Difference between revisions of "Lab Notes"
From GcatWiki
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Methods followed for various experiments: | Methods followed for various experiments: | ||
Workflow for candidate gene identification: | Workflow for candidate gene identification: | ||
| − | Start with P_PT and M_MT gene lists -> find all overlapping genes (these should represent all trisomic genes plus some noise) -> Identify genes that are up-regulated in one parent and down-regulated in another | + | Start with P_PT and M_MT gene lists -> find all overlapping genes (these should represent all trisomic genes plus some noise) -> Identify genes that are up-regulated in one parent and down-regulated in another |
| + | |||
| + | Identified the overlapping genes with the top and bottom 10% logFC values and we are especially interested in genes that have a inverse correlations for M v P. | ||
Excel: Gene names need to be truncated using command- left(A1, 18) | Excel: Gene names need to be truncated using command- left(A1, 18) | ||
Revision as of 15:34, 16 February 2017
Ultimate goal: Identify genes that are trisomy-related but differentially expressed based on parent-of-origin. 1) Identify trisomic genes 2)
Methods followed for various experiments: Workflow for candidate gene identification: Start with P_PT and M_MT gene lists -> find all overlapping genes (these should represent all trisomic genes plus some noise) -> Identify genes that are up-regulated in one parent and down-regulated in another
Identified the overlapping genes with the top and bottom 10% logFC values and we are especially interested in genes that have a inverse correlations for M v P.
Excel: Gene names need to be truncated using command- left(A1, 18)
