phantoms for characterizing inconsistencies among radiomics extraction toolboxes. Biomed Phys Eng Express. 2020 Mar 2;6(2):025016. doi: 10.1088/2057-1976/ab779c. PMID: 33438642.

30. Chang Y, Lafata KJ, Sun W, Wang C, Chang Z, Kirkpatrick JP, Yin FF. An investigation of machine learning methods in delta-radiomics feature analysis. PLoS One. 2019 Dec 13;14(12):e0226348. doi: 10.1371/journal.pone.0226348. PMID: 31834910; PMCID: PMC6910670.

31. Lafata KJ, Zhou Z, Liu JG, Yin FF. Data clustering based on Langevin annealing with a self-consistent potential. Quarterly of Applied Mathematics. 2019 Sep;77(3):591-613. 

32. Lafata KJ, Zhou Z, Liu JG, Hong J, Kelsey CR, Yin FF. An exploratory radiomics approach to quantifying pulmonary function in CT images. Sci Rep. 2019 Aug 8;9(1):11509. doi: 10.1038/s41598-019-48023-5. PMID: 31395937; PMCID: PMC6687824.

33. Corradetti MN, Torok JA, Hatch AJ, Xanthopoulos EP, Lafata KJ, Jacobs C, Rushing C, Calaway J, Jones G, Kelsey CR, Nixon AB. Dynamic Changes in Circulating Tumor DNA During Chemoradiation for Locally Advanced Lung Cancer. Adv Radiat Oncol. 2019 May 22;4(4):748-752. doi: 10.1016/j.adro.2019.05.004. PMID: 31673668; PMCID: PMC6817521.

34. Lafata KJ, Hong JC, Geng R, Ackerson BG, Liu JG, Zhou Z, Torok J, Kelsey CR, Yin FF. Association of pre-treatment radiomic features with lung cancer recurrence following stereotactic body radiation therapy. Phys Med Biol. 2019 Jan 8;64(2):025007. doi: 10.1088/1361-6560/aaf5a5. PMID: 30524018.

35. Lafata KJ, Cai J, Wang C, Hong J, Kelsey CR, Yin FF. Spatial-temporal variability of radiomic features and its effect on the classification of lung cancer histology. Phys Med Biol. 2018 Nov 8;63(22):225003. doi: 10.1088/1361-6560/aae56a. PMID: 30272571.

36. Ackerson BG, Tong BC, Hong JC, Gu L, Chino J, Trotter JW, D'Amico TA, Torok JA, Lafata KJ, Chang C, Kelsey CR. Stereotactic body radiation therapy versus sublobar resection for stage I NSCLC. Lung Cancer. 2018 Nov;125:185-191. doi: 10.1016/j.lungcan.2018.09.020. PMID: 30429018.

37. Lafata KJ, Bushe H, Aronowitz JN. A simple technique for the generation of institution-specific nomograms for permanent prostate cancer brachytherapy. J Contemp Brachytherapy. 2014 Oct;6(3):293-6. doi: 10.5114/jcb.2014.45582. PMID: 25337132; PMCID: PMC4200185.

38. Stauder MC, Macdonald OK, Olivier KR, Call JA, Lafata KJ, Mayo CS, Miller RC, Brown PD, Bauer HJ, Garces YI. Early pulmonary toxicity following lung stereotactic body radiation therapy delivered in consecutive daily fractions. Radiother Oncol. 2011 May;99(2):166-71. doi: 10.1016/j.radonc.2011.04.002. PMID: 21571384.

Published Academic Documents

Kyle Jon Lafata. Novel identification of radiomic biomarkers with Langevin annealing (PhD Dissertation), Duke University, 2018. 

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