First, the let-7a binding site on CCR7 3'UTR was predicted by using the TargetScan microRNA-binding prediction program.
Bioinformatics miR prediction on the 3′UTR of human CBX7 was performed using the TargetScan (http://www.targetscan.org) and MicroRNA.org (http://www.microrna.org/microrna/home.do) websites.
Using the TargetScan program, a custom set of Perl codes were downloaded from the TargetScan database (Release 5.1, http://www.targetscan.org/).org/
To investigate the predicted target genes and their conserved sites in which the seed region of each microRNA binds, we used the TargetScan program (release 5.0, http://www.targetscan.org/).org/
Using the microRNA target prediction tool Targetscan [ 11], 556 genes were predicted to be regulated by miR-4732-3p (Additional file 7: Table S6).
miR-1207-5p was predicted to repress CASP9, using the microRNA target prediction online tool, TargetScan (http://www.targetscan.org/), which is involved in apoptosis signal and is one of the representative genes deregulated by PVT-1 knockdown (shown in Figure 3D).
To clarify the underlying molecular mechanism of the suppressive effects of miR-217 on the proliferation and invasive capacity of CRC cells, we used bioinformatics methods (TargetScan, microRNA and miRDB) to search for potential target genes of miR-217.
Potential binding between cofilin mRNA and miRNAs was analyzed using the online resources at microrna.org, pictar.org, targetscan.org, microrna.sanger.ac.uk, and sfold.wadsworth.org.org
Analysis of miRNA targets was performed using the public database, Targetscan 4.2 (http://www.targetscan.org).org
The prediction of miRNA targets was performed using the online software TargetScan (http://www.targetscan.org/), PicTar (http://pictar.mdc-berlin.de/cgi-bin/new_PicTar_vertebrate.cgi) and miRanda (http://www.microrna.org/microrna/home.do).do
