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How and where can I submit functional information that I created for an already published genome?
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14 months ago
Arsenal • 10

My lab's bioinformatics team obtained and consolidated information about gene functions for a poorly functionally annotated species. In NCBI for example, it's only possible to upload data of a new assembly. There's no explanation (at least in the data submission instructions) of upload only gene functions. Does someone know how could we offer our new functional data to update the genome at NCBI or Ensembl, DDBJ, etc?

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I think the first step you can take is to publish your results, if interesting and convincing enough Ensembl and NCBI will take it over I think.

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We'll still wait for another suggestions, but thank you for the tip

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14 months ago
Erin_Ensembl • 370
EMBL-EBI

If you have annotations for gene functions, then you may want to consider submitting them to the Gene Ontology resource. There are details on how to submit and what the requirements for submission are on their FTP site. I do not know if they require the data to be published or not.

Depending on the species, some resources allow for community annotation or comments, EuPathDB do this. Here is an example in one of their databases, for fungi fungiDB.

As an aside, Ensembl (and I assume NCBI also) do not have the capacity to accept individual groups contributions, but we do import from open access resources, the gene ontology resource being one of them.

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Erin, Thank you for the attention in answering and personally thanks to everyone at Ensembl. We appreciated your suggestions and we'll have a look at them.

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