Difference between revisions of "JP Feb 23 16"
From GcatWiki
Jupreziosi (talk | contribs) (Created page with "Julia Preziosi") |
Jupreziosi (talk | contribs) |
||
| Line 1: | Line 1: | ||
[[Julia Preziosi]] | [[Julia Preziosi]] | ||
| + | |||
| + | Heyer's code, most recent http://www.bio.davidson.edu/courses/Bio343/2016/goi_supervised.txt | ||
| + | |||
| + | Set up a way to filter out genes whose data has a lot of 0s. | ||
| + | Can supervise clustering when the data set is small enough (11,000 is too big for R to graph). | ||
| + | Can find a gene listed in the "toSearch" list = goi (gene of interest). | ||
| + | Can set a threshold for correlation to gene of interest. | ||
| + | |||
| + | Between correlation distance and supervised clustering, we can locate genes of interest. | ||
| + | Still need to be able to sort by Gene Ontology term. (That's what we're doing). | ||
| + | |||
| + | * Find genes differentially regulated b/t fed and nonfed; that are differentially expressed at the beginning of the cascade. | ||
| + | * May have to chase individual genes to find a good candidate gene. | ||
Revision as of 18:45, 23 February 2016
Heyer's code, most recent http://www.bio.davidson.edu/courses/Bio343/2016/goi_supervised.txt
Set up a way to filter out genes whose data has a lot of 0s. Can supervise clustering when the data set is small enough (11,000 is too big for R to graph). Can find a gene listed in the "toSearch" list = goi (gene of interest). Can set a threshold for correlation to gene of interest.
Between correlation distance and supervised clustering, we can locate genes of interest. Still need to be able to sort by Gene Ontology term. (That's what we're doing).
- Find genes differentially regulated b/t fed and nonfed; that are differentially expressed at the beginning of the cascade.
- May have to chase individual genes to find a good candidate gene.
