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Online Journal of Bioinformatics © 

(Including Medical and Laboratory Research)

Established 1995

ISSN  1443-2250


 Volume 24 (3):172-181, 2023

Insect binding fork head protein transcription to DNA by base cooperation.


Mach V.


Institute of Entomology, Czech Academy of Sciences, České Budějovice, Czech Republic.




Mach V., Insect binding fork head protein transcription to DNA by base cooperation, Onl J Bioinform, 24 (3) 172-181, 2023. DNA recognition by insect Fork head transcription factors depends on specific combinations of neighboring base cooperation. Author describes an algorithm to measure observed versus expected frequencies of various base combinations within aligned binding sites for in silico base cooperation. Statistically significant differences between observed and expected frequencies can be interpreted as evidence of positive or negative base cooperation. Our results suggest that base cooperation affects DNA binding of vertebrate members of fork head family similar to insect homologs.


Key words: base cooperation, non-independent bases, nucleotide combinations, DNA binding, fork head.