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. 2016 Jan 4;44(D1):D827-33.
doi: 10.1093/nar/gkv1233. Epub 2015 Nov 23.

Developmental progress and current status of the Animal QTLdb

Zhi-Liang Hu  1 , Carissa A Park  2 , James M Reecy  3
Affiliations

Developmental progress and current status of the Animal QTLdb

Zhi-Liang Hu et al. Nucleic Acids Res. .

Abstract

The Animal QTL Database (QTLdb; http://www.animalgenome.org/QTLdb) has undergone dramatic growth in recent years in terms of new data curated, data downloads and new functions and tools. We have focused our development efforts to cope with challenges arising from rapid growth of newly published data and end users' data demands, and to optimize data retrieval and analysis to facilitate users' research. Evidenced by the 27 releases in the past 11 years, the growth of the QTLdb has been phenomenal. Here we report our recent progress which is highlighted by addition of one new species, four new data types, four new user tools, a new API tool set, numerous new functions and capabilities added to the curator tool set, expansion of our data alliance partners and more than 20 other improvements. In this paper we present a summary of our progress to date and an outlook regarding future directions.

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Figures

Figure 1.
Figure 1.
Number of curated QTL and association data per year over the past five years (2015 data are through August).
Figure 2.
Figure 2.
Number of total and unique visitors to the Animal QTLdb over the past five years (2015 data are through August).
Figure 3.
Figure 3.
Amount of data downloaded from the QTLdb over the past five years (2015 data are through August).
Figure 4.
Figure 4.
Chromosome walker tool, accessible from a main QTLdb species page. Follow the ‘Search Tools’ link to ‘Chromosome Walker’ in the ‘Data Analysis/Query’ panel. Note the data line sections on the graph are trimmed to save space.
Figure 5.
Figure 5.
QTL/association data genome distribution tool, accessible from a main QTLdb species page. Follow the ‘Search Tools’ link to ‘View genome distribution data for a trait’ in the ‘Data Analysis/Query’ panel.
See this image and copyright information in PMC

References

    1. Hu Z.L., Dracheva S., Jang W., Maglott D., Bastiaansen J., Rothschild M.F., Reecy J.M. A QTL resource and comparison tool for pigs: PigQTLDB. Mamm. Genome. 2005;16:792–800. - PubMed
    1. Hu Z.L., Fritz E.R., Reecy J.M. AnimalQTLdb: a livestock QTL database tool set for positional QTL information mining and beyond. Nucleic Acids Res. 2007;35:D604–D609. - PMC - PubMed
    1. Hu Z.L., Park C.A., Fritz E.R., Reecy J.M. Proceedings of the 9th World Congress on Genetics Applied to Livestock Production. Leipzig: 2010. QTLdb: A comprehensive database tool building bridges between genotypes and phenotypes.
    1. Hu Z.L., Park C.A., Wu X.L., Reecy J.M. Animal QTLdb: an improved database tool for livestock animal QTL/association data dissemination in the post-genome era. Nucleic Acids Res. 2013;41:D871–D879. - PMC - PubMed
    1. Hu Z., Wu X., Reecy J. ACM Conference on Bioinformatics, Computional Biology, and Biomedicine (ACM-BCB) Chicago: 2011. QTL meta-analysis on the fly.

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