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  1. NIF
  2. NIF-11757

DISCO: import additional data for ZFIN

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    • New Feature Request
    • Resolution: Implemented
    • Major
    • None
    • Data 0.1
    • None
    • NIF

    Description

      Add the following data tables into DISCO nif-0000-21427 (ZFIN):

      chromosomal landmarks: http://zfin.org/downloads/mappings.txt
      (col headers: ZFIN ID,Symbol,Panel,Symbol,Chromosome,Location,Metric)
      I think we currently want this filtered on genes, with the first col like ZDB-GENE-*
      note that cR (centiRay) are: a percent frequency of radiation-induced breaks between a pair of markers after exposure to X-rays

      genotype backgrounds: http://zfin.org/downloads/genotype_backgrounds.txt
      genbank ids: http://zfin.org/downloads/file/genbank.txt
      uniprot ids: http://zfin.org/downloads/file/uniprot.txt
      wildtype genotypes: http://zfin.org/downloads/file/wildtypes.txt

      the genbank and uniprot ids tables should just be lookup tables to add cols into the Genes view, I think.

      as for the genotype backgrounds table, we may want to turn this into some kind of geno-pheno table, where the pheno would just be "wild-type", or "normal", or something like that.

      some time later, we will want to bring in actual genomic coordinates, but for now the genetic map will be sufficient and not too bulky.

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              nlw Nicole Washington
              nlw Nicole Washington
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