Difference between revisions of "MaizeGDB and CoGe"
From CoGepedia
(Created page with '==Overview== [http://maizegdb.org MaizeGDB is linked to CoGe's through its genome browser]. A link to CoGe will be shown at the top of the browser when viewing a genomic region ...') |
|||
| Line 1: | Line 1: | ||
| − | ==Overview== | + | ===Overview=== |
| − | [http://maizegdb.org MaizeGDB is linked to CoGe's through its genome browser | + | [http://maizegdb.org MaizeGDB] is linked to CoGe's through its genome browser. A link to CoGe will be shown at the top of the browser when viewing a genomic region from the maize genome assembly (i.e. [[pseudomolecules]]). This link will take you to the same region in CoGe's [[GenomeView]]. [[GenomeView]] will automatically find maize genes with annotations that link to [[GEvo]] for [[syntenic gene sets]] with sorghum, and show those genes with special [[ GenomeView_examples#GEvo_Links | glyphs]]. When you view the annotations for these glyphs (by clicking on them), there will be a link to [[GEvo]]. When clicked on, these GEvo links will launch [[GEvo]] with the syntenic maize-sorghum regions pre-loaded and automatically start a GEvo analysis using blastz. |
| + | |||
| + | ===[http://maizegdb.org MaizeGDB]'s genome browser link to CoGe's genome broswer, [[GenomeView]]=== | ||
| + | |||
| + | ===[[GenomeView]] showing glyphs for genes linked to [[GEvo]]=== | ||
| + | |||
| + | ===Getting a link to [[GEvo]]=== | ||
| + | |||
| + | ===Automatically running [[GEvo]] with syntenic maize-sorghum regions pre-loaded=== | ||
| + | |||
| + | ===[[GEvo]]'s results=== | ||
Revision as of 13:48, 8 February 2010
Contents
Overview
MaizeGDB is linked to CoGe's through its genome browser. A link to CoGe will be shown at the top of the browser when viewing a genomic region from the maize genome assembly (i.e. pseudomolecules). This link will take you to the same region in CoGe's GenomeView. GenomeView will automatically find maize genes with annotations that link to GEvo for syntenic gene sets with sorghum, and show those genes with special glyphs. When you view the annotations for these glyphs (by clicking on them), there will be a link to GEvo. When clicked on, these GEvo links will launch GEvo with the syntenic maize-sorghum regions pre-loaded and automatically start a GEvo analysis using blastz.
