Computational protocol: The Role of the 3′UTR Region in the Regulation of the ACVR1/Alk-2 Gene Expression

Similar protocols

Protocol publication

[…] Extensive bioinformatic analysis of ACVR1/Alk-2 3′UTR sequence was performed using different programs available on line. The conservation profile was obtained with the tools for comparative genomics of the VISTA genome Browser (http://pipeline.lbl.gov/cgi-bin/gateway).Four different programs were applied to identify putative sites for miRs: TargetScan5.1 (http://www.targetscan.org/), PicTar (http://pictar.mdc-berlin.de/) miRBase (http://www.mirbase.org/), and miRanda (http://www.microrna.org). For each miR we have indicated the mirSVR score that ranks the efficiency of miRanda predicted binding sites () . We also used a program for AU-rich elements-containing sequence detection available at http://brp.kfshrc.edu.sa/ARED/. […]

Pipeline specifications

Software tools TargetScan, PicTar, MiRanda, mirSVR
Databases microRNA.org miRBase
Applications Phylogenetics, Genome data visualization
Diseases Myositis Ossificans