HIV / AIDS: Bioinfomatics

NIAID's HIV/AIDS Research Program

Although progress has been made in the global fight against HIV/AIDS, the epidemic continues to devastate the United States and the international community with 56,300 new HIV infections each year in the U.S. and an estimated 33 million people living with HIV worldwide. As the leading U.S. government institute for HIV/AIDS research, NIAID is committed to conducting the research necessary to successfully end the fight against HIV/AIDS.

Through laboratories and clinics on the NIH campus in Bethesda, Md., and a vast network of supported research at universities, medical centers and clinical trial sites around the globe, NIAID is working to better understand HIV and how it causes disease, find new tools to prevent HIV infection including a preventive vaccine, develop new and more effective treatments for people infected with HIV, and hopefully, find a cure.

Bioinfomatics

The NIAID Office of Cyber Infrastructure and Computational Biology (OCICB) distributes bioinformatics software designed for and by NIAID investigators on the Exon Web site. The bioinformatics software on the Exon Web site includes tools for visualizing and analyzing complex genomic data. The applications on the Exon site are used by subject matter experts in the biological sciences at NIAID and are freely distributed to the public scientific community.
In addition to the bioinformatics applications on the Web site, Exon has also been used to host complex supplemental data at the request of NIAID investigators, including 3-D visualizations of mosquito swarms and transcriptomes for insect vectors of infectious diseases.

Examples of applications on the Exon Web site

PaVE: Papillomavirus Episteme

PaVE is a bioinformatics resource for papillomavirus researchers. PaVE includes over 420 complete genomic sequences from the Papillomaviridae and will soon feature tools for the comparative analysis of viral isolates. PaVE includes unique visualization and search tools for sequence information specific to the Papillomaviridae.

NetCirChro: Networks on Circular Chromosome (Cytoscape plug-in)

NetCirChro allows researchers to view and analyze network data in a context of chromosomal location and proximity. NetCirChro is particularly useful to any researcher studying bacterial genomes. Researchers can take advantage of the synchronization between Cytoscape and the NetCirChro plug-in to perform complex analyses, searches, and selections that were not possible before the NetCirChro tool was available.

SPICE: Simplified Presentation of Incredibly Complex Evaluations

The SPICE application is used by immunologists for data mining and visualization of multicolor flow cytometry data. However, the application has a broader utility: researchers may use SPICE to analyze any multivariate data set that has a series of nominal measurements and a single continuous measurement.

dCAS: Desktop cDNA Annotation System

The dCAS software automates large-scale cDNA sequence analysis. Researchers import their raw cDNA sequences to the dCAS software, which then automatically performs a series of clean-up steps and analyses, and outputs an annotated Microsoft Excel file with assemblies.

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HIV / AIDS