Warning: Please be aware that these videos are a snapshot, and as such may use an outdated version of the tutorial and/or Galaxy. Below the video you will find links to the tutorials as they appeared at the time of recording.
Removing the effects of the cell cycle
Below are video tutorials for this GTN material, created for various (past) events.Video ()
| Description: | Single-cell RNA sequencing can be sensitive to both biological and technical variation, i which is why preparing your data carefully is an important part of the analysis. You want the results to reflect the interesting differences in expression between cells that relate to their type or state. Other sources of variation can conceal or confound this, making it harder for you to see what is going on. One common biological confounder is the cell cycle. Cells express different genes during different parts of the cell cycle, depending on whether they are in their growing phase (G1), duplicating their DNA (the S or Synthesis phase), or dividing in two (G2/M or Mitosis phase). If these cell cycle genes are having a big impact on your data, then you could end up with separate clusters that actually represent cells of the same type that are just at different stages of the cycle. In this tutorial, we will identify the genes whose expression is known to vary during the cell cycle so that we can use them to regress out (or remove) the effects of the cell cycle on the clustering. |
| Length: | |
| Captions: | No captions available for this video. We aim to have captions for all our videos, and are working to add captions to this video as soon as possible. |
| Materials: |
|
| Support: | |
| Supported Servers: |
Known Working
|
Tutorial:
