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Table 2 Data sets and Uniform Resource Identifiers (URIs) used in the RDF graph

From: Francisella tularensis novicida proteomic and transcriptomic data integration and annotation based on semantic web technologies

Resource Identifier Source file name No. of triples
FTN Ft novicida_U112_go.nt 135,345
Fn genome annotation from Gene Ontology Database
http://www.genome.jp/dbget-bin/www_bget?ftn:FTN_0277
FTN u112_kegg.nt 3252
Fn genome annotation from the KEGG Database
http://www.genome.jp/dbget-bin/www_bget?ftn:FTN_0926
NCBI Protein ID NC_008601.nt 12,781
Fn annotation data from Refseq Database
http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=118496620
NCBI Protein ID francisellaPROTEIN.fasta.nt 5,160
Fn sequence data from Refseq Database
http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=118496625
NCBI Protein ID francisellaSUPERFAMILY.n3 16,110
Fn data from SUPERFAMILY Database
http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=118496617
IMG Gene ID francisella.rdf2.nt 10,434
Fn genome data from The integrated microbial genomes (IMG) system
http://img.jgi.doe.gov/cgi-bin/pub/main.cgi?section=GeneDetail&gene_oid=639753598
PSN.V1 Membranes.nt/Soluble.nt/Wholecell.nt 748,157
University of Washington MglA protein abundance data sets from biological samples Membranes, Soluble and Whole cell
https://wwamirce.gs.washington.edu/cgi-bin/fnu112/poson.cgi?poson=PSN081056
PSN.V1 cogNumberURL.nt 2,54
University of Washington MglA annotation referring to COG database
https://wwamirce.gs.washington.edu/cgi-bin/fnu112/poson.cgi?poson=PSN035866
PSN.V3 FnU112Version3.nt 56,754
Fn genome data from University of Washington
https://wwamirce.gs.washington.edu/cgi-bin/fnu112/poson.cgi?poson=PSN0088754.3
DDB ID interact-prot-peptides.nt 248,647
Fn peptide data from University of Washington
http://regis-web.systemsbiology.net/protXML/protein_group/protein/peptide/id/ddb000010839p39
DDB ID interact-prot.nt 20,682
Fn protein identification data from University of Washington
http://regis-web.systemsbiology.net/protXML/protein_group/protein/peptide/id/ddb000010839
DDB ID Mgla_search_db.fasta.blastp4_ypURL.nt 1,719
DDB/PSN mapping from BLAST comparison run locally
http://regis-web.systemsbiology.net/protXML/protein_group/protein/protein_name/ddb000147854
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