Special Issue Review
The gene expression database for mouse development (GXD): Putting developmental expression information at your fingertips
Article first published online: 4 JUL 2014
Copyright © 2014 The Authors Developmental Dynamics published by Wiley Periodicals, Inc. on behalf of American Association of Anatomists.
This is an open access article under the terms of the Creative Commons Attribution-NonCommercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
Special Issue: Sensory Systems: Development, Disease & Regeneration
Volume 243, Issue 10, pages 1176–1186, October 2014
How to Cite
Smith, C. M., Finger, J. H., Kadin, J. A., Richardson, J. E. and Ringwald, M. (2014), The gene expression database for mouse development (GXD): Putting developmental expression information at your fingertips. Dev. Dyn., 243: 1176–1186. doi: 10.1002/dvdy.24155
- Issue published online: 25 SEP 2014
- Article first published online: 4 JUL 2014
- Accepted manuscript online: 23 JUN 2014 08:47AM EST
- Manuscript Accepted: 17 JUN 2014
- Manuscript Revised: 16 MAY 2014
- Manuscript Received: 12 MAR 2014
- Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) of the National Institutes of Health (NIH). Grant Number: HD062499
- literature curation;
- data integration;
- online resource;
- in situ hybridization;
- anatomy ontology
Because molecular mechanisms of development are extraordinarily complex, the understanding of these processes requires the integration of pertinent research data. Using the Gene Expression Database for Mouse Development (GXD) as an example, we illustrate the progress made toward this goal, and discuss relevant issues that apply to developmental databases and developmental research in general. Since its first release in 1998, GXD has served the scientific community by integrating multiple types of expression data from publications and electronic submissions and by making these data freely and widely available. Focusing on endogenous gene expression in wild-type and mutant mice and covering data from RNA in situ hybridization, in situ reporter (knock-in), immunohistochemistry, reverse transcriptase-polymerase chain reaction, Northern blot, and Western blot experiments, the database has grown tremendously over the years in terms of data content and search utilities. Currently, GXD includes over 1.4 million annotated expression results and over 260,000 images. All these data and images are readily accessible to many types of database searches. Here we describe the data and search tools of GXD; explain how to use the database most effectively; discuss how we acquire, curate, and integrate developmental expression information; and describe how the research community can help in this process. Developmental Dynamics 243:1176–1186, 2014. © 2014 The Authors Developmental Dynamics published by Wiley Periodicals, Inc. on behalf of American Association of Anatomists.