[ensembl-dev] Question about gene build pipeline - similarity build

[江JWK]

Hi, all,
I have read documentation relevant to gene structure prediction jobs.

For the similarity build section,
The doc said that genomes were first scanned for putative gene locus using genscan, 
then evidences like proteins from uniprot are blast agaisnt these genscan derived gene peptides.

This 'genscan->uniprot blast to genscan locus->genewise' approach was supposed to be saving the pipeline running times.
But this approach may missed several true gene locus as genscan (or other ab initio methods) could not identify them.

To overcome this 'low predicative power', and with the development of computer powers, at least:
during recent years, I found most genomes were annotated through this procedure: 
uniprot->blast to genome -> target region genewise.

dose the current genebuild pipeline has some modules or routines can do this?

or currently genes built by ensembl still used the tradition routines (genscan->uniprot blast to genscan locus->genewise)?

best regards!

Wenkai

 		 	   		  
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