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. 2007 Aug 30:8:59.
doi: 10.1186/1471-2156-8-59.

The PhenoGen informatics website: tools for analyses of complex traits

Sanjiv V Bhave  1 , Cheryl Hornbaker, Tzu L Phang, Laura Saba, Razvan Lapadat, Katherina Kechris, Jeanette Gaydos, Daniel McGoldrick, Andrew Dolbey, Sonia Leach, Brian Soriano, Allison Ellington, Eric Ellington, Kendra Jones, Jonathan Mangion, John K Belknap, Robert W Williams, Lawrence E Hunter, Paula L Hoffman, Boris Tabakoff
Affiliations

The PhenoGen informatics website: tools for analyses of complex traits

Sanjiv V Bhave et al. BMC Genet. .

Abstract

Background: With the advent of "omics" (e.g. genomics, transcriptomics, proteomics and phenomics), studies can produce enormous amounts of data. Managing this diverse data and integrating with other biological data are major challenges for the bioinformatics community. Comprehensive new tools are needed to store, integrate and analyze the data efficiently.

Description: The PhenoGen Informatics website http://phenogen.uchsc.edu is a comprehensive toolbox for storing, analyzing and integrating microarray data and related genotype and phenotype data. The site is particularly suited for combining QTL and microarray data to search for "candidate" genes contributing to complex traits. In addition, the site allows, if desired by the investigators, sharing of the data. Investigators can conduct "in-silico" microarray experiments using their own and/or "shared" data.

Conclusion: The PhenoGen website provides access to tools that can be used for high-throughput data storage, analyses and interpretation of the results. Some of the advantages of the architecture of the website are that, in the future, the present set of tools can be adapted for the analyses of any type of high-throughput "omics" data, and that access to new tools, available in the public domain or developed at PhenoGen, can be easily provided.

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Figures

Figure 1
Figure 1
The work-flow at PhenoGen. This flow chart demonstrates how the work-flow for analysis of data at the PhenoGen website can be organized and shows different programming languages and tools available at PhenoGen.
See this image and copyright information in PMC

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References

    1. Geschwind DH. Sharing gene expression data: an array of options. Nat Rev Neurosci. 2001;2:435–438. doi: 10.1038/35077576. - DOI - PubMed
    1. Insel TR, Volkow ND, Li TK, Battey JF, Jr., Landis SC. Neuroscience networks: data-sharing in an information age. PLoS Biol. 2003;1:E17. doi: 10.1371/journal.pbio.0000017. - DOI - PMC - PubMed
    1. Baughman RW, Farkas R, Guzman M, Huerta MF. The National Institutes of Health Blueprint for Neuroscience Research. J Neurosci. 2006;26:10329–10331. doi: 10.1523/JNEUROSCI.3979-06.2006. - DOI - PMC - PubMed
    1. Kapushesky M, Kemmeren P, Culhane AC, Durinck S, Ihmels J, Korner C, Kull M, Torrente A, Sarkans U, Vilo J, Brazma A. Expression Profiler: next generation--an online platform for analysis of microarray data. Nucleic Acids Res. 2004;32:W465–70. doi: 10.1093/nar/gkh470. - DOI - PMC - PubMed
    1. Brazma A, Kapushesky M, Parkinson H, Sarkans U, Shojatalab M. Data storage and analysis in ArrayExpress. Methods Enzymol. 2006;411:370–386. - PubMed

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