Clinician Educator Track (2 years)

Overview

The Clinician Educator Track provides training to fellows interested in pursuing a career with a clinical, education, and/or leadership focus (more so than research). The first year of this fellowship track is very similar in structure to that of fellows in the research track and consists primarily of inpatient consult rotations at our various training sites. The second year of the fellowship is individualized based on the fellow's Area of Emphasis and career goals, and includes a combination of clinical rotations, coursework, and protected time for scholarly projects. Potential Areas of Emphasis within the Clinician Educator Track include (but are not limited to):

Antimicrobial Stewardship
General Infectious Diseases
HIV Medicine
Infection Prevention and Hospital Epidemiology
Medical Education
Transplant ID (solid organ and bone marrow transplant)

Year 1 Clinician Educator Sample Schedule

General ID	Hillcrest	8 weeks
	Jacobs	6-8 weeks
	San Diego VA	12 weeks
Antimicrobial Stewardship, Infection Prevention, and Quality Improvement	San Diego VA	6 weeks
HIV Medicine		4 weeks
Oncologic ID		6 weeks
Solid Organ Transplant ID		4 weeks
Microbiology Lab		2 weeks
ID Outpatient Clinic		½ day weekly
Vacation/CME		4 weeks

Year 2 Clinician Educator Sample Schedule

Area of Emphasis	Rotations, Clinic, Scholarship
HIV Medicine	· 4 months of inpatient HIV Medicine · 1 month of another inpatient ID service · 6 months of scholarly project · Weekly HIV continuity clinic · 4 weeks of vacation/CME
Transplant ID	· 3 months of SOT ID · 3 months of Onc ID · 5 months of weekly SOT/Onc ID clinic · 5 months of scholarly project · Weekly HIV continuity clinic · 4 weeks of vacation/CME
Antimicrobial Stewardship / IPCE	· 1 month of General ID · 1 month of SOT · 1 month of Onc ID · 1 month of HIV Medicine · 7 months of scholarly project · 7 months of weekly ID clinic · Weekly HIV continuity clinic · 4 weeks of vacation/CME

Research Track (3 years)

Overview

The Research Track provides training for fellows interested in pursuing a research career (including basic, translational, clinical, epidemiology, and/or global health research). The first year of this fellowship track is very similar to the first year of the Clinician Educator Track and consists primarily of inpatient consult rotations at our various training sites. During the second and third years, fellows spend the majority of their time (~80%) working with a mentor on a research project. Fellows are supported by T32 training grants during their 2^nd and 3^rd year of fellowship, focusing either on general infectious diseases and antimicrobial resistance or HIV.

Year 1 Research Track Sample Schedule

General ID	Hillcrest	4-8 weeks
	Jacobs	4-8 weeks
	San Diego VA	12 weeks
Antimicrobial Stewardship, Infection Prevention, and Quality Improvement	San Diego VA	12 weeks
HIV Medicine		4-6 weeks
Oncologic ID		4-6 weeks
Solid Organ Transplant ID		4-6 weeks
Microbiology Lab		2 weeks
ID Outpatient Clinic		½ day weekly
Vacation/CME		4 weeks

Year 2 Research Track Sample Schedule

Research	42 weeks
Inpatient ID consult rotations	6 weeks
HIV continuity clinic	½ day weekly
Vacation/CME	4 weeks

Year 3 Research Track Sample Schedule

Research	44 weeks
Inpatient ID consult rotations	4 weeks
HIV continuity clinic	½ day weekly
Vacation/CME	4 weeks

Research Mentors

The following provides a brief list of our research mentors within and outside of the ID division. Mentors are divided here into three different cores (antimicrobial resistance, HIV and other pandemics, and Epidemiology/Global Public Health), however, fellows many have research mentoring teams that include mentors from different cores. Fellows may work with mentors not included in these lists.

Research Faculty Mentors for Antimicrobial Resistance Core

Participating Faculty	Degree(s)	Rank	Primary Department or Program	Research Interest
Ayres, Janelle	PhD	Adjunct Professor	Biology	Evolutionary theory to understand microbe regulation of host physiology
Benson, Constance	MD	Professor	Medicine	HIV/AIDS, viral hepatitus, influenza, TB clinical and translational research
Bradley, John	MD	Professor	Pediatrics	Innovative therapies for bacterial and viral infections
Carlin, Aaron	MD, PhD	Assistant Professor	Medicine	Emerging Infectious Diseases, Host-pathogen interactions, genome-wide approaches to understanding pathogenesis; developing novel diagnostics and antimicrobials
Chu, Huitung	PhD	Assistant Professor	Pathology	Commensal microbe communication with Immune System
Crotty, Shane	PhD	Adjunct Professor	Medicine	Vaccine Immunology
Dorrestein, Pieter	PhD	Professor	Skaggs School of Pharmacy and Pharmaceutical Sciences	Mass Spectrometry characterization of metabolic interactions between cell populations
Fraley, Stephanie	PhD	Assistant Professor	Bioengineering	Mechanisms of cell migration, developing clinical profiling technologies
Gallo, Richard	MD	Professor	Dermatology	Skin biology and innate host defense
Gilbert, Jack	PhD	Professor	Pediatrics	Hospital microbial community in disease transmission and AMR gene reservoir
Glass, Christopher	MD,PhD	Professor	Cellular and Molecular Medicine	Regulation of inflammation
Knight, Rob	PhD	Professor	Pediatrics	Computational Biology, Genomics, and Human Microbiome
Ley, Klaus	MD	Adjunct Professor	Bioengineering	Control of host inflammation in response to infection
Liu, George	MD,PhD	Professor	Pediatrics	Host pathogen interactions of MRSA, GBS, P. acnes
McKerrow, James	MD,PhD	Professor	Skaggs School of Pharmacy and Pharmaceutical Sciences	Discovery and Development of new drugs for neglected tropical diseases
Moore, Bradley	PhD	Professor	Skaggs School of Pharmacy and Pharmaceutical Sciences	Mechanisms in microbial antibiotic production, bioactive natural products
Nizet, Victor	MD	Professor	Pediatrics	Bacterial Pathogenesis, Innate Immunity, novel aproaches to combat AMR
Palsson, Bernhard	PhD	Professor	Bioengineering	Systems Biology studys of genome to phenotype
Pogliano, Joseph	PhD	Professor	Biology	Cell biological tools to study mechanisms of antibiotic targeting of essential cellular processes
Pride, David	MD,PhD	Associate Professor	Pathology	RNA and DNA virus contribution to pathogenesis and affect on host bacterial communities
Raffatellu, Manuela	MD	Professor	Pediatrics	Immune response to mucosal pathogen infection
Rana, Tariq	PhD	Professor	Pediatrics	RNA, stem cell, and chemical biology to discover pathways of human vial infections
Sakoulas, George	MD	Adjunct Professor	Pediatrics	Drug synergies with host innate immunity
Schooley, Robert	MD	Professor	Medicine	Global Infectious Disease, antiviral nanotherapies, phage therapy
Shresta, Sujan	PhD	Associate Professor	Medicine	Immunology and Virology of mosquito-borne pathogens
Siddiqui, Aleem	PhD	Professor	Medicine	Molecular Virology, hepatitus viruses and hepatocellular carcinoma
Steinmetz, Nicole	PhD	Professor	Nanoengineering	Design, development, and testing of biologics derived from plant viruses
Tan, Gene	PhD	Assistant Adjunct Professor	Medicine	Virus-host interaction analyses
Winzeler, Elizabeth	PhD	Professor	Pediatrics	Genome-wide methods identifying antimalarial drug resistance genes
Zhang, Liangfang	PhD	Professor	nanoengineering	Biomimetic nanomedicine for drug delivery, detoxification, and vaccination

Research Faculty Mentors for HIV and other Pandemics Core

Name	Degree(s)	Rank	Primary Department or Program	Research Interest
Bamford, Laura	MD	Associate Professor	Medicine	HIV and HCV treatment and prevention in individuals with a history of opioid use disorder and injection drug use
Benson, Constance	MD	Professor	Medicine	Antiretrovirals therapeutics, TB and HIV-related coinfections and comorbidities
Bharti, Ajay	MD	Associate Professor	Medicine	Adverse effects on brain function of co-infections such as hepatitis C, toxoplasmosis, malaria, and latent TB among persons living with HIV
Brouwer, Kimberly	PhD	Professor	SPH	HIV epidemiology, Social and spatial epidemiology among marginalized populations; access to care
Carlin, Aaron	MD, PhD	Assistant Professor	Medicine	Emerging Infectious Diseases, Host-pathogen interactions, genome-wide approaches to understanding pathogenesis; developing novel diagnostics and antimicrobials
Chanda, Sumit	PhD	Research Assistant Professor	Sanford Burnham	HIV-host interactions
Crotty, Shane	PhD	Professor	LJI	CD4 T cell and germinal center reponses to candidate HIV vaccines
De Gruttola, Victor	Sc.D.	Research Professor & Visiting Scholar	Medicine/Harvard	Clinical and epidemiological research on HIV infection prevention and treatment
Ellis, Ronald	MD, PhD	Professor	Neuroscience	Neurological complications of HIV infection and substance use
Garfein, Richard	PhD, MPH	Professor	SPH	Investigation and intervention on the infectious disease consequences of substance Use
Gianella Weibel, Sara	MD	Associate Professor	Medicine	Translational virology, molecular biology and immunology, viral co-infections
Guatelli, John	MD	Professor	Medicine	The molecular virology and cell biology of two accessory genes of HIV-1: vpu and nef
Letendre, Scott	MD	Professor	Medicine	Pathogenesis and treatment of HIV comorbidities and neurologic infections
Little, Susan	MD	Professor	Medicine	Translational research related to transmission, prevention and pathogenesis of major viral pathogens
Looney, David	MD	Associate Professor	Medicine	Gene theraphy of HIV/AIDS using lentiviral vectors expressing RNAs (ribozymes, antisense RNA or siRNA
Martin, Natasha	PhD, DPhil	Associate Professor	Medicine	Epidemic and economic modeling of HIV and related infectious disease transmission and prevention
Mehta, Sanjay	MD	Associate Professor	Medicine	Molecular epidemiology of HIV
Moore, David	PhD	Professor	Psychiatry	Co-occuring conditions among persons with HIV, including mood disorders and substance use
Morris, Sheldon	MD	Associate Professor	Medicine	PrEP, STD
Nizet, Victor	MD	Professor	Pediatrics	bacterial pathogenesis and the innate immune system, with focus on human streptococcal and staphylococcal infections and emerging antibiotic-resistant pathogens
Richman, Douglas	MD	Professor Emeritus	Pathology	HIV latency
Rodwell, Timothy	MD	Associate Professor	Medicine	Infectious disease diagnostics with an emphasis on the development and implementation of rapid molecular diagnostics for TB
Schooley, Robert	MD	Professor	Medicine	Viral pathogenesis and therapy
Smith, Davey	MD, MAS	Professor	Medicine	Sexual transmission of HIV, acute HIV infection, drug resistance, genetic networks, virology
Stockman, Jamila	PhD, MPH	Associate Professor	Medicine	HIV prevention and treatment research in the context of gender-based violence, substance abuse, mental health, and socio-structural barriers
Strathdee, Steffanie	PhD	Professor	Medicine	HIV prevention among substance using populations
Wertheim, Joel	PhD	Associate Professor	Medicine	HIV molecular epidemiology

Research Faculty Mentors for Epidemiology, Behavioral Science, and Global Public Health Core

Name	Degree(s)	Rank	Primary Department or Program	Research Interest
Ayers, John	PhD	Associate professor	Medicine	Online network and social media predictors of public health
Borquez, Annick	PhD	Assistant Professor	Medicine	Substance use and HIV epidemiology
Bazzi, Angela (nee Robertson)	PhD	Associate Professor	Medicine	Improve the utilization of pre-exposure prophylaxis (PrEP) for HIV prevention in PWID
Blashill, Aaron J.	PhD	Assistant Professor	Psychology (SDSU)	Steroid use, sexual minorities, HIV risk behaviors
Brouwer, Kimberly C.	PhD	Associate Professor	Family Medicine and Public Health	HIV epidemiology, Spatial and molecular epidemiology among substance user.
Chambers, Christina	PhD, MPH	Professor	Pediatrics	Environmental causes of birth defects
Corliss, Heather L.	MPH, PhD	Professor	Public Health (SDSU)	Epidemiology of substance use & mental health, sexual minorities, stigma
Davidson, Peter J.	PhD	Associate Professor	Medicine	Harm reduction and HIV, overdose, research ethics, mixed methods
De Gruttola, Victor	ScD	Visiting Scholar	Family Medicine and Public Health	Clinical and epidemiological research on HIV infection prevention and treatment
Fielding-Miller, Rebecca	PhD	Assistant Professor	Medicine	Social and structural drivers of HIV, gender based violence, and COVID-19 in the United States and sub-Saharan Africa.
Gaines, Tommi	PhD	Associate Professor	Medicine	Statistical and spatial methodologies to examine patterns of infectious disease and illicit substance use
Garfein, Richard S.	PhD	Professor	Medicine	Investigation and Intervention on the Infectious Disease Consequences of Substance Use
Grelotti, David J.	MD	Assistant Clinical Professor	Psychiatry	Emergence of illicit drug cocktails mixed with ARVs, treatment of HIV psychosocial syndemics
Horvath, Keith	PhD	Associate Professor	Psychology	mHealth interventions to address the HIV prevention and care continuum for sexual minority men.
Jain, Sonia	PhD	Professor	Family Medicine and Public Health	Biostatistics and clinical trials for HIV/infectious diseases populations
Kiene, Susan M.	PhD	Associate Professor	Public Health (SDSU)	Alcohol and HIV prevention, substance use and HIV co-infections, maternal/child health
Martin, Natasha K.	PhD	Associate Professor and Associate Director	Medicine	Epidemic and economic modeling of HIV and related infectious disease transmission and prevention
Patterson, Thomas L.	PhD	Professor and Co-director	Psychiatry	Behavioral interventions among substance users, RCT design and analysis, psychometrics
Pines, Heather A.	PhD	Assistant Professor	Medicine	HIV/STI transmission dynamics among substance users, molecular epidemiology, Social network analyses
Pitpitan, Eileen V.	PhD	Associate Professor	Medicine	Structural interventions, mediator/moderator analyses
Reed, Elizabeth A.	ScD	Associate Professor	Public Health (SDSU)	Evaluation of economic and structural interventions; HIV, gender-based violence, and substance use
Reed, Mark B.	PhD	Professor	Social Work (SDSU)	Substance use etiology, young adult use trajectories, person-environment and gene-environment interactions and substance use
Shi, Yuyan	PhD	Associate Professor	Public Health	Regulatory, physical, economics, and marketing environments in relation to drug abuse and related consequences
Silverman, Jay	PhD	Professor	Medicine	HIV risks related to sex trafficking and substance use, gender-based violence, adolescent HIV/STI prevention
Skaathun, Britt	PhD	Assistant Professor	Medicine	Using social, sexual, substance and molecular networks for HIV prevention and care
Smith, David M.	MD, MAS	Professor	Medicine	Sexual transmission of HIV, acute HIV infection, drug resistance, genetic networks, virology
Smith, Laramie R.	PhD	Assistant Professor	Medicine	Access to HIV care among substance users
Strathdee, Steffanie A.	PhD	Professor	Medicine	Epidemiology of bloodborne pathogens, injection drug use, design and evaluation of behavioral and structural interventions
Strong, David R.	PhD	Associate Professor	Public Health	Smoking, behavioral interventions, scale development
Stockman, Jamila K.	PhD	Associate Professor	Medicine	Gender-based violence and HIV; HIV and stress
Tsuyuki, Kiyomi	PhD	Assistant Professor	Medicine	Socio-structural barriers and syndemic barriers to HIV testing, ART adherence, and HIV viral suppression
Urada, Lianne	PhD	Assistant Professor	Social Work (SDSU)	Homelessness during COVID-19: Exploring the usability and effects of telehealth interventions on buprenorphine treatment
Vaida, Florin	PhD	Professor	Family Medicine and Public Health	Mixed-effects models, proportional hazards mixed-effects models, model selection, and clinical trials
Vasylyeva, Tetyana	PhD	Assistant Professor	Medicine	Phylodynamics and phylogeography to investigate how social, behavioral and biological factors affect HIV epidemics
Werb, Daniel M.	PhD	Assistant Professor	Medicine	Initiation of drug use and HIV; drug policy evaluation
Wynn, Adriane	PhD	Assistant Professor	Medicine	Harmful alcohol use, HIV, and other sexually transmitted infections in resource-limited
Zuniga, Maria L.	PhD	Professor	Social Work (SDSU)	Behavior among HIV+ Latino/a substance users, HIV stigma, qualitative analysis