== Triple Store Survey for Life Science Data ==

    * [#overview Overview]
    * [#platform Platform]
    * [#data Data]
    * Database
       * Bigdata [wiki:bigdata => Bigdata ]
       * 4store  [wiki:4store => 4store  ]
       * Virtuoso [wiki:Virtuoso => Virtuoso ]
       * Owlim-se [wiki:OwlimSe => OwlimSe  ]
       * Mulgara [wiki:Mulgara  => Mulgara ]
   *  Summarize  [wiki:summarize =>summarize]

=== Overview === #overview


=== Platform === #platform 

* Machine:
 * OS:   GNU/linux 
 * CPU:  GenuineIntel 6; model name : Intel(R) Xeon(R) CPU E5649  @ 2.53GHz; 12 cores 24 hyper-threading
 * Mem:  65996128 kB
 * Harddisk: SCSI Raid 0 (three  hard disks of 1 Tera bytes, two of them are used to store data)

* Software: 
  * JDK:1.6.0_26 
  * Virtuoso: 6.3 commercial
  * OwlimSE: 4.3.4238
  * Mulgara: 2.1.12
  * 4store:  1.1.4
  * Bigdata: RWSTORE_1_1_0 

=== Data === #data      
Allie: .n3 format, 94,420,989 tripples, sparql query attachment:allie.txt .

PDBJ: .rdf.gz format ,589,987,335 triples, 77878 files,  from  [ftp://ftp.pdbj.org/XML/rdf/]. sparql query attachment:pdbj.txt.

Uniprot: .rdf.gz format , about 4 billion triples, the 3 largest files are uniprot.rdf.gz,uniparc.rdf.gz,uniref.rdf.gz, from [ftp://ftp.uniprot.org/pub/databases/uniprot/] (the experiment used data was  2011.Nov version). sparql query attachment:uniprot.txt or [http://beta.sparql.uniprot.org/].

DDBJ: .rdf.gz format, about 8 billion triples, 330 files, from [ftp://ftp.ddbj.nig.ac.jp/ddbj_database/ddbj/]. sparql query attachment:ddbj.txt .