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wFleaBase Reference Manual 1. The Daphnia genomic information project

5 April, 2004

1. The Copyright of wFleaBase

Copyright ©2004 by Daphnia Genomics Consortium.
All Rights Reserved.

wFleaBase is a repository of data and an electronic information service provided for the Daphnia Genomics Consortium (DGC) and the general scientific community. wFleaBase is freely distributed to the scientific community on the condition that it will not be used for commercial gain by any individual or organization. Any commercial use of wFleaBase, or any of its parts, is prohibited without written permission by its authors.

wFleaBase and the DGC make no guarantee of any kind regarding its content and disclaim all warranties, expressed or implied, without limitation.

This database is designed to provide access within the scientific community to sources of information that is current and comprehensive. Therefore, the information contained within is subject to change without notice. The success and usefulness of this resource is fully dependent on individual contributors, organizations and facilities that deposit data and update content. Although wFleaBase places no restrictions on the public use or distribution of its content, the submitting authors of original data may claim patent, copyright, or other intellectual property rights in all or portions of the data that they have submitted. It is the responsibility of the user to assess the validity of such claims and to adhere to the terms and constraints invoked by the copyright holder.

Reference records are taken from the BIOSIS database and are the copyright of BIOSIS.

2. How to reference wFleaBase

Although the information from this site is within the public domain, it is requested that wFleaBase be given appropriate acknowledgement for use of this work.

Gilbert, D., V.R. Singan and J.K. Colbourne. wFleaBase: the Daphnia genomics information system. Available online via:, BMC Bioinformatics 2005, 6:45 doi: 10.1186/1471-2105/6/45.

3. How to contact wFleaBase

A central email address was created to which all communications and inquiries about wFleaBase should be sent. Do not send commercial material to this address: wFleaBase AT

Please specify the nature of the email in the Subject heading:

To send comments and words of encouragement - specify "wFleaBase-goodjob".

For help and technical inquiries - specify "wFleaBase-help".

For corrections, updates and additions to wFleaBase data - specify "wFleaBase-updates".

To post community news pertinent to Daphnia genomics, including meetings, jobs and other notices - specify "wFleaBase-announce".

wFleaBase and the DGC welcome corrections and additions to the data. This project can only succeed in promoting Daphnia genomics and to further its use in evolutionary and ecological studies by obtaining feedback from its users.

4. The wFleaBase team

The wFleaBase project is ongoing work and being carried out by researchers and computer scientists at the Center for Genomics and Bioinformatics (Indiana University), the Okazaki National Research Institutes (Japan) and by students of the Indiana School of Informatics. A complete list of its members are listed below.

At present, in spirit with the grass-roots origin and the cooperative model of the DGC, wFleaBase is being launched by bootstrapping time and funds from other projects. We encourage others to participate and hope to attract endorsements to rapidly expand its content and functions in the near future.

Donald Gilbert - gilbertd AT
John Colbourne - jcolbour AT
Vasanth Singan - vsingan AT
Hajime Watanabe - hawatana AT

5. Acknowledgements

The wFleaBase team gratefully acknowledges support from the National Science Foundation (NSF), the National Institutes of Health (NIH), the Center for Genomics and Bioinformatics (CGB) at Indiana University and the IU Genome Informatics Lab.

We thank members of the Daphnia Genomics Consortium for submitting unpublished sequences. Thanks to all DGC members, who have patiently encouraged and promoted this project, especially Drs. Justen Andrews and Michael Lynch (Indiana University). Sebastian Lourido (Tulane University) created our elegant logo.

6. Present capabilities and future work

wFleaBase is a database still in its adolescence, both in structure and content. Because of rapid progress by the DGC in obtaining genomic sequences and tools for its diverse research programs, the development of wFleaBase will likely undergo awkward transformations to accommodate novel sources of information, including a genetic map, whole genome sequences, microarray-based gene expression profiles and functional ecological data. Rather than withhold currently available data from the community until we are confident that wFleaBase is fully mature, we are releasing the Daphnia genomic information project in a state of imperfection. We will document and attempt to fix problems as they are encountered, yet we rely on users to report glitches and errors.

This genome web site is built with ARGOS - A Replicable Genome infOrmation System, which is developed as a Generic Model Organism Database project. The web site and all its data and functions can be copied, or automatically replicated, and run on MacOSX, Linux and Sun Solaris computers.

Current wFleaBase highlights include:

wFleaBase tasks and problems: