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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Vydáno v:Communications biology Ročník 4; číslo 1; s. 623 - 7
Hlavní autoři: Sergeant, Martin J., Hughes, Jim R., Hentges, Lance, Lunter, Gerton, Downes, Damien J., Taylor, Stephen
Médium: Journal Article
Jazyk:angličtina
Vydáno: London Nature Publishing Group UK 25.05.2021
Nature Publishing Group
Nature Portfolio
Témata:
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
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Shrnutí: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.
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ISSN:2399-3642
2399-3642
DOI:10.1038/s42003-021-02097-y