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Related Experiment Video

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Transgenic Rodent Assay for Quantifying Male Germ Cell Mutant Frequency

Transgenic Rodent Assay for Quantifying Male Germ Cell Mutant Frequency

Published on: August 6, 2014

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

Tin-Lap Lee¹, Hoi-Hung Cheung, Janek Claus

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

Nucleic Acids Research

|October 4, 2008

Summary

GermSAGE is a new database detailing mouse male germ cell gene expression. This resource aids in understanding cell development and discovering new genes.

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Area of Science:

Reproductive Biology
Genomics
Bioinformatics

Background:

Understanding gene expression is crucial for deciphering male germ cell development.
Existing resources may lack comprehensive transcriptome data across key developmental stages.

Purpose of the Study:

To introduce GermSAGE, a web-based database of mouse male germ cell gene expression.
To provide tools for analyzing and comparing transcriptome data from different germ cell types.

Main Methods:

Utilized Serial Analysis of Gene Expression (SAGE) to generate transcriptome data.
Compiled data from type A spermatogonia, pachytene spermatocytes, and round spermatids.
Developed web-based tools for data browsing, comparison, and searching with customizable parameters.

Main Results:

GermSAGE contains approximately 150,000 SAGE sequence tags per library.
A total of 452,095 tags were analyzed from three distinct male germ cell stages.
Data visualization options include tabulated formats and alignment with the UCSC genome browser.

Conclusions:

GermSAGE offers a valuable platform for studying gene regulatory networks in male germ cell development.
The database facilitates novel gene discovery related to spermatogonial renewal and differentiation.
GermSAGE is freely accessible, promoting research in reproductive biology and genomics.