Paper Info
Title
An integrative analysis of nucleosome occupancy and positioning using diverse sequence dependent properties.
Abstract
Nucleosome organization dictates eukaryotic DNA compaction and access, and plays a critical regulatory role in various eukaryotic genomic functions. It is well known that DNA sequence dependent histone octamer binding is important for nucleosome formation. However, many aspects of the phenomenon remain elusive. Here, we systematically analyze diverse sequence-dependent properties, consisting of multi-scale sequence compositional properties and twelve structural properties on the entire Saccharomyces cerevisiae genome. Based on comparative correlation analysis, the features that are highly correlated with nucleosome formation are identified and are integrated into a multilayer perceptron model for genome-wide nucleosome occupancy prediction. Furthermore, we predict nucleosome positions along genome based on the integrative profile of these properties. The results indicate the substantial effect on nucleosome formation and positioning along the entire genome.
Year
DOI
Venue
2016
10.1016/j.neucom.2015.11.107
Neurocomputing
Keywords
Field
DocType
Nucleosome positioning,Sequence-dependent properties,Structural properties
Genome,Nucleosome organization,DNA sequencing,Artificial intelligence,Computational biology,Saccharomyces cerevisiae,Correlation analysis,Pattern recognition,Nucleosome,Bioinformatics,Histone octamer,Mathematics,Eukaryotic DNA replication
Journal
Volume
Issue
ISSN
206
C
0925-2312
Citations 
PageRank 
References 
0
0.34
7
Authors
4
Name
Order
Citations
PageRank
Yun Lu11611.51
Yanglan Gan27711.25
Jihong Guan365781.13
Shuigeng Zhou42089207.00