A tool to determine the toxicity of any siRNA, shRNA or miRNA with known 6mer seed sequence.
This site allows to determine the activity of any siRNA, shRNA, or miRNA to be toxic through its 6mer seed sequence in human (HeyA8 - ovarian and H460 - lung) and mouse (M565 - liver and 3LL - lung) cancer cell lines.
Enter one of 4096 possible 6mers into the search field, any nucleotide sequence of less than 6 nucleotides, or the name of any miRNA or mature miRNA listed at mirbase.org. Use positions 2-7 of the guide/antisense strand of the siRNA duplex as the 6mer.
Click on a miRNA in the results to be taken to the mirbase site describing the miRNA.
Gao, Q.Q., Putzbach, W.E., Murmann, A.E., Chen, S., Sarshad, A.A., Peter, J.M., Bartom, E.T., Hafner, M. and Peter, M.E. (2018) 6mer seed toxicity in tumor suppressive microRNAs. Nature Comm, 9:4504.
Click for detailed changelogs.
This site was developed by Johannes Peter.
The source code is available on Github.