Software: Triplexator
Triplexator is a bioinformatics tool (by Fabian Buske) harnessing the power of a so far underutilized mechanism for sequence-specific DNA binding that is of great interest for biotechnological and gene-therapeutic applications.
This potent homing mechanism is provided by nucleic acids triple helices, also called triplexes, which are oligonucleotide complexes made of three strands of either DNA or RNA, originally described by Felsenfeld et al. [J. Am. Chem. Soc. 1957] and reviewed earlier this year [Buske et al. RNA Biology 2011].
Triplexator enables to study all aspects of nucleic triplex formation, i.e. (i) identify triplex-forming oligonucleotides (TFOs) in single-stranded nucleic acids, (ii) identify suitable target sites (TTS) in double-stranded sequence and, most importantly, (iii) assess the compatibility of the two participating partners according to canonical triplex formation rules (TFO/TTS pair).
More here.