Introduction

In the eukaryotic nucleus DNA is organized in nucleosomes, consisting of 147 bp DNA segments wrapped around octamers of histone proteins. The positioning of nucleosomes with respect to the DNA sequence, as well as the differences in affinity of the histone octamers for specific DNA sequences, can influence the accessibility of DNA and hence affect enzymatic processes such as transcription and nucleosome repositioning. For a structural understanding of such processes it is therefore imperative to understand the effect of DNA sequence on nucleosome positioning. Here, we present a model that predicts nucleosome positions in chromatin based on DNA sequence using a simple algorithm decribed in van der Heijden et al. "Sequence-based prediction of single nucleosome positioning and genome-wide nucleosome occupancy." PNAS (2013): 6240-6240.

Input form

Sequence

Amplitude (0 .. 0.25)
Period (bp)
Window (bp)
Potential (kT)



Error message

Sequence string is too short.