An Improved Search Algorithm to Find G-Quadruplexes in Genome Sequences

ABSTRACT A growing body of data suggests that the secondary structures adopted by G-rich polynucleotides may be more diverse than previously thought and that the definition of G-quadruplex-forming sequences should be broadened. We studied solution structures of a series of naturally occurring and model single-stranded DNA fragments defying the G 3+ N L1 G 3+ N L2 G 3+ N L3 G 3+ formula, which is used in most of the current GQ-search algorithms. The results confirm the GQ-forming potential of such sequences and suggest the existence of new types of GQs. We developed an improved (broadened) GQ-search algorithm ( http://niifhm.ru/nauchnye-issledovanija/otdel-molekuljarnoj-biologii-i-genetiki/laboratorija-iskusstvennogo-antitelogeneza/497-2/ ) that accounts for the recently reported new types of GQs.