Allen Ye, MD, PhD

Assistant Professor

Biography

Dr. Ye obtained his MD and his PhD in bioengineering in 2017 at the University of Illinois Chicago in the Medical Scientist Training Program. After his internship at St. Francis Hospital in Evanston, Illinois, he completed his diagnostic radiology residency at the University of California San Francisco in 2022. During that time, he was selected as an NIH T32 research fellow and remained at UCSF to complete a neuroradiology fellowship in 2023. He has received multiple honors for his work including the Dr. Edward P. Cohen Medical Scientist Training Award, the UCSF Resident Research Fund Award, and the UCSF Radiology Outstanding Fellow/Instructor Teaching Award. Dr. Ye has served as director of the Resident Informatics Team and as a representative on the AIIMS (PACS) Steering Committee.

Dr. Ye’s research focuses on utilization and application of advanced magnetic resonance imaging techniques such as anomalous diffusion, elastography, and connectomics in the clinical setting. He has translated these techniques for better characterization of vascular, neurodegenerative, and psychiatric diseases. Dr. Ye also has a strong interest in trauma research and has performed retrospective studies that categorize cervical spine trauma with respect to established trauma classifications and to evaluate the utility of MRI in the setting of isolated prevertebral edema.

Publications

Talbott JF, Shah V, Ye AQ. Diffusion Imaging of the Spinal Cord: Clinical Applications. Radiol Clin North Am. 2024 Mar; 62(2):273-285.
Shah R, Astuto Arouche Nunes B, Gleason T, Fletcher W, Banaga J, Sweetwood K, Ye A, Patel R, McGill K, Link T, Crane J, Pedoia V, Majumdar S. Utilizing a Digital Swarm Intelligence Platform to Improve Consensus Among Radiologists and Exploring Its Applications. J Digit Imaging. 2023 04; 36(2):401-413.
Ye AQ, Reyes MF, Lester F, Ye J, Umetsu S, Poder L, Shum DJ, Choi HH. Boba sign with a twist - A variant presentation of a mature cystic teratoma complicated by torsion and rupture. Clin Imaging. 2022 Mar; 83:28-32.
Gatto RG, Ye AQ, Colon-Perez L, Mareci TH, Lysakowski A, Price SD, Brady ST, Karaman M, Morfini G, Magin RL. Detection of axonal degeneration in a mouse model of Huntington's disease: comparison between diffusion tensor imaging and anomalous diffusion metrics. MAGMA. 2019 Aug; 32(4):461-471.
Schwartz BL, Yin Z, Yasar TK, Liu Y, Khan AA, Ye AQ, Royston TJ, Magin RL. Scattering and Diffraction of Elastodynamic Waves in a Concentric Cylindrical Phantom for MR Elastography. IEEE Trans Biomed Eng. 2016 11; 63(11):2308-2316.
Ye AQ, Ajilore OA, Conte G, GadElkarim J, Thomas-Ramos G, Zhan L, Yang S, Kumar A, Magin RL, G Forbes A, Leow AD. The intrinsic geometry of the human brain connectome. Brain Inform. 2015 Dec; 2(4):197-210.
Ye AQ, Ajilore OA, Conte G, GadElkarim J, Thomas-Ramos G, Zhan L, Yang S, Kumar A, Magin RL, G Forbes A, Leow AD. The intrinsic geometry of the human brain connectome. Brain Inform. 2015; 2:197-210.
Ravindran S, Kotecha M, Huang CC, Ye A, Pothirajan P, Yin Z, Magin R, George A. Biological and MRI characterization of biomimetic ECM scaffolds for cartilage tissue regeneration. Biomaterials. 2015 Dec; 71:58-70.
Gatto RG, Chu Y, Ye AQ, Price SD, Tavassoli E, Buenaventura A, Brady ST, Magin RL, Kordower JH, Morfini GA. Analysis of YFP(J16)-R6/2 reporter mice and postmortem brains reveals early pathology and increased vulnerability of callosal axons in Huntington's disease. Hum Mol Genet. 2015 Sep 15; 24(18):5285-98.
Ye AQ, Zhan L, Conrin S, GadElKarim J, Zhang A, Yang S, Feusner JD, Kumar A, Ajilore O, Leow A. Measuring embeddedness: Hierarchical scale-dependent information exchange efficiency of the human brain connectome. Hum Brain Mapp. 2015 Sep; 36(9):3653-65.
Meerschaert MM, Magin RL, Ye AQ. Anisotropic fractional diffusion tensor imaging. J Vib Control. 2016 May; 22(9):2211-2221.
Ye AQ, Hubbard Cristinacce PL, Zhou FL, Yin Z, Parker GJ, Magin RL. Diffusion tensor MRI phantom exhibits anomalous diffusion. Annu Int Conf IEEE Eng Med Biol Soc. 2014; 2014:746-9.
Mateescu GD, Ye A, Flask CA, Erokwu B, Duerk JL. In vivo assessment of oxygen consumption via Deuterium Magnetic Resonance. Adv Exp Med Biol. 2011; 701:193-9.
Li W, Lu M, Banerjee S, Zhong J, Ye A, Molter J, Yu X. Ex vivo diffusion tensor MRI reflects microscopic structural remodeling associated with aging and disease progression in normal and cardiomyopathic Syrian hamsters. NMR Biomed. 2009 Oct; 22(8):819-25.