Biostat III - Survival analysis for epidemiologists
Welcome to Biostatistics III for spring 2017. This course introduces statistical methods for survival analysis with emphasis on the application of such methods to the analysis of epidemiological cohort studies. Topics covered include methods for estimating patient survival (life table and Kaplan-Meier methods), comparing survival between patient subgroups (log-rank test), and modelling survival (primarily Poisson regression and the Cox proportional hazards model). The course addresses the concept of 'time' as a potential confounder or effect modifier and approaches to defining 'time' (e.g., time since entry, attained age, calendar time). The course will emphasise the basic concepts of statistical modelling in epidemiology, such as controlling for confounding and assessing effect modification.
Applications for the course should be made on the KI web (Link-to-apply) between 2016-10-15 and 2016-11-16.
Primary teachers: Mark Clements and Hannah Bower.
Teaching assistants: Anna Johansson, Caroline Weibull, Peter Ström, Elisabeth Dawlqwist and Thorgerdur Palsdottir.
[Click here for faculty biographies]
Date and Location
Teaching (lectures and supervised practical sessions) will be held at KI Solna campus, primarily at the Department of Medical Epidemiology and Biostatistics, Nobelsväg 12A, KI Solna. A map is available at http://ki.se/meb (then click on 'Contact'). See the schedule for further details and specific locations for each day.
The course grade is based solely on a take-home written examination. The content of the examination will be similar to the previous written examinations and also will require you to fit the model using standard statistical software. Instructions:
- The examination is individual-based: you are not allowed to cooperate with anyone, although you are encouraged to consult the available literature. The teachers will use Urkund in order to assess potential plagiarism
- The examination will be made available at noon on Wednesday 15 March 2017 and the examination is due by 17:00 on Monday 27 March 2017.
- The examination will be graded and results will be returned to you by 7 April 2017.
- Students who do not obtain a passing grade in the first examination will be offered a second examination within 2 months of the final day of the course.
- Do not write answers by hand: please use Word, LaTeX or a similar format for your examination report.
- Motivate all answers and show all calculations in your examination report, but write as brief an answer as possible without loss of clarity. Define any notation that you use for equations. The examination report should be written in English.
- You are expected to write computer code to read the data and for your analysis. Include your computer code in your report. You are encouraged to use Stata, R or SAS for your analysis; if you wish to use other software, please contact Mark Clements.
- Email the examination report containing the answers as a pdf file to Gunilla Nilsson Roos. Write your name in the email, but do not write your name in the document containing the answers.
Participants are expected to have prerequisite knowledge equivalent to the learning outcomes of the courses Epidemiology I, Biostatistics I and Biostatistics II. We have provided a self-assessment test for you to confirm that you understand the central concepts. We advise all potential applicants to take the test prior to applying for Biostatistics III. If you attempt the test under examination conditions (i.e., without referring to the answers) we would recommend:
- if you score 70% or more then you possess the required prerequisite knowledge;
- if you score 40% to 70% you should revise the areas where you lost marks;
- if you score less than 40% you should, at a minimum, undertake an extensive review of central concepts in statistical modelling and possibly consider studying intermediate-level courses (e.g., Biostatistics II) before taking Biostatistics III.
Knowledge of Stata is assumed
Participants are expected to possess basic knowledge of Stata (e.g., through using Stata in Biostatistics I and Biostatistics II) prior to the start of the course. If you have not used Stata, please work through the Introduction to Stata document and the practice questions in section 3. We will use Stata 14 during the course, although will not rely on any of the new Stata features. That is, you will be able to do almost all of the exercises in Stata versions 11 through 14.
For SAS and R users
Although we will be using Stata exclusively during the course, we have made the data sets available in SAS and R formats and users are welcome to attempt the exercises using SAS or R. Neither SAS nor R are installed on the PCs in our computer lab so you will need to bring a laptop if you wish to work with these softwares during the lab sessions. Please keep in mind that if you choose to work with SAS or R we expect you to be familiar with those softwares. The teaching assistants can help with the statistical concepts and many are experienced SAS and R users.
We have written brief notes on how the methods described during the course can be implemented in SAS (see notes_for_sas_users.pdf) and have provided SAS code for reproducing some of the key exercises (e.g., q7.sas and q9.sas).
We have more complete exercises in R: see this page.
All files relevant for SAS users are available from:
All files relevant for R users are available from:
The course language will be English. All instruction and course materials will be in English.