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Nucleic Acids Research Advance Access published online on October 2, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn644
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

GermSAGE: a comprehensive SAGE database for transcript discovery on male germ cell development

Tin-Lap Lee1, Hoi-Hung Cheung1, Janek Claus2, Chandan Sastry2, Sumeeta Singh2, Loc Vu2, Owen Rennert1 and Wai-Yee Chan1,*

1Section on Developmental Genomics, Laboratory of Clinical Genomics and 2Divsion of Information Technology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA

*To whom correspondence should be addressed. Tel: +1 301 451 8821; Fax: +1 301 480 4700; Email: chanwy{at}mail.nih.gov

Received August 12, 2008. Revised September 11, 2008. Accepted September 16, 2008.

GermSAGE is a comprehensive web-based database generated by Serial Analysis of Gene Expression (SAGE) representing major stages in mouse male germ cell development, with 150 000 sequence tags in each SAGE library. A total of 452 095 tags derived from type A spermatogonia (Spga), pachytene spermatocytes (Spcy) and round spermatids (Sptd) were included. GermSAGE provides web-based tools for browsing, comparing and searching male germ cell transcriptome data at different stages with customizable searching parameters. The data can be visualized in a tabulated format or further analyzed by aligning with various annotations available in the UCSC genome browser. This flexible platform will be useful for gaining better understanding of the genetic networks that regulate spermatogonial cell renewal and differentiation, and will allow novel gene discovery. GermSAGE is freely available at http://germsage.nichd.nih.gov/


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