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index.qmd
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# Welcome to the course {.unnumbered}
<!-- Daniel 15 min -->
Welcome to the course on Modern Mediation Analysis!
This is a 3-day course sponsored by the Danish Diabetes and Endocrine
Academy. The course will take you through the realm of mediation
analysis, starting with the traditional approach, then dive into causal
mediation analysis and modern mediation analysis. Lastly, we will
introduce a different approach more suitable for omics-type data taking
a network analysis approach.
Note, this is the first time we run this course. Thus, there will be
some mistakes here and there. Please let us know so we can improve for
next time.
## Overall learning outcomes
::: callout-note
## The overall course objective
To provide participants with the knowledge, tools and skills to
implement modern mediation analysis for investigation of disease
mechanisms.
:::
The more specific learning outcomes include:
- **Explain** the theoretical concepts and statistical methods
regarding traditional and modern mediation analysis applied to
basic, clinical and epidemiological research on diabetes and
endocrine diseases
- **Perform** traditional, causal and modern mediation analysis using
R software
- **Present** results from mediation analysis according to the current
mediation analysis reporting guidelines
- **Interpret** results from mediation analysis and suggest relevant
sensitivity analyses for mediation analyses
- **Discuss** the strengths, limitations and assumptions of
traditional, causal and modern mediation analysis
### The target audience
PhD students and postdocs conducting research within the field of basic
science, clinical, and epidemiological studies on diabetes and
endocrinology, that are planning to conduct mediation analysis or that
are interested in widening their analysis toolkit.
### Prerequisites
Knowledge about linear and logistic regression and experience using R.
## Schedule
Over the 3 days we will combine lectures with code-along sessions, group
work, discussions and networking activities.
<!-- notes: less time for estimation for day 2 -->
::: panel-tabset
### May 28
| Time | May 28 |
|-------------|---------------------------------------------------|
| 8.30-9.00 | Registration and getting started |
| 9.00-10.15 | Introduction to the course and the topic (DI, OS) |
| 10.15-10.30 | Coffee break |
| 10.30-12.00 | Traditional mediation analysis (JZ) |
| 12.00-13.00 | Lunch |
| 13.00-14.30 | Causal mediation analysis: introduction (DI, OS) |
| 14.30-15.00 | Coffee break |
| 15.00-16.00 | Group work + Reflections (OS, DI) |
| 16.00-16.15 | Coffee break |
| 16.15-18.00 | Participants presentations in speed-dating format |
### May 29
| Time | May 29 |
|-------------|--------------------------------------------------------------------------------------------------------|
| 9.00-10.15 | Recap from yesterday + Causal mediation analysis: estimation (DI) |
| 10.15-10.30 | Coffee break |
| 10.30-12.00 | Causal mediation analysis: Estimation (cont.) (DI) + Causal mediation analysis: survival outcomes (JZ) |
| 12.00-13.00 | Lunch |
| 13.00-14.30 | Causal mediation analysis: Sensitivity analyses (OS) + Reporting guidelines (DI) |
| 14.30-15.00 | Coffee break |
| 15.00-16.00 | Modern mediation analysis - part 1 (NH) |
| 16.00-16.15 | Coffee break |
| 16.15-18.00 | Group work + Reflections (DI, OS) |
| 18:30 | Social activity |
| 20:30 | Dinner at Food Club Aarhus |
### May 30
| Time | May 30 |
|-------------|-------------------------------------------------------------------------------|
| 9.00-10.15 | Recap from yesterday + Modern mediation analysis - part 2 (NH, ID) |
| 10.15-10.30 | Coffee break |
| 10.30-12.00 | Modern mediation analysis - part 3 (NH, ID) |
| 12.00-13.00 | Lunch |
| 13.00-14.00 | Modern mediation analysis - part 4 (NH, ID) |
| 14.15-15.00 | Integrating Study Designs with Omics Data (CW) (open lecture, Steno Thursday) |
| 15.00-15.30 | Code-along with NetCoupler (CW, JZ) |
| 15.30-16.00 | De-brief, evaluation (15.30-16.00) (OS) |
:::
::: callout-note
## Practical information
- There will be served coffee and tea in the break and a sandwich for
lunch
- On day 1 in the afternoon, there will be a networking activity. We
will do a speed-dating introduction to each other's research
projects, whether you plan to use mediation analysis and what you
hope to learn from this course.
- On day 2 in the evening, we will all go for a dinner in the city of
Aarhus. The dinner is a buffet at Food Club Aarhus, Aaboulevarden
30, Aarhus C
- We will have a social activity before the dinner. This is optional
and all are also welcome to join the dinner later.
- On day 3, the lecture on approaches for omics-type data, this
lecture will be combined with a Steno Thursday Global, which will be
open to all to attend and will be streamed online as well
- If you are interested in more networking with the speakers and want
to learn more about their research, there will be a networking
session and a Precision Medicine Network meeting on Friday May 31.
Please let us know, if you want to join ASAP.
- Please be aware that the areas outside the lecture theater is a
public space where people who go to the diabetes clinic also are. Be
mindful of them.
:::
## Building the course
The course material was created using [Quarto](https://quarto.org/) to
write the lessons and create the book format,
[GitHub](https://github.com/) to host the [Git](https://git-scm.com/)
repository of the material, and [GitHub
Actions](https://github.com/features/actions) with
[Netlify](https://www.netlify.com/) to create and host the website. The
original source material for this course is found on the
[`steno-aarhus/mediation-analysis-course`](https://github.com/steno-aarhus/mediation-analysis-course)
GitHub repository.
## Re-use and licensing {#licensing}
<a rel="license" href="http://creativecommons.org/licenses/by/4.0/"><img src="https://i.creativecommons.org/l/by/4.0/80x15.png" alt="Creative Commons License" style="border-width:0"/></a>
The course is licensed under the [Creative Commons Attribution 4.0
International License](https://creativecommons.org/licenses/by/4.0/) so
the material can be used, re-used, and modified, as long as there is
attribution to this source.
## Acknowledgements
The [Danish Diabetes Academy](https://www.danishdiabetesacademy.dk/) and
[Steno Diabetes Center Aarhus](https://www.stenoaarhus.dk/) sponsored
the course.