R2: MICROARRAY GENE COMPARATOR-MGC

This research need to answer to question.  How are we supposed to follow the effects of a treatment? One possibility would be to rely on the help of the microarray gene expression analysis, with the focus on the EGFR gene and  the genes related to NSCLC cancer type. DNA microarray technology provides tools for examination of expression levels of a huge number of different genes. This same technology makes it possible for us to simultaneously measure the expression of thousands of genes in one experiment (sample).  Gene expression data from DNA microarray are based on many variables (genes) measured within only a couple experiments. In our research the microarray expression plays a crucial role in  finding  out whether EGFR gene expression correlates according to the expected effects of an assigned treatment, that is, to the expanded prolongation of patients’ survival. That’s why we have developed module MGC. For the understanding of the function of this module it is indispensible to get familiar with the microarray gene experiment presented illustratively on the Figures 1 and 2.

MGC is based on the comparison of the wave length of the control gene expression with the wave length of the test gene expression.  

If the wave length of the control EGFR gene equals the one of test EGFR gene, then the expression intensity is same, which leads us to the conclusion that the test sample is healthy, which in its turn means that EGFR of both samples generates the same quantity of mRNA. The difference between the wave lengths is in this case zero. In case there is a difference in the expression wave lengths of control and test samples, than a certain treatment is need. This difference will serve as a signal to activate a particular FLC controller rule, whose parameters  are drug type, the amount, the duration of therapy and breaks. That means that activation of one IF-THEN rule with more input parameters (variables) responds to a concrete treatment(s) available in the knowledge base.  

Figure3.  Block diagram MGC

Next diagram   shows process  of therapy changing  with the goal  to eliminate overexpression and underexpression of genes.

Figure 4: Monitoring of the patient during treatment