The goal of this application is the continued development and maintenance of the Gene Expression Database for Mouse Development (GXD). GXD is a well-established community resource. It integrates different types of expression data, including very complex biological information, such as RNA in situ hybridization and immunohistochemistry results. It places these data in the larger biological context through integration with other Mouse Genome Informatics (MGI) resources and interconnections with many other databases, supporting complex queries that enable thorough biological and computational analysis.
The specific aims of this application are (1) to continue and expand GXD's current data acquisition effort, ensure high-quality data annotation and integration, and maintain GXD database as well as software infrastructure. To do so, data will be continually acquired by curation from the literature, via electronic submissions, and through collaborations with large-scale expression data providers and with other public databases;(2) to enhance GXD infrastructure to accommodate new types of expression data, and to enable important new querying capabilities. To do so, expression data will be accommodated from conditional mutants by enhancing of anatomical ontologies, and by enabling the direct correlation of spatio-temporal (conditional) mutation patterns, expression patterns, as well as phenotype data, and by developing anatomical cross-references to support the comparative analysis of developmental expression patterns, and by devising means for researchers to analyze microarray and HTS expression data in the context of GXD and MGI;(3) to refine GXD's user interface and develop advanced query and display tools. To do so, interfaces to GXD will be improved to search, sort, and present information concisely and clearly by supporting batch queries and iterative queries, and by developing further integration of GXD and EMAGE to enable 3D graphical storage, display, and analysis of in situ expression and anatomy data;and (4) to provide user support, and promote GXD's use and electronic data submissions by the scientific community b y continuing to provide training and by soliciting feedback on how GXD can be improved.

Public Health Relevance

The Gene Expression Database for Mouse Development (GXD) allows the scientific community to examine patterns of gene expression, elucidate biologically important molecular networks, and explore the genetic programs that underlie normal development and disregulations of development leading to human birth defects, to cancer and to many other diseases.

Agency
National Institute of Health (NIH)
Institute
Eunice Kennedy Shriver National Institute of Child Health & Human Development (NICHD)
Type
Biotechnology Resource Grants (P41)
Project #
5P41HD062499-03
Application #
8394936
Study Section
Special Emphasis Panel (ZHD1-MRG-C (RM))
Program Officer
Coulombe, James N
Project Start
2010-12-02
Project End
2015-11-30
Budget Start
2012-12-01
Budget End
2013-11-30
Support Year
3
Fiscal Year
2013
Total Cost
$2,191,261
Indirect Cost
$952,508
Name
Jackson Laboratory
Department
Type
DUNS #
042140483
City
Bar Harbor
State
ME
Country
United States
Zip Code
04609
Smith, Constance M; Finger, Jacqueline H; Hayamizu, Terry F et al. (2014) The mouse Gene Expression Database (GXD): 2014 update. Nucleic Acids Res 42:D818-24
Smith, Constance M; Finger, Jacqueline H; Kadin, James A et al. (2014) The gene expression database for mouse development (GXD): putting developmental expression information at your fingertips. Dev Dyn 243:1176-86
Hayamizu, Terry F; de Coronado, Sherri; Fragoso, Gilberto et al. (2012) The mouse-human anatomy ontology mapping project. Database (Oxford) 2012:bar066