International Mammalian Genome Society

logo18th International Mouse Genome Conference

17-22 October 2004, Seattle, USA


POSTER 134 - BIOINFORMATICS PIPELINE FOR ENU MOUSE MUTAGENESIS

Liu B, Zhong J, Tran N, Fan M, Justice M

Baylor College of Medicine, Houston, United States

The Mouse Mutagenesis for Developmental Defects project utilizes ENU as a powerful mutagen in mouse spermatogonial stem cells. By determining the function of genes on a mouse chromosome, we can extrapolate to predict function on a human chromosome. Due to the high throughput generation of ENU mutants in this project, it is essential to have an efficient data organizing system to carry out real-time data capture and analysis. We have developed a bioinformatics pipeline that helps management of mouse colonies, analysis of mutant phenotype screens and web presentation of information of ENU mutants. The pipeline includes the following web services components: a) A virtual mouse barcode system, which is a comprehensive web-based mouse colony tracking system. This system simulates the real mouse facility design and can be employed for any mouse work. This system provides advanced securities to track colonies for different institutions, PIs, labs, projects, users as well as offer controlled data exchanging among users; b) A sample submitting and analysis system for phenotypic screenings (Complete Blood Counts, Hormone Assays and Tandem Mass Spectrometry Analysis): which is a web based interface to arrange mutant screening and flag potential mutants based on the standard deviation analysis; c) A cryopreservation database that is a web-based management system for recording organs and DNAs from the ENU mutants; d) ENU mutant resource: a publicly accessible database that presents over 283 ENU mutants in ten different phenotype categories, in which the information for each mutant is regularly updated. Within the ENU mutant resource, an image management process, called ImageView, was developed, which enables internal users to edit the information for each image and external users to view real-time updated information of images; e) A mutant alert, which regularly alerts web subscribers for the mutants they are interested in, and f) An online mouse request, so researchers in the mouse community may request the mutant through this system. To access the public domain of this bioinformatics pipeline, please go to the web site: www.mouse-genome.bcm.tmc.edu

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