Difference between revisions of "February 4, 2016"
From GcatWiki
| Line 1: | Line 1: | ||
== Classwork == | == Classwork == | ||
| − | Consider how signaling cascades often involve a G-protein, receptor, and ligand. The Burmese Pythons do not always feed, so it is likely that the transcripts for these genes are not always present. Therefore, we are looking for a | + | Consider how signaling cascades often involve a G-protein, receptor, and ligand. The Burmese Pythons do not always feed, so it is likely that the transcripts for these genes are not always present. Therefore, we are looking for a '''''transcription factor activator''''' because these genes likely turn on a multitude of other genes. |
| + | '''''Moving forward, we need to:''''' | ||
| + | *Validate our 12 samples and compare them to one another. | ||
| + | *Identify a housekeeping gene in the Small Intestine mucosa. | ||
| + | *Determine a grouping on the dedrogram and set a threshold. | ||
| + | *Identify genes that will distinguish fed-state from fasted-state. | ||
| − | + | === Questions to Consider: === | |
| − | + | *When working with large data sets, how do we separate out what is statistically and biologically interesting? | |
| − | |||
| + | |||
| + | == Correlation Activity == | ||
| + | *R<sup>2</sup> value indicates how well the trend line explains the correlation of data. R<sup>2</sup> is the square of the correlation coefficient. | ||
| + | *Slope indicates if data is positively or negatively related, or if there is no correlation. | ||
| + | *We can practice correlating gene expression across gene samples. | ||
| + | |||
| + | '''''We need to understand "who" the outlier is in our research.''''' | ||
Revision as of 17:36, 13 February 2016
Classwork
Consider how signaling cascades often involve a G-protein, receptor, and ligand. The Burmese Pythons do not always feed, so it is likely that the transcripts for these genes are not always present. Therefore, we are looking for a transcription factor activator because these genes likely turn on a multitude of other genes.
Moving forward, we need to:
- Validate our 12 samples and compare them to one another.
- Identify a housekeeping gene in the Small Intestine mucosa.
- Determine a grouping on the dedrogram and set a threshold.
- Identify genes that will distinguish fed-state from fasted-state.
Questions to Consider:
- When working with large data sets, how do we separate out what is statistically and biologically interesting?
Correlation Activity
- R2 value indicates how well the trend line explains the correlation of data. R2 is the square of the correlation coefficient.
- Slope indicates if data is positively or negatively related, or if there is no correlation.
- We can practice correlating gene expression across gene samples.
We need to understand "who" the outlier is in our research.
