Doctor of Philosophy
PhDOverview
The PhD program in Epidemiology and Clinical Research provides methodologic and interdisciplinary training to equip students to conduct cutting-edge epidemiologic research and develop new methodology. The program trains students in the tools of modern epidemiology, with heavy emphasis on statistics, causal inference, computer science, genetics, genomics, and informatics. We welcome applicants with diverse backgrounds.
Requirements
Program Requirements
Core Courses
Except for EPI 264, all Core Courses must be taken for a letter grade and passed with a grade of B or higher. A grade of B- or lower triggers automatic review by the PhD Program Committee, which will determine the remediation plan and, in some cases, whether the student can continue in the PhD program.
Core Epidemiology Sequence (11 units)
Research Seminars and Grant Writing (8 units)
3 quarters of EPI 236 are required. Students are encouraged to attend more.
Students are required to take EPI 246 in spring quarter of year 1 and spring quarter of year 2. Students must register for this course to earn the units. All PhD students are encouraged to attend EPI 246 seminars even when unregistered.
BIOS 242 and BIOS 425 are recommended to take in spring quarter of year 2.
Methodologic Coursework (9 units)
BMDS 215
Data Science for Medicine
BMDS 217
Translational Bioinformatics
CS 106A
Programming Methodology
CS 229
Machine Learning
CS 246
Mining Massive Data Sets
EPI 206
Meta-research: Appraising Research Findings, Bias, and Meta-analysis
EPI 219
Evaluating Technologies for Diagnosis, Prediction and Screening
EPI 270
Big Data Methods for Behavioral, Social, and Population Health Research
HRP 252
Outcomes Analysis
HRP 392
Introduction to Cost-Effectiveness Analysis: Evaluating Benefits and Costs of Health Interventions
STATS 200
Introduction to Theoretical Statistics
STATS 202
Statistical Learning and Data Science
STATS 203
Regression Models and Analysis of Variance
STATS 204
Sampling
STATS 205
Introduction to Nonparametric Statistics
STATS 207
Time Series Analysis
STATS 270
Bayesian Statistics
Any 200-level STATS course (other than STATS 260) will fulfill the requirement.
Note: If you are interested in another course, please check with the PhD program director or advisor to make sure that it is compatible with this requirement.
Specializations and Electives (9 units, at least 3 different substantive content areas)
Students must take electives from at least three substantive content areas for a minimum of 9 units. Below are examples of different areas and a longer list of electives. Students should check with the PhD program director and/or their advisor to determine if other classes are compatible with this requirement.
Examples of areas and specializations
Example set 1:
Global Health
EPI 237: Practical Approaches to Global Health Research (IPS 290, MED 226)
Genetic Epidemiology
EPI 224: Genetic Epidemiology (GENE 230)
BIO 247: Genomic Approaches to the Study of Human Disease
Cancer Epidemiology
EPI 253: Cancer Epidemiology and Prevention
Example set 2:
Pharmacoepidemiology
GENE 224/BIOMEDIN 224 opens in a new tab: Principles of Pharmacogenomics
Social and Behavioral Epidemiology
EPI 263: Social Epidemiology
Community-based participatory research
EPI 272: The Science of Community Engagement in Health Research
EPI 282: Community-Based Participatory Research for Health
CHPR 247: Methods in Community Assessment, Evaluation, and Research
Training Grant Requirements - Specializations
The following requirements apply only to students funded by a T32 training grant. Students who are not on a T32 training grant can, but are not required to, complete these courses:
EPI 203: Methods for Reproducible Population Health and Clinical Research
and by the specific T32 grant:
Cancer T32:
CBIO 240: Molecular and Genetic Basis of Cancer
EPI 224: Genetic Epidemiology
EPI 253: Cancer Epidemiology and Prevention
The Cancer T32 curriculum includes additional elective courses. Trainees should discuss with their advisor to make sure their elective courses will help them reach their specific training objectives. Potential electives include (but are not limited to) the following courses. EPI 263: Social Epidemiology; EPI 248: Human Health and the Environment; CHPR 232: Social and Structural Determinants of Health; EPI 282: Community-Based Participatory Research for Health; BIO 247: Genomic Approaches to the Study of Human Disease; COMM 382: Big Data and Causal Inference.
BSSR T32:
EPI 270: Big Data Methods for Behavioral, Social, and Population Health Research
The BSSR curriculum includes additional core requirements across multiple domains (including data mining and machine learning, informatics, and causal inference). Trainees should discuss with their advisor to make sure that they are meeting the programmatic requirements.
For example, this includes, but is not limited to, courses such as STATS 315B, STATS 202, CS 246, and ECON 293 for the Data Mining – Machine Learning requirement; or, BSSR Specialty Offerings in Mobile - Digital Health; Social Medial – Internet Data – Citizen Science Data; and Clinical Trials – Experimental Studies.
BIO 247
Genomic approaches to the study of human disease
CBIO 240
Molecular and Genetic Basis of Cancer
CHPR 242
The Science of Well-being: A Global Perspective
CHPR 247
Pragmatic Skills for Mixed Methods Community Research
CHPR 288
Cancer in Asian Americans: Epidemiology and Prevention
EPI 203
Methods for Reproducible Population Health and Clinical Research
EPI 214
Scientific Writing
EPI 223
Introduction to Data Management and Analysis in SAS & R
EPI 224
Genetic Epidemiology
EPI 231
Epidemiology of Infectious Diseases
EPI 237
Practical Approaches to Global Health Research
EPI 238
Genes and Environment in Disease Causation: Implications for Medicine and Public Health
EPI 240
Reproductive and Perinatal Epidemiology
EPI 244
Developing Measurement Tools for Health Research
EPI 247
Epidemic Intelligence: How to Identify, Investigate and Interrupt Outbreaks of Disease
EPI 248
Human Health and the Environment
EPI 253
Cancer Epidemiology and Prevention
EPI 258
Introduction to Probability and Statistics for Clinical Research
EPI 263
Social Epidemiology
EPI 265
Using Real-World Data for Clinical and Population Health Research
EPI 267
Life Course Epidemiology
EPI 272
The Science of Community Engagement in Health Research
EPI 282
Community-Based Participatory Research for Health
EPI 297
History of Epidemiology
GENE 224
Principles of Pharmacogenomics
HRP 224
Social Entrepreneurship and Innovation Lab (SE Lab) - Human & Planetary Health
HRP 263
Advanced Decision Science Methods and Modeling in Health
HRP 391
Health Law: Finance and Insurance
HRP 392
Introduction to Cost-Effectiveness Analysis: Evaluating Benefits and Costs of Health Interventions
MED 262
Economics of Health Improvement in Developing Countries
EPI 297 is highly recommended.
Upon completion of the required coursework listed above, students may take additional courses as needed to satisfy the university's minimum degree requirement of 135 credits.
Advancement to Candidacy
Epidemiology PhD students must pass the Preliminary Written Exams and the Oral Qualifying Exam before being admitted to candidacy. Please see Admission to Candidacy opens in a new tab for information and form.
Preliminary Written Exams
Doctoral students in Epidemiology and Clinical Research must complete and pass the Preliminary Written Exam given around the end of winter term of their second year of full-time enrollment in the program. This exam marks the transition from full-time coursework to the research phase for PhD students and assesses readiness for this transition. The goal is to ensure that students are set up for success as they begin working on their dissertation proposals and research in earnest. This evaluation is designed to examine students’ ability to apply fundamental epidemiologic and biostatistical principles and methods based on knowledge from the core courses listed below.
EPI 225: Introduction to Epidemiologic and Clinical Research Methods
EPI 226: Intermediate Epidemiologic and Clinical Research Methods
EPI 227: Advanced Epidemiologic Methods
EPI 264: Foundations of Statistical and Scientific Inference (STATS 264)
EPI 259: Introduction to Probability and Statistics for Epidemiology
EPI 261: Intermediate Biostatistics: Analysis of Discrete Data (BIOMEDIN 233, STATS 261)
EPI 262: Intermediate Biostatistics: Regression, Prediction, Survival Analysis
Each year, the exam will be written by a subcommittee composed of the Epidemiology Program core faculty. Clarifying questions should be directed at the PhD director. Details of the exam, including the timing and process for any given year (e.g., exam dates, faculty contact), will be in a separate document produced each year. Every member of the faculty subcommittee will independently evaluate each exam and be blind to student identity during grading. The subcommittee will then convene and discuss student responses (still blinded) and come to a consensus on the overall outcome for each student.
Students are encouraged to study together and review core course materials, which are the foundation of the exams. The exam will take place over two consecutive days. [JS1]
Day one: A closed-book written exam will test core epidemiologic concepts in short-form including multiple choice, brief calculations, and short answer response questions. This part of the exam assesses critical foundational knowledge that epidemiologists are expected to have mastered. This exam will last a total of three hours.
Day two: Students will be given a paper to read and a series of epidemiology questions based on that paper. This will require in-depth thinking and may include content such as short essay questions, calculations, study design, and/or a mock peer review of a journal article. Students will have from 8:00 a.m. to 5:00 p.m. to complete the exam.
Oral Qualifying Exam
Epidemiology PhD students must pass the Oral Qualifying Exam before advancing to candidacy. Students must demonstrate adequate knowledge of epidemiology and related fields and the potential to conduct and present original research.
Timing of the Oral Exam:
Students should take their Oral Qualifying Exam by the end of autumn quarter of Year 3 of their PhD career. To be eligible to take the exam, students must have:
Passed the preliminary examination (typically given in the winter quarter of Year 2)
Identified a Primary Research Advisor who is affiliated with EPH and is willing to supervise the student’s PhD program and dissertation
Completed the entire epidemiology PhD core curriculum
Maintained a Stanford graduate GPA of at least 3.0
Purpose of the Exam:
The Oral Qualifying exam has several goals:
To encourage students to review and synthesize their graduate learning
To ensure that the student has adequate breadth and depth of knowledge in epidemiology and related fields
To determine whether the student has sufficient breadth and depth of knowledge of the dissertation topic, including, where relevant, a clear understanding of the pathogenesis of the disease under investigation
To determine whether the student has adequate analytic and communication skills to be a successful PhD student and independent scholar
To identify potential areas of weakness that the student may need to strengthen before graduation
Logistics of the Oral Exam:
The exam consists of two parts: A public presentation and a closed-door session.
1. Public Presentation: The student will give a 20-minute talk (open to faculty and students), followed by a 10-minute question-and-answer session. The talk should focus on a particular research project the student intends to include as part of their doctoral thesis. Typically, the thesis consists of three research papers. The talk should focus on one of these. The research does not have to be completed but may be planned or in progress.
2. Closed-Door Session: The closed-session oral exam will last up to 1.5 hours, during which time the student will answer additional questions posed by the committee members. The session is closed-book with no notes allowed. Students can prepare a handful of extra slides (maximum of 10) for complex figures or diagrams to aid in conversation during the examination. Questions should probe the students’ breadth and depth of knowledge in the examination area and their ability to apply it to specific problems. The research advisor should refrain from responding to questions for candidate from other committee members so as not to act as an advocate or interpreter.
Evaluation:
Committee members will evaluate students on the following elements:
1. Depth of knowledge in their examination area (e.g., neuroepidemiology, biostatistics)
2. Breadth of knowledge in their examination area
3. Ability to apply their knowledge to specific problems
4. Analytic abilities (the ability to reason logically and “think on their feet” when given challenging questions)
5. Communication skills (as evidenced by their written proposal, public talk, and spoken answers to questions)
Oral Exam
Oral Examinations and Dissertation Draft
Students begin working on their dissertation after passing the oral qualifying exam in Year 3. Upon completion students submit their thesis to the Registrar and graduate. PhD students in Epidemiology and Population Health tend to complete the program in 4 to 4.5 years (median 4.3 years).
The defense consists of two parts:
1. Public Seminar: The student will give a 30-minute talk open to faculty and students, followed by a 15-minute question and answer session.
2. Closed-Door Session: The closed session will be at least 90 minutes, during which the student will answer additional questions posed by the committee members.
See EPH Education Handbook opens in a new tab for additional details.
Dissertation
Dissertation Overview
Dissertations can be any combination of substantive, methodologic, or theoretical topics as long as they fall under the student’s area of specialty or are linked by a common methodologic approach. There must be some substantive methodologic innovation in at least one part of the dissertation. Two formats are accepted: The candidate can prepare three papers for publication linked by an articulated theoretical perspective and substantive areas. Alternatively, the candidate can prepare a traditional dissertation (including sections on problem formulation, theory, hypotheses, methods, data analysis, findings, and study implications).
Substantive methodologic innovation is defined as: (1) developing a novel methodologic approach, (2) evaluating a novel methodology (e.g., through simulation studies), (3) using an existing methodology in a novel way, or (4) exploiting or linking large datasets in novel ways to answer epidemiologic or clinical questions.
The dissertation should contain the following elements, at a minimum, and must also meet University formatting requirements:
1. 1-page lay summary. Students will clearly articulate what they accomplished and why it is important.
2. 2-page introduction. Students will highlight their research's overall background, significance, and aims, as well as the connecting themes of their three projects.
3. Body of the thesis. Students will include three papers for publication, each of which will consist of an expanded methodology section. The expanded methodology section will contain more written detail than would typically be included in a published manuscript and additional tables and figures. Students opting for a traditional dissertation will consist of sections on problem formulation, theory, hypotheses, methods, data analysis, findings, and study implications.
4. Conclusion. Students will succinctly synthesize the meaning and impact of their findings while tying together disparate themes from the papers/chapters and presenting a vision for future research needs in the area—minimum of three pages.
Detailed guidelines for the preparation and submission of dissertations are published on the Registrar’s Office of Student Affairs: Dissertation and Thesis Submission. opens in a new tab

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