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Related Concept Videos

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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MODE: A Web Application for Interactive Visualization and Exploration of Omics Data.

David J Degnan, Daniel M Claborne, Rachel E Richardson

    Journal of Proteome Research
    |January 21, 2025
    PubMed
    Summary
    This summary is machine-generated.

    Researchers can now explore complex omics data with MODE, a new software tool. MODE generates interactive HTML displays, enabling detailed pattern discovery without extensive coding, thus advancing biological research.

    Keywords:
    lipidomicsmass spectrometrymetabolomicsnuclear magnetic resonanceomicsproteomicssoftwaretranscriptomicstrelliscopevisualization

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    Area of Science:

    • Multi-omics data analysis
    • Bioinformatics and computational biology
    • Systems biology

    Background:

    • Omics data (transcriptomics, proteomics, lipidomics, metabolomics) are crucial for identifying biomarkers and understanding biological functions.
    • Traditional analysis methods like principal component analysis (PCA) offer high-level summaries but limit detailed pattern exploration.
    • Creating interactive visualizations for detailed omics data exploration typically requires significant programming expertise.

    Purpose of the Study:

    • To introduce MODE, a software tool designed to democratize the creation of interactive HTML displays for omics data.
    • To enable researchers without advanced coding skills to build and share detailed, interactive visualizations of their omics datasets.
    • To facilitate deeper scientific discovery by allowing exploration of complex patterns within multidimensional omics data.

    Main Methods:

    • Development of the MODE software application for generating interactive HTML displays.
    • Implementation of features for plot design customization and meta-variable selection (categorical or numerical data for filtering/sorting).
    • Demonstration of MODE's capabilities using lipidomics data from a plant leaf wounding study.

    Main Results:

    • MODE successfully empowers users to create shareable, interactive HTML displays of omics data.
    • The software overcomes the coding barrier, making detailed data exploration accessible to a wider research community.
    • Interactive displays allow for sorting and filtering data by various 'metas', revealing biologically relevant patterns.

    Conclusions:

    • MODE significantly lowers the barrier to entry for interactive omics data visualization and analysis.
    • The tool enhances scientific discovery by enabling more intuitive and detailed exploration of complex biological data.
    • MODE provides a versatile and accessible platform for sharing and interpreting multi-omics findings across different operating systems.