Nicole Washington
Nicole Washington
right now the default serializer for all dipper-processed data is turtle. however, this may not be possible for some very large datasets, or there may be a desire for other...
bring in the fly cell lines with the following tables: cell_line cell_line_cvterm cell_line_dbxref cell_line_feature cell_line_pub cell_line_relationship cell_line_strain cell_line_strainprop cell_line_synonym cell_lineprop cell_lineprop_pub not sure we need: cell_line_library cell_line_libraryprop the cell line...
we should have species pages!  these pages would report the following: 1. stats on how many diseases are modeled (asserted, etc). (disease categories?) 2. distro of annotated phenotypes 3....
several sources import GFF3. we should have a generic GFF3 adapter and refactor the existing sources to use them. i'm thinking of at least: - Wormbase - OMIA
refactor references to ORPHANET, so they are Orphanet. these need to happen: curie_map scigraph (kato, geoffrey) monarch-app
there's a bunch of additional information for some alleles that affect >1 gene. these can be found the in relationship tables. these are needed to augment the current ingest. for...
Import the SNV data from the APD source. They provide a dump of their data here: http://pb.apf.edu.au/phenbank/download/findstrains20151010.txt According to an old email, the phenotypes that are in this report are...
For any of our pages, we should add a studies tab. This should have links to external sites that host raw data, such as SRA, GEO, clinical trial, encode, fantom,...
we should consider adding negative annotations between strains and phenotypes. for any given strain that's tested for a phenotype, but doesn't pass a statistical threshold for the phenotype, the strain...
We need a new "analyze" service and interface that allows the user to submit a bunch of gene ids (in one species, for example, human), and gets back the data...