The bioinformatics and computational biology software and databases offered through this page were created by researchers at the National Institute of Allergy and Infectious Diseases (NIAID) which is part of the US National Institutes of Health (NIH).


SPICE

SPICE is a data mining software application that analyzes large FLOWJO data sets from polychromatic flow cytometry and organizes the normalized data graphically. SPICE enables users to discover potential correlations in their experimental data within complex data sets.

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PathogenAR

PathogenAR is a free smartphone app (available in iOS and Google Play stores) that provides an interactive, augmented reality (AR) experience for learning about infectious pathogens and biomolecules.

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Cytometry Template Editor

Cytometry Template Editor is a Window executable zip file that will allow you to edit Cytometry templates.

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Redirected Applications and Resources

The following applications and resources have been moved to new locations. Click the buttons below to access them at their new URLs.

  • ChemokineDB (Moved)

    ChemokineDB has been moved to a new location on Figshare for better accessibility and data management.

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  • TBRNAT (Moved)

    TBRNAT (Tuberculosis Regulatory Network Analysis Tool) has been relocated to Figshare for continued access and data preservation.

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  • Transcriptome Resources (Moved)

    Transcriptome Resources have been moved to Figshare to provide better data organization and enhanced accessibility for researchers.

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  • Transcriptome Data Files (Moved)

    Individual transcriptome data files including tick review supplementary tables, H. marginatum rufipes data, RGD peptides, and T. rubida data have been moved to AWS S3 storage for better accessibility and performance.

  • Transcriptome Tick Resources (Moved)

    Transcriptome Tick Resources have been relocated to Figshare for improved data management and research accessibility.

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  • Anopheles Gambiae Resources (Moved)

    Anopheles Gambiae Resources have been moved to Figshare to provide enhanced data organization and accessibility for malaria research.

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  • Granite (Moved)

    Granite application has been archived and moved to the NIAID retired applications repository on GitHub.

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  • NIAID Applications (Moved)

    General applications information has been moved to the official NIAID Bioinformatics Software page.

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  • SimpleITK (Moved)

    SimpleITK information has been relocated to the official NIAID research page.

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  • Microbial Genomics (Moved)

    Microbial Genomics resources have been moved to the official NIAID BCBB research page.

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  • Clinical Genomics (Moved)

    Clinical Genomics resources have been relocated to the official NIAID BCBB research page.

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  • Imaging (Moved)

    Imaging resources have been moved to the official NIAID BCBB research page.

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  • Data Science & Biostatistics (Moved)

    Data Science and Biostatistics resources have been relocated to the official NIAID BCBB research page.

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  • Structural Biology (Moved)

    Structural Biology resources have been moved to the official NIAID BCBB research page.

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  • MemExp & MemDif (Moved)

    MemExp and MemDif CMM tools have been relocated to the official NIAID research page.

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Retired Applications

The following applications were previously developed by NIAID but are no longer maintained or supported. They are listed here for historical reference only.

  • Sage (Retired)

    Sage was a comprehensive bioinformatics analysis platform that provided integrated tools for genomic data processing and visualization.

  • Additivity (Retired)

    Additivity was a web-based tool for analyzing drug combination effects and determining synergistic, additive, or antagonistic interactions between compounds in biological systems.

  • MAPCD (Retired)

    MAPCD (Mapping and Analysis Platform for Cell-type Deconvolution) was a comprehensive tool for analyzing cellular composition in bulk RNA-seq data and performing cell-type deconvolution analysis.

  • SPADE (Retired)

    SPADE (Spanning-tree Progression Analysis of Density-normalized Events) was a data analysis algorithm for identifying cellular populations in high-dimensional flow cytometry data.

  • JoinSolver (Retired)

    JoinSolver was a computational tool for analyzing and solving complex biological network problems, providing insights into molecular interactions and pathway analysis.

  • NEP (Retired)

    NEP (NIAID Expression Portal) was a web-based platform for exploring and analyzing gene expression data from various infectious disease studies and immunology research projects.

  • ABCTransporter (Retired)

    ABCTransporter was a specialized database and analysis tool for studying ATP-binding cassette transporters, providing comprehensive information about transporter proteins and their functional roles in cellular processes.

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