Evading the annotation bottleneck: using sequence similarity to search non-sequence gene data

BMC Bioinformatics

Table 1 Analysis of access methods used by other image data providers

database	function	access methods	URL
FlyBase	ImageBrowse/Fly Express	gene name, anatomy, or development stage	http://flybase.org/
Allen Brain Atlas		gene name, accession numbers and other IDs, anatomy, or markers	http://www.brain-map.org/
EMAP	EMAGE	gene, anatomy or development stage	http://genex.hgu.mrc.ac.uk/
MGI		gene, anatomical structure, developmental stage, GO terms, assay type	http://www.informatics.jax.org/
4DXpress		gene names, pre-computed orthologs, ontologies	http://ani.embl.de/4DXpress
Xenbase		found on Gene pages	http://xenbase.org/
UCSC	VisiGene	gene name or key word	http://genome.ucsc.edu/
NIBB	WISH Photo Browser	development stage, view or clone name	http://xenopus.nibb.ac.jp/
WormBase	Expression Pattern Search	cell, cell group, or life stage	http://www.wormbase.org/
ANISEED	Expression Search Tools	development stage, or molecule ID	http://aniseed-ibdm.univ-mrs.fr/
ZFIN	Search for Gene Expression Data	gene name, anatomy, or development stage, and other more specific terms, indirect via BLAST	http://zfin.org/

Summary of search methods used by available public image databases for accessing images, found at the time of writing. Data gathered by visiting each database and reading associated publications.

ISSN: 1471-2105