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Movie Curation

In October 2012 we have decided to generate a movie OA. There were 514 movies in acedb, all pertaining the RNAi class. We are going to generate the movie OA and import those objects. Files on tazendra /home/acedb/draciti/Movies

Movie Data Model


?Movie      Description ?Text
              Public_name UNIQUE Text
              Pick_me_to_call Text Text
                      RNAi ?RNAi XREF Movie
                      Variation ?Variation XREF Movie
                      Expr_pattern ?Expr_pattern XREF Movie
              Remark ?Text #Evidence              


  • Pgdbid -- no table -- postgres database ID, generates automatically upon entry.
  • WBMovie -> "mov_name" Generates automatically upon entry. WBMovie0000000001
  • Reference -> "mov_paper" WBPaperID paper ontology not dumped
  • Source -> "mov_source" text
  • Description -> "mov_description" bigtext
  • RNAi -> "mov_rnai" Text

There are 500 objects we currently have for movie/rnai are not in rnai OA but are stored in citace minus so we cannot import them as multiontology.

  • Expression pattern -> "mov_exprpattern" multiontology on expression patterns as in Picture OA
  • Variation -> "mov_variation" multiontology on variations like in phenotype OA tab1
  • Remark -> "mov_remark" text
  • Curator -> "mov_curator"

.ace dumper

module /home/postgres/work/citace_upload/movie/

script /home/postgres/work/citace_upload/movie/

The dumper on tazendra is here: /home/acedb/draciti/oa_movie_ace_dumper

When you decide to dump WBPaperIDs change the dumper

-D file for Citace Minus

Deposited on March 14th 2013. Filename: RNAiMovie.ace

Populating RNAi-Movie data

/home/postgres/work/pgpopulation/mov_movie/20121012_newOa/ done in sandbox.

Future Directions

As of now (October 2012) movies come from 3 large scale studies

  • Fraser et al, 2000 -513 movies- (after correspondence with J Arhinger the movies were assigned to Zipperlen et al, 2001; WBPaper00004811). The Paper field in movie OA was populated on August 14 2013 through the RNAi mappings -DR.
  • Piano et al, 2000
  • Piano et al 2002; WBPaper00005599
  • Murray et al, 2012; WBPaper00040986 -321 movies

In the future if we are going to import more movies we have to make sure the file names will not overlap. To prevent this we can organize the folder in the same way we have pictures.

For this we should add in the ?Movie model the following tags

  • Reference ?Paper XREF Picture
  • Contact ?Person

Then we need to move all the movie files in folders named after the WBPaerID, as it happens for pictures

We already have a Paper field in OA

Currently movies are stored here: /home/daniela/OICR

in the Movies folder