Doctors Shanthi Kappagoda and Gina Suh converse during a fellows reception

Infectious Diseases Fellowships

The traditional (research) fellowship in the Division of Infectious Diseases & Geographical Medicine at Stanford offers clinical training and research opportunities to physicians who wish to specialize in infectious diseases. This fellowship is an ACGME-accredited program that combines clinical and research experiences. The primary goal of the program is to prepare trainees for an academic career in either basic science or clinical research.

First Year: Clinical Training

The first year of the training program is dedicated to providing clinical exposure to a broad spectrum of infectious diseases.  Fellows spend the majority of the year rotating through the general infectious diseases consult services at our programs three hospitals  under the supervision of an attending physician.  In addition, fellows rotate through the Immunocompromised Host Service (ICHS) at Stanford, which specializes in the care of patients with malignancies, solid-organ transplants, and hematopoietic cell transplants.  Fellows also spend a month learning fundamental aspects of clinical microbiology and virology at the laboratories at the Hillview site. During this month each fellow also obtains training in infection control/hospital epidemiology at Stanford University Hospital.

A continuity clinic is maintained one half day per week throughout the first two years of training in the program: the first year in general infectious diseases clinic, and the second year in HIV clinic.  Fellows also participate in weekly didactic and research conferences.

Dr. Brian Blackburn, Co-director of the ID fellowship training program, meets with each first year fellow regularly regarding their progress and advises them regarding their clinical and research training.


Second and Third Year: Research

Beginning in the second year, fellows spend the majority of their time involved in research activities. The Division of Infectious Diseases and Geographic Medicine offers an outstanding array of research opportunities in basic, clinical, or translational science supported by NIH training grants and other funding resources.  This is done under the supervision of a mentor(s) who can be chosen from among the diverse and outstanding faculty within the Division of Infectious Diseases.  We also encourage fellows to choose a mentor from any Department at Stanford including the Department of Medicine, Pediatrics (Division of Infectious Diseases), the Department of Microbiology and Immunology, other faculty in the School of Medicine, and the larger Stanford University community (outside of the medical school).  Dr. Lucy Tompkins, Co-director of the ID fellowship training program, is responsible for facilitating each fellow’s research training and selection of mentors beginning in the first year of the program.  She meets with each fellow in the program regularly to assist and advise fellows regarding their progress and facilitates their opportunities for research support.  Each fellow is encouraged to select a faculty advisory panel to meet with them regularly to review and facilitate their research progress.

Fellows typically spend three to six years as postdoctoral fellows in the program.  The division has an outstanding record of success in preparing and placing its trainees in prestigious faculty positions, public health careers, and industry.

For more information about the Division of Infectious Diseases research programs, please visit


Brian Blackburn, MD

Clinical Program Director

Dr. Brian Blackburn specializes in the treatment of infectious diseases. He has practiced for over a decade in this specialty, and has a special interest in travel and tropical medicine, and in infections in patients with compromised immune systems.


Lucy Tompkins, MD

Research Program Director

Since 2010 I have re-focused my research interests in clinical research studies in the general field of healthcare associated infections. One current research project includes a prospective clinical research study of the epidemiology of Clostridium difficile in immunocompromised patients using whole genome sequencing, spatial mapping, and clinical risk factor assessment.