Ma L, Rathgeb A, Mubarak H, Tran M, Fei B. Unsupervised super-resolution reconstruction of hyperspectral histology images for whole-slide imaging. Journal of biomedical optics. 2022 May 1;27(5):056502-.

Zhou X, Ma L, Mubarak HK, Little JV, Chen AY, Myers LL, Sumer BD, Fei B. Automatic detection of head and neck squamous cell carcinoma on pathologic slides using polarized hyperspectral imaging and deep learning. In Medical Imaging 2022: Digital and Computational Pathology 2022 Apr 4 (Vol. 12039, pp. 91-100). SPIE.

Chaudhary U, Leitch K, Chhabra A, Kohli A, Fei B. Deep learning-based abdominal muscle segmentation on CT images of surgical patient populations. In Medical Imaging 2022: Biomedical Applications in Molecular, Structural, and Functional Imaging 2022 Apr 4 (Vol. 12036, pp. 453-459). SPIE.

Pathour T, Akter N, Dormer JD, Chaudhary S, Fei B, Sirsi S. Identifying unique acoustic signatures from chemically-crosslinked microbubble clusters using deep learning. In Medical Imaging 2022: Ultrasonic Imaging and Tomography 2022 Apr 4 (Vol. 12038, pp. 128-136). SPIE.

Shi T, Shahedi M, Caughlin K, Dormer JD, Ma L, Fei B. Semi-automated three-dimensional segmentation for cardiac CT images using deep learning and randomly distributed points. In Medical Imaging 2022: Image-Guided Procedures, Robotic Interventions, and Modeling 2022 Apr 4 (Vol. 12034, pp. 424-430). SPIE.

Tran MH, Ma L, Litter JV, Chen AY, Fei B. Thyroid carcinoma detection on whole histologic slides using hyperspectral imaging and deep learning. In Medical Imaging 2022: Digital and Computational Pathology 2022 Apr 4 (Vol. 12039, pp. 101-111). SPIE.

Shahedi M, Dormer JD, Do QN, Xi Y, Lewis MA, Herrera CL, Spong CY, Madhuranthakam AJ, Twickler DM, Fei B. Automatic segmentation of uterine cavity and placenta on MR Images using deep learning. In Medical Imaging 2022: Biomedical Applications in Molecular, Structural, and Functional Imaging 2022 Apr 4 (Vol. 12036, pp. 287-293). SPIE.

Ma L, Rathgeb A, Tran M, Fei B. Unsupervised super resolution network for hyperspectral histologic imaging. In Medical Imaging 2022: Digital and Computational Pathology 2022 Apr 4 (Vol. 12039, pp. 149-159). SPIE.

Leitch K, Shahedi M, Dormer JD, Do QN, Xi Y, Lewis MA, Herrera CL, Spong CY, Madhuranthakam AJ, Twickler DM, Fei B. Placenta accreta spectrum and hysterectomy prediction using MRI radiomic features. In Medical Imaging 2022: Computer-Aided Diagnosis 2022 Apr 4 (Vol. 12033, pp. 394-399). SPIE.

Leitch K, Halicek M, Shahedi M, Little JV, Chen AY, Fei B. Detecting aggressive papillary thyroid carcinoma using hyperspectral imaging and radiomic features. In Medical Imaging 2022: Computer-Aided Diagnosis 2022 Apr 4 (Vol. 12033, pp. 537-544). SPIE.

Huang J, Guo J, Pedrosa I, Fei B. Deep learning-based deformable registration of dynamic contrast enhanced MR images of the kidney. In Medical Imaging 2022: Image-Guided Procedures, Robotic Interventions, and Modeling 2022 Apr 4 (Vol. 12034, pp. 213-222). SPIE.

Dormer JD, Villordon M, Shahedi M, Do QN, Xi Y, Lewis MA, Madhuranthakam AJ, Herrera CL, Spong CY, Twickler DM, Fei B. CascadeNet for hysterectomy prediction in pregnant women due to placenta accreta spectrum. In Medical Imaging 2022: Image Processing 2022 Apr 4 (Vol. 12032, pp. 156-164). SPIE.

Ma L, Little JV, Chen AY, Myers L, Sumer BD, Fei B. Automatic detection of head and neck squamous cell carcinoma on histologic slides using hyperspectral microscopic imaging. Journal of Biomedical Optics. 2022 Apr;27(4):046501.

Mehta R, Filos A, Baid U, Sako C, McKinley R, Rebsamen M, Dätwyler K, Meier R, Radojewski P, Murugesan GK, Nalawade S, Fei B. QU-BraTS: MICCAI BraTS 2020 Challenge on Quantifying Uncertainty in Brain Tumor Segmentation-Analysis of Ranking Scores and Benchmarking Results. Journal of Machine Learning for Biomedical Imaging. 2022;1.

Shahedi M, Dormer JD, Halicek M, Fei B. The effect of image annotation with minimal manual interaction for semiautomatic prostate segmentation in CT images using fully convolutional neural networks. Medical physics. 2022 Feb;49(2):1153-60.

Yogananda CGB, Shah BR, Yu FF, Nalawade SS, Holcomb J, Reddy D, Wagner BC, Pinho MC, Mickey B, Patel TR, Fei B, Madhuranthakam AJ, Maldjian JA. 5 – Simultaneous brain tumor segmentation and molecular profiling using deep learning and T2w magnetic resonance images, Brain Tumor MRI Image Segmentation Using Deep Learning Techniques,
Academic Press, 2022, Pages 57-79.

Nalawade SS, Fang FY, Yogananda CG, Murugesan GK, Shah BR, Pinho MC, Wagner BC, Xi Y, Mickey B, Patel TR, Fei B. Brain tumor IDH, 1p/19q, and MGMT molecular classification using MRI-based deep learning: an initial study on the effect of motion and motion correction. Journal of Medical Imaging. 2022 Jan;9(1):016001.

Shahedi M, Spong CY, Dormer JD, Do QN, Xi Y, Lewis MA, Herrera C, Madhuranthakam AJ, Twickler DM, Fei B. Deep learning-based segmentation of the placenta and uterus on MR images. Journal of Medical Imaging. 2021 Sep;8(5):054001.

Shabestri B, Anastasio MA, Fei B, Leblond F. Special Series Guest Editorial: Artificial Intelligence and Machine Learning in Biomedical Optics. Journal of biomedical optics. 2021 May;26(5).

Yogananda CG, Shah BR, Nalawade SS, Murugesan GK, Yu FF, Pinho MC, Wagner BC, Mickey B, Patel TR, Fei B, Madhuranthakam AJ. MRI-based deep-learning method for determining glioma MGMT promoter methylation status. American Journal of Neuroradiology. 2021 May 1;42(5):845-52.

Zhou X, Ma L, Brown W, Little JV, Chen AY, Myers LL, Sumer BD, Fei B. Automatic detection of head and neck squamous cell carcinoma on pathologic slides using polarized hyperspectral imaging and machine learning. In Medical Imaging 2021: Digital Pathology 2021 Feb 15 (Vol. 11603, p. 116030Q). International Society for Optics and Photonics.

Xi Y, Shahedi M, Do QN, Dormer J, Lewis MA, Fei B, Spong CY, Madhuranthakam AJ, Twickler DM. Assessing reproducibility in magnetic resonance (MR) radiomics features between deep-learning segmented and expert manual segmented data and evaluating their diagnostic performance in pregnant women with suspected placenta accreta spectrum (PAS). In Medical Imaging 2021: Computer-Aided Diagnosis 2021 Feb 15 (Vol. 11597, p. 115972P). International Society for Optics and Photonics.

Tao L, Ma L, Xie M, Liu X, Tian Z, Fei B. Automatic segmentation of the prostate on MR images based on anatomy and deep learning. In Medical Imaging 2021: Image-Guided Procedures, Robotic Interventions, and Modeling 2021 Feb 15 (Vol. 11598, p. 115981N). International Society for Optics and Photonics.

Ma L, Shahedi M, Shi T, Halicek M, Little JV, Chen AY, Myers LL, Sumer BD, Fei B. Pixel-level tumor margin assessment of surgical specimen in hyperspectral imaging and deep learning classification. In Medical Imaging 2021: Image-Guided Procedures, Robotic Interventions, and Modeling 2021 Feb 15 (Vol. 11598, p. 1159811). International Society for Optics and Photonics.

Caughlin K, Shahedi M, Shoag JE, Barbieri C, Margolis D, Fei B. Three-dimensional prostate CT segmentation through fine-tuning of a pre-trained neural network using no reference labeling. InMedical Imaging 2021: Image-Guided Procedures, Robotic Interventions, and Modeling 2021 Feb 15 (Vol. 11598, p. 115980L). International Society for Optics and Photonics.

Tian Z, Li X, Zheng Y, Chen Z, Shi Z, Liu L, Fei B. Graph‐convolutional‐network‐based interactive prostate segmentation in MR images. Medical physics. 2020 Sep;47(9):4164-76.

Yogananda CG, Shah BR, Nalawade S, Murugesan GK, Frank FY, Pinho MC, Wagner BC, Mickey B, Patel TR, Fei BW, Madhuranthakam AJ, Maldjian JA. MRI-based deep learning method for determining methylation status of the 06 methylguanne DNA methyltransferase promoter outperforms tissue based methods in brain gliomas. bioRxiv 2020.

Tran CT, Halicek M, Dormer JD, Tandon A, Hussain T, Fei BW (Corresponding author). Fully automated segmentation of the right ventricle in patients with repaired Tetralogy of Fallot using U-Net. Medical Imaging 2020: Biomedical Applications in Molecular, Structural, and Functional Imaging; 11317(113171M). International Society for Optics and Photonics,

Bangalore Yogananda CG, Shah BR, Vejdani-Jahromi M, Nalawade SS, Murugesan GK, Yu FF, Pinho MC, Wagner BC, Mickey B, Patel TR, Fei BW (Corresponding author). A novel fully automated MRI-based deep-learning method for classification of IDH mutation status in brain gliomas. Neuro-oncology; 22(3):402-11.

Shahedi M, Halicek M, Dormer JD, Fei BW (Corresponding author). Incorporating minimal user input into deep learning based image segmentation. Medical Imaging 2020: Image Processing; 11313(1131313). International Society for Optics and Photonics,

Mavuduru A, Halicek M, Shahedi M, Little JV, Chen AY, Myers LL, Fei BW (Corresponding author). Using a 22-layer U-Net to perform segmentation of squamous cell carcinoma on digitized head and neck histological images. Medical Imaging 2020: Digital Pathology; 11320(113200C). International Society for Optics and Photonics,

Shahedi M, Dormer JD, TT AD, Do QN, Xi Y, Lewis MA, Madhuranthakam AJ, Twickler DM, Fei BW (Corresponding author). Segmentation of uterus and placenta in MR images using a fully convolutional neural network. Medical Imaging 2020: Computer-Aided Diagnosis; 11314(113141R). International Society for Optics and Photonics,

Mahajan A, Dormer J, Li Q, Chen D, Zhang Z, Fei BW (Corresponding author). Siamese neural networks for the classification of high-dimensional radiomic features. Medical Imaging 2020: Computer-Aided Diagnosis; 11314(113143Q). International Society for Optics and Photonics,

Ortega S, Halicek M, Fabelo H, Guerra R, Lopez C, Lejeune M, Godtliebsen F, Callico GM, Fei BW (Corresponding author). Hyperspectral imaging and deep learning for the detection of breast cancer cells in digitized histological images. Medical Imaging 2020: Digital Pathology; 11320(113200V). International Society for Optics and Photonics,

Halicek M, Ortega S, Fabelo H, Lopez C, Lejeune M, Callico GM, Fei BW (Corresponding author). Conditional generative adversarial network for synthesizing hyperspectral images of breast cancer cells from digitized histology. Medical Imaging 2020: Digital Pathology; 11320(113200U). International Society for Optics and Photonics,

Ma L, Halicek M, Zhou X, Dormer J, Fei BW (Corresponding author). Hyperspectral microscopic imaging for automatic detection of head and neck squamous cell carcinoma using histologic image and machine learning. Medical Imaging 2020: Digital Pathology; 11320(113200W). International Society for Optics and Photonics,

Selim M, Zhang J, Fei BW, Zhang GQ, Chen J. STAN-CT: Standardizing CT Image using Generative Adversarial Network. arXiv preprint; arXiv: 2004.01307.

Hao D, Ding S, Qiu L, Lv Y, Fei BW, Zhu Y, Qin B. Sequential vessel segmentation via deep channel attention network. Neural Networks.

Twickler DM, Do QN, Yin Xi, Shahedi M, Dormer J, Devi TT A, Lewis MA, Spong CY, Dashe JS, Madhuranthakam A, Fei BW (Corresponding author). 228: Automated segmentation of the human placenta and uterus with MR imaging using artificial intelligence (AI). American Journal of Obstetrics & Gynecology; 222(1): S158-S159.

Ma L, Lu G, Wang D, Qin X, Chen ZG, Fei BW (Corresponding author). Adaptive deep learning for head and neck cancer detection using hyperspectral imaging. Visual Computing for Industry, Biomedicine, and Art; 2(1): 1-12.

Nalawade S, Murugesan GK, Vejdani-Jahromi M, Fisicaro RA, Yogananda GCB, Wagner B, Mickey B, Maher E, Pinho MC, Fei BW, Madhuranthakam AJ, Maldjian JA. Classification of brain tumor isocitrate dehydrogenase status using MRI and deep learning. Journal of Medical Imaging; 6(4): 046003.

Shahedi M, Halicek M, Dormer JD, Schuster DM, Fei BW (Corresponding author). Deep learning-based three-dimensional segmentation of the prostate on computed tomography images. Journal of Medical Imaging;6(2):025003.

Halicek M, Little JV, Wang X, Chen AY, Fei BW (Corresponding author). Optical biopsy of head and neck cancer using hyperspectral imaging and convolution neural networks. Journal of Biomedical Optics;24(3):1-9.

Fei BW, Callicó GM, Morera J, Szolna A, Sarmiento R, Ortega S, Halicek M, Himar F. Surgical aid visualization system for glioblastoma tumor identification based on deep learning and in-vivo hyperspectral images of human patients. Proceedings of SPIE 2019: Image-Guided Procedures, Robotic Interventions, and Modeling.

Shahedi M, Ma L, Halicek M, Guo R, Zhang G, Schuster DM, Nieh P, Master VA, Fei BW (Corresponding author). A semiautomatic algorithm for three-dimensional segmentation of the prostate on CT images using shape and local texture characteristics. Proceedings of SPIE: The Internation Society for Optical Engineering;10576.

Shahedi M, Halicek M, Liu L, Zhang Z, Schuster DM, Fei BW (Corresponding author). A semiautomatic segmentation method for the prostate in magnetic resonance images using local texture classification and statistical shape modeling. The Annual Meeting of the Biomedical Engineering Society.

Shahedi M, Halicek M, Liu L, Zhang Z, Schuster DM, Fei BW (Corresponding author). A semiautomatic segmentation method for the prostate in magnetic resonance images using local texture classification and statistical shape modeling. Medical Physics;45(6):2527-2541.

Halicek M, Shahedi M, Wang X, Little JV, Patel M, Griffith CC, El-Diery MW, Chen AY, Fei BW (Corresponding author). Automated detection of squamous cell carcinoma from head and neck cancer patients in digitized whole-slide histological images using deep learning. The Annual Meeting of the Biomedical Engineering Society.

Dormer JD, Halicek M, Ma L, Reilly CM, Schreibmann E, Fei BW (Corresponding author). Convolutional neural networks for the detection of diseased hearts using CT images and left atrium patches. Proceedings of SPIE: The International Society for Optical Engineering;10575.

Dormer JD, Ma L, Halicek M, Reilly CM, Schreibmann E, Fei BW (Corresponding author). Heart chamber segmentation from CT using convolutional neural networks. Proceedings of SPIE: The International Society for Optical Engineering;10578.

Halicek M, Little JV, Wang X, Patel M, Griffith CC, El-Diery MW, Chen AY, Fei BW (Corresponding author). Optical biopsy of head and neck cancer using hyperspectral imaging and convolution neural networks. Proceedings of SPIE: The Internation Society for Optical Engineering;10469.

Halicek M, Little JV, Wang X, Patel M, Griffith CC, Chen AY, Fei BW (Corresponding author). Tumor margin classification of head and neck cancer using hyperspectral imaging and convolutional neural networks. Proceedings of SPIE: The International Society for Optical Engineering;10576.

Dormer JD, Guo R, Shen M, Jiang R, Wagner MB, Fei BW (Corresponding author). Ultrasound segmentation of rat hearts using convolutional neural networks. Proceedings of SPIE: The International Society for Optical Engineering;10580.

Fei BW (Corresponding author), Computer-aided diagnosis of prostate cancer with MRI, Current Opinion in Biomedical Engineering (In Press, Invited Review)

Tian Z, Liu L, Fei BW, Deep convolutional neural network for prostate MR segmentation, Proc. SPIE 10135, Medical Imaging 2017: Image-Guided Procedures, Robotic Interventions, and Modeling, 101351L, March 3, 2017, Orlando, FL.

Chen X, Jin J, Fei BW, Histogram processing-based image enhancement of digital radiography for detection of cardiac calcification, The World Congress of Medical Physics and Biomedical Engineering, Beijing, China, IFMBE Proceedings 2013, 39, 939-942.

Bebek O, Hwang MJ, Fei BW, Cavusoglu M. Design of a small animal biopsy robot. Proceedings of IEEE Engineering in Medicine and Biology Society 2008; 5601-4. PubMed PMID:19163987.