Multi Locus View: an extensible web-based tool for the analysis of genomic data

Tracking and understanding data quality, analysis and reproducibility are critical concerns in the biological sciences. This is especially true in genomics where next generation sequencing (NGS) based technologies such as ChIP-seq, RNA-seq and ATAC-seq are generating a flood of genome-scale data. Ho...

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Bibliographic Details
Published in:	Communications biology Vol. 4; no. 1; pp. 623 - 7
Main Authors:	Sergeant, Martin J., Hughes, Jim R., Hentges, Lance, Lunter, Gerton, Downes, Damien J., Taylor, Stephen
Format:	Journal Article
Language:	English
Published:	London Nature Publishing Group UK 25.05.2021 Nature Publishing Group Nature Portfolio
Subjects:	631/114/2401 631/114/794 Biology Biomedical and Life Sciences Browsing Chromatin Immunoprecipitation Sequencing - methods Computational Biology - methods Datasets Genomes Genomic analysis Genomics Genomics - methods High-Throughput Nucleotide Sequencing - methods Internet Life Sciences Next-generation sequencing Numerical Analysis, Computer-Assisted Reproducibility of Results RNA-Seq - methods Sequence Analysis, DNA - methods Sequence Analysis, RNA - methods Software
ISSN:	2399-3642, 2399-3642
Online Access:	Get full text
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Summary:	Tracking and understanding data quality, analysis and reproducibility are critical concerns in the biological sciences. This is especially true in genomics where next generation sequencing (NGS) based technologies such as ChIP-seq, RNA-seq and ATAC-seq are generating a flood of genome-scale data. However, such data are usually processed with automated tools and pipelines, generating tabular outputs and static visualisations. Interpretation is normally made at a high level without the ability to visualise the underlying data in detail. Conventional genome browsers are limited to browsing single locations and do not allow for interactions with the dataset as a whole. Multi Locus View (MLV), a web-based tool, has been developed to allow users to fluidly interact with genomics datasets at multiple scales. The user is able to browse the raw data, cluster, and combine the data with other analysis and annotate the data. User datasets can then be shared with other users or made public for quick assessment from the academic community. MLV is publically available at https://mlv.molbiol.ox.ac.uk . Martin Sergeant et al. develop a web-based tool called Multi Locus View that allows researchers to interact with genomics datasets at multiple scales. Users can browse, annotate, combine or analyse raw data on this interface. The user datasets generated in this tool can also be made public. This tool is expected to increase public access to the entirety of genomic data.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23
ISSN:	2399-3642 2399-3642
DOI:	10.1038/s42003-021-02097-y