title: EMAGE--Edinburgh Mouse Atlas of Gene Expression: 2008 update.
abstract: EMAGE (http://genex.hgu.mrc.ac.uk/Emage/database) is a database of in situ gene expression patterns in the developing mouse embryo. Domains of expression from raw data images are spatially integrated into a set of standard 3D virtual mouse embryos at different stages of development, allowing data interrogation by spatial methods. Sites of expression are also described using an anatomy ontology and data can be queried using text-based methods. Here we describe recent enhancements to EMAGE which include advances in spatial search methods including: a refined local spatial similarity search algorithm, a method to allow global spatial comparison of patterns in EMAGE and subsequent hierarchical-clustering, and spatial searches across multiple stages of development. In addition, we have extended data access by the introduction of web services and new HTML-based search interfaces, which allow access to data that has not yet been spatially annotated. We have also started incorporating full 3D images of gene expression that have been generated using optical projection tomography (OPT).
authors: MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh, EH4 2XU, UK.
authors: Shanmugasundaram
authors: S
authors: Venkataraman
authors: Peter
authors: P
authors: Stevenson
authors: Yiya
authors: Y
authors: Yang
authors: Lorna
authors: L
authors: Richardson
authors: Nicholas
authors: N
authors: Burton
authors: Thomas P
authors: TP
authors: Perry
authors: Paul
authors: P
authors: Smith
authors: Richard A
authors: RA
authors: Baldock
authors: Duncan R
authors: DR
authors: Davidson
authors: Jeffrey H
authors: JH
authors: Christiansen
mesh_terms: D000818:Animals; D030541:Databases, Genetic; D015870:Gene Expression; D018507:Gene Expression Regulation, Developmental; D017930:Genes, Reporter; D007150:Immunohistochemistry; D017403:In Situ Hybridization; D020407:Internet; D051379:Mice / Q000196:embryology / Q000235:genetics* / Q000378:metabolism; D014584:User-Computer Interface