Dear community,
I want to have your insights into the following problem that I am trying to solve.
So I have healthy controls and diseased samples. The diseased samples were treated with a drug A and the measurement of gene expression was taken at two time point, such that before treatment and after 3 months.
I have readings from healthy samples and reading from diseased samples (before and after treatment).
Gene Control DrugA.tx DrugA.3tx
GeneA1 0.255137598 0.841427508 0.838585838
GeneA2 0 1.088924271 0.708817547
GeneA3 0.649779583 0.883699106 0.863034514
GeneA4 0.261785973 0.860292411 0.950751742
GeneA5 0 1.177734151 0.831123556
GeneA6 0.539853517 0.999361733 0.88790566
GeneA7 0.609842771 1.095380831 0.91075683
GeneA8 0.546278983 1.31081493 0.961478462
GeneA9 0.278067545 1.2463365 1.039837814
GeneA10 0.841483131 1.195102944 1.171462249
GeneA11 1.066410285 1.200123252 0.957711736
GeneA12 2.613408631 0.908745691 0.863034514
GeneA13 2.583216456 1.242388547 0.87318548
GeneA14 2.800415579 0.999763993 0.893300428
GeneA15 1.044277784 1.213267026 1.08889909
GeneA16 0 2.055473655 1.021699805
GeneA17 1.861254616 1.72825638 1.009700622
GeneA18 0.850735068 1.675176397 1.352168483
GeneA19 2.784079193 1.03334891 0.863034514
GeneA20 0.600378056 1.837088792 1.116134855
GeneA21 0.789140187 2.109625834 1.322807345
GeneA22 0.560671399 2.014979635 1.634260415
GeneA23 3.176300908 1.406041611 0.890985128
I can compute the log fold changes.
However, I want to compute is the distribution of normalization of diseased gene expression toward healthy expression levels after treatment. How can I do that?
Something like the figure below
Here in the figure the authors computed the degree of normalization that is brought in the diseased samples by treatment with drugs. These drugs are highlighted in green and violet. ` Any suggestions are very welcomed
Thank you
