The lists of up and down regulated genes selleck catalog are provided in Additional file 4 Table S4 and Additional file 5 Table S5. We compared the lists of up or down regulated genes in the invasive cell lines with the lists of the predicted targeted genes of the above mentioned 11 miRNAs, re spectively. The numbers of predicted miRNA target genes that were differentially expressed were quite vari able. The predicted target genes of miR 200c, miR203, miR125b, and miR 141 were the most abundant, while those of miR 100, miR 146a, and miR 375 were the least abundant among the up or down regulated genes in invasive cell line. However, the observed difference was mainly due to the difference in the number of predicted target genes for each miRNA. For instance, Inhibitors,Modulators,Libraries TargetScan 6.

2 predicted 1057 target genes for miR 200c, but only 56 target genes for miR 100. When we compared the percentage of the predicted miRNA target genes that were up or Inhibitors,Modulators,Libraries down regulated in invasive cell lines, the differences became smaller only 15% 23% of the predicted target genes of each miRNA were differentially expressed between Inhibitors,Modulators,Libraries less invasive cell lines vs. invasive cell lines. Since the func tion of miRNA is to repress gene expression, we expec ted to see a negative correlation between the expression of miRNAs and the expression of their target genes. This seems to be true for miR 200c, miR 205, and miR 141 as twice as many predicted target genes were up regulated in in vasive cell lines than were down regulated.

However, we did not observe an obvious negative correlation in the other miRNAs in particular, we did not see the nega tive correlation in the miRNAs that were up regulated in invasive cell lines such as miR 100, miR 138, and Inhibitors,Modulators,Libraries miR 146a. We randomly selected 9 candidate genes with variable fold change values and performed qRT PCR analysis. qRT PCR analysis confirmed the gene expression array results for all 7 miRNA target genes including ZEB1, CFL2, ACSL4, CDH11, CSF1, FYN, and SHOX2. Vimentin, one of the most differentially expressed genes, was used as the con trol. ERBB3, which is a predicted target of miR 205, was shown to be down regulated in invasive cell lines as determined by array analysis. The qRT PCR results also confirmed the results. Exogenous miR 200c, miR 205, and miR 375 mimics cause significant gene expression changes In order to identify the potential direct targets of miR 200c, miR 205, and miR 375, each miRNA was individu ally transfected into the MDA MB 231 cell line.

An Affymetrix 1. 0 Gene ST Inhibitors,Modulators,Libraries array analysis was then performed using the transfected MDA MB 231 cells to identify dif ferentially expressed genes caused by each individual miRNA mimic. Cluster analysis of the microarray data generated from the miRNA transduced cell line showed that a large number of genes were sellckchem affected.