MACPET: Model-based Analysis for ChIA-PET
Copyright policy )MACPET: Model-based Analysis for ChIA-PET
Abstract We present Model-based Analysis for ChIA-PET (MACPET) which analyzes paired-end read sequences provided by ChIA-PET for finding binding sites of a protein of interest. MACPET uses information from both tags of each PET and searches for binding sites in a two-dimensional space, while taking into account different noise levels in different genomic regions. MACPET shows favorable results compared to MACS in terms of motif occurrence, spatial resolution and false discovery rate. Significant binding sites discovered by MACPET are involved in a higher number of significant 3D interactions than those discovered by MACS. MACPET is freely available on Bioconductor.
Chromatin Immunoprecipitation, Genome, High-Throughput Nucleotide Sequencing, Articles, Sequence Analysis, DNA, Models, Biological, Chromatin Immunoprecipitation Sequencing, Humans, Protein Binding
Chromatin Immunoprecipitation, Genome, High-Throughput Nucleotide Sequencing, Articles, Sequence Analysis, DNA, Models, Biological, Chromatin Immunoprecipitation Sequencing, Humans, Protein Binding
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