Allen Ye, MD, PhD
Assistant Professor
Radiology
School of Medicine

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.

• The intrinsic geometry of the human brain connectome.
  Brain informatics 2015 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 informatics 2015 Ye AQ, Ajilore OA, Conte G, GadElkarim J, Thomas-Ramos G, Zhan L, Yang S, Kumar A, Magin RL, G Forbes A, Leow AD
• Biological and MRI characterization of biomimetic ECM scaffolds for cartilage tissue regeneration.
  Biomaterials 2015 Ravindran S, Kotecha M, Huang CC, Ye A, Pothirajan P, Yin Z, Magin R, George A
• Analysis of YFP(J16)-R6/2 reporter mice and postmortem brains reveals early pathology and increased vulnerability of callosal axons in Huntington's disease.
  Human molecular genetics 2015 Gatto RG, Chu Y, Ye AQ, Price SD, Tavassoli E, Buenaventura A, Brady ST, Magin RL, Kordower JH, Morfini GA
• Measuring embeddedness: Hierarchical scale-dependent information exchange efficiency of the human brain connectome.
  Human brain mapping 2015 Ye AQ, Zhan L, Conrin S, GadElKarim J, Zhang A, Yang S, Feusner JD, Kumar A, Ajilore O, Leow A
• Anisotropic fractional diffusion tensor imaging.
  Journal of vibration and control : JVC 2015 Meerschaert MM, Magin RL, Ye AQ
• Diffusion tensor MRI phantom exhibits anomalous diffusion.
  Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference 2014 Ye AQ, Hubbard Cristinacce PL, Zhou FL, Yin Z, Parker GJ, Magin RL
• In vivo assessment of oxygen consumption via Deuterium Magnetic Resonance.
  Advances in experimental medicine and biology 2011 Mateescu GD, Ye A, Flask CA, Erokwu B, Duerk JL
• Ex vivo diffusion tensor MRI reflects microscopic structural remodeling associated with aging and disease progression in normal and cardiomyopathic Syrian hamsters.
  NMR in biomedicine 2009 Li W, Lu M, Banerjee S, Zhong J, Ye A, Molter J, Yu X