MochiView: versatile software for genome browsing and DNA motif analysis

Autor: Oliver R. Homann, Alexander D. Johnson
Jazyk: angličtina
Předmět:
Chromatin Immunoprecipitation
Java
Physiology
Genomics
Plant Science
Computational biology
Biology
Genome
General Biochemistry
Genetics and Molecular Biology
03 medical and health sciences
0302 clinical medicine
Software
Structural Biology
lcsh:QH301-705.5
Ecology
Evolution
Behavior and Systematics
030304 developmental biology
computer.programming_language
Genetics
Profiling (computer programming)
0303 health sciences
Base Sequence
Agricultural and Biological Sciences(all)
business.industry
Biochemistry
Genetics and Molecular Biology(all)
Sequence Analysis
DNA
Cell Biology
Visualization
ComputingMethodologies_PATTERNRECOGNITION
lcsh:Biology (General)
General Agricultural and Biological Sciences
Sequence motif
business
computer
Chromatin immunoprecipitation
030217 neurology & neurosurgery
Developmental Biology
Biotechnology
Zdroj: BMC Biology, Vol 8, Iss 1, p 49 (2010)
BMC Biology
ISSN: 1741-7007
DOI: 10.1186/1741-7007-8-49
Popis: Background As high-throughput technologies rapidly generate genome-scale data, it becomes increasingly important to visually integrate these data so that specific hypotheses can be formulated and tested. Results We present MochiView, a platform-independent Java software that integrates browsing of genomic sequences, features, and data with DNA motif visualization and analysis in a visually-appealing and user-friendly application. Conclusions While highly versatile, the software is particularly useful for organizing, exploring, and analyzing large genomic data sets, such as those from deep RNA sequencing, chromatin immunoprecipitation experiments (ChIP-Seq and ChIP-Chip), and transcriptional profiling. MochiView provides an extensive suite of utilities to identify and to explore connections between these data sets and short sequence motifs present in DNA or RNA.
Databáze: OpenAIRE
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