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