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The query that comes from the gramene-ebeye wrapper for carboxy\* returns too many results because it is matching fields that are not necessarily descriptive of the gene. For example http://data.grame…
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From Marcela: In November, when I searched for ABA pathway genes I would get hits in 36 species but now I'm only getting hits in rice... So the projected species (like maize) are no longer searchable…
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We have [test scripts derived from ensembl's](https://drive.google.com/drive/folders/0B1ztWq-u5dPpWnRUOTBCYjhsUnM).
We need test scripts for Gramene Search.
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A user should be able to convert a search for genes into a search for orthologs of a result set. This can be done by faceting on the epl_gene_tree field and then rewriting the query as a disjunction o…
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Err: HTTP Status 405 - Request method 'GET' not supported
Cause: Attempting to send a "search result not found" notice to Plant Reactome support.
http://plantreactome.gramene.org/content/query?q=p…
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Hi Pankaj
I've added a new worksheet to the attached which details the unique
traits/rows in the main file and with an initial definition of the trait
(parent and possible child relationships). It's a…
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From Brigitte Courtois, CIRAD France.
brigitte.courtois@cirad.fr
Dear Richard,
Dear Pankaj,
As mentioned by Manuel, we are presently synthetizing all the rice drought QTLs from the literature with t…
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In [datasources.txt](https://github.com/bridgedb/BridgeDb/blob/master/org.bridgedb.bio/resources/org/bridgedb/bio/datasources.txt), Gramene Genes should have the Miriam identifier `urn:miriam:gramene.…
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When dumping genes, also pull in the names of features from the dna_align_feature table that overlap with the gene. Put these ids into a new field called overlapping_features which is a list of {hit_n…
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In the plant structure development stage (PO:0009012) branch of the PO we have a large number of mappings from our stage terms to terms in other ontologies and vocabularies.
The corresponding mappi…