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多基因座视图:一个可扩展的基于网络的基因组数据分析工具。

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

机构信息

MRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, UK.

MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, UK.

出版信息

Commun Biol. 2021 May 25;4(1):623. doi: 10.1038/s42003-021-02097-y.

Abstract

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 .

摘要

在生物科学中,跟踪和理解数据质量、分析和可重复性是至关重要的关注点。在基因组学中尤其如此,基于下一代测序(NGS)的技术,如 ChIP-seq、RNA-seq 和 ATAC-seq,正在产生大量的基因组规模数据。然而,这些数据通常是通过自动化工具和管道进行处理的,生成表格输出和静态可视化。通常是在没有能力详细查看底层数据的情况下,在较高的层次上进行解释。传统的基因组浏览器仅限于浏览单个位置,不允许与整个数据集进行交互。Multi Locus View(MLV)是一个基于网络的工具,它允许用户在多个尺度上流畅地与基因组数据集进行交互。用户可以浏览原始数据、对数据进行聚类,并将其与其他分析结合起来,还可以对数据进行注释。然后,用户数据集可以与其他用户共享,或者公开供学术界进行快速评估。MLV 可在 https://mlv.molbiol.ox.ac.uk 上公开获取。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f8dc/8149710/c28839391270/42003_2021_2097_Fig1_HTML.jpg

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