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MochiView: versatile software for genome browsing and DNA motif analysis
Oliver R Homann1, Alexander D Johnson
1Department of Microbiology and Immunology, University of California San Francisco, San Francisco, California, USA. oliver.homann@ucsf.edu
BMC Biology
|April 23, 2010
Summary
MochiView is a user-friendly Java software for visualizing and analyzing large genomic datasets. It helps researchers integrate and explore DNA sequencing, RNA sequencing, and chromatin immunoprecipitation data to identify sequence motifs.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- High-throughput technologies generate vast amounts of genome-scale data.
- Visual integration of genomic data is crucial for hypothesis formulation and testing.
Purpose of the Study:
- To present MochiView, a software platform for integrating and visualizing genomic data.
- To provide a user-friendly application for DNA motif analysis.
Main Methods:
- Development of a platform-independent Java software named MochiView.
- Integration of genomic sequence browsing, feature visualization, and data analysis functionalities.
Main Results:
- MochiView offers a visually appealing and user-friendly interface.
- The software integrates browsing of genomic sequences, features, and data with DNA motif visualization and analysis.
Conclusions:
- MochiView is versatile for organizing, exploring, and analyzing large genomic datasets.
- Particularly useful for deep RNA sequencing, ChIP-Seq, ChIP-Chip, and transcriptional profiling data.
- Provides utilities to identify and explore connections between datasets and DNA/RNA sequence motifs.
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