MNase-seq data analysis bioinformatics software tools

The technology of micrococcal nuclease (MNase) digestion combined with high-throughput sequencing (MNase-seq) is a powerful method to map the genome-wide distribution of nucleosome occupancy (Mavrich et al., 2008; Schones et al., 2008; Jiang and Pugh, 2009). Source text: Chen et…

MNase-seq analysis steps

Most recent bioinformatics tools

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CISD
Desktop

CISD Chromatin Interaction Site Detector

Allows genome-wide identification of potential chromatin– chromatin…

Allows genome-wide identification of potential chromatin– chromatin interaction (CCI) sites and loops at kilobase resolution. CISD provides two algorithms: CISD that identifies chromatin…

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CIPHER
Desktop

CIPHER

Automates the processing and analysis of several commonly used Next Generation…

Automates the processing and analysis of several commonly used Next Generation Sequencing (NGS) datasets including: ChIP-seq, RNA-seq, Global Run On sequencing (GRO-seq), micrococcal nuclease…

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CAM
Desktop

CAM

Performs quality control for micrococcal nuclease digestion followed by…

Performs quality control for micrococcal nuclease digestion followed by high-throughput sequencing (MNase-seq) data. CAM permits users to compare their data to a set of 268 historical MNase-seq…

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SeqPlots
Desktop

SeqPlots

Visualizes next-generation sequencing (NGS) signals and sequence motif…

Visualizes next-generation sequencing (NGS) signals and sequence motif densities along genomic features using average plots and heatmaps. It can also calculate sequence motif density profiles from…

Most popular analytical software

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iNPS
Desktop

iNPS

NPS is a widely used software package for detecting nucleosome positions from…

NPS is a widely used software package for detecting nucleosome positions from MNase-seq data, but its accuracy needs much improvement. iNPS was improved by adding two major modifications to NPS to…

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