class BioInterchange::GOXRef
Public Class Methods
Returns the link-out URI for objects of “Arabidopsis Genome Initiative”.
# File lib/biointerchange/goxref.rb, line 6 def self.AGI_LocusCode RDF::URI.new("http://arabidopsis.org/servlets/TairObject?type=locus&name=") end
Returns the link-out URI for objects of “A Systematic Annotation Package for Community Analysis of Genomes”.
# File lib/biointerchange/goxref.rb, line 21 def self.ASAP RDF::URI.new("https://asap.ahabs.wisc.edu/annotation/php/feature_info.php?FeatureID=") end
Returns the link-out URI for objects of “PlasmoDB Plasmodium Genome Resource”.
# File lib/biointerchange/goxref.rb, line 11 def self.ApiDB_PlasmoDB RDF::URI.new("http://www.plasmodb.org/gene/") end
Returns the link-out URI for objects of “AraCyc metabolic pathway database for Arabidopsis thaliana”.
# File lib/biointerchange/goxref.rb, line 16 def self.AraCyc RDF::URI.new("http://www.arabidopsis.org:1555/ARA/NEW-IMAGE?type=NIL&object=") end
Returns the link-out URI for objects of “Aspergillus Genome Database”.
# File lib/biointerchange/goxref.rb, line 26 def self.AspGD RDF::URI.new("http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid=") end
Returns the link-out URI for objects of “Aspergillus Genome Database”.
# File lib/biointerchange/goxref.rb, line 31 def self.AspGD_LOCUS RDF::URI.new("http://www.aspergillusgenome.org/cgi-bin/locus.pl?locus=") end
Returns the link-out URI for objects of “Aspergillus Genome Database”.
# File lib/biointerchange/goxref.rb, line 36 def self.AspGD_REF RDF::URI.new("http://www.aspergillusgenome.org/cgi-bin/reference/reference.pl?dbid=") end
Returns the link-out URI for objects of “Basic Formal Ontology”.
# File lib/biointerchange/goxref.rb, line 41 def self.BFO RDF::URI.new("http://purl.obolibrary.org/obo/BFO_") end
Returns the link-out URI for objects of “BioModels Database”.
# File lib/biointerchange/goxref.rb, line 51 def self.BIOMD RDF::URI.new("http://www.ebi.ac.uk/compneur-srv/biomodels-main/publ-model.do?mid=") end
Returns the link-out URI for objects of “BRENDA, The Comprehensive Enzyme Information System”.
# File lib/biointerchange/goxref.rb, line 56 def self.BRENDA RDF::URI.new("http://www.brenda-enzymes.info/php/result_flat.php4?ecno=") end
Returns the link-out URI for objects of “BioCyc collection of metabolic pathway databases”.
# File lib/biointerchange/goxref.rb, line 46 def self.BioCyc RDF::URI.new("http://biocyc.org/META/NEW-IMAGE?type=PATHWAY&object=") end
Returns the link-out URI for objects of “Magnaporthe grisea Database”.
# File lib/biointerchange/goxref.rb, line 61 def self.Broad_MGG RDF::URI.new("http://www.broad.mit.edu/annotation/genome/magnaporthe_grisea/GeneLocus.html?sp=S") end
Returns the link-out URI for objects of “Catalog of Fishes genus database”.
# File lib/biointerchange/goxref.rb, line 66 def self.CASGEN RDF::URI.new("http://research.calacademy.org/research/ichthyology/catalog/getname.asp?rank=Genus&id=") end
Returns the link-out URI for objects of “Catalog of Fishes publications database”.
# File lib/biointerchange/goxref.rb, line 71 def self.CASREF RDF::URI.new("http://research.calacademy.org/research/ichthyology/catalog/getref.asp?id=") end
Returns the link-out URI for objects of “Catalog of Fishes species database”.
# File lib/biointerchange/goxref.rb, line 76 def self.CASSPC RDF::URI.new("http://research.calacademy.org/research/ichthyology/catalog/getname.asp?rank=Species&id=1979") end
Returns the link-out URI for objects of “Conserved Domain Database at NCBI”.
# File lib/biointerchange/goxref.rb, line 81 def self.CDD RDF::URI.new("http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=") end
Returns the link-out URI for objects of “Candida Genome Database”.
# File lib/biointerchange/goxref.rb, line 86 def self.CGD RDF::URI.new("http://www.candidagenome.org/cgi-bin/locus.pl?dbid=") end
Returns the link-out URI for objects of “Candida Genome Database”.
# File lib/biointerchange/goxref.rb, line 91 def self.CGD_LOCUS RDF::URI.new("http://www.candidagenome.org/cgi-bin/locus.pl?locus=") end
Returns the link-out URI for objects of “Candida Genome Database”.
# File lib/biointerchange/goxref.rb, line 96 def self.CGD_REF RDF::URI.new("http://www.candidagenome.org/cgi-bin/reference/reference.pl?dbid=") end
Returns the link-out URI for objects of “Chemical Entities of Biological Interest”.
# File lib/biointerchange/goxref.rb, line 101 def self.CHEBI RDF::URI.new("http://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:") end
Returns the link-out URI for objects of “Cell Type Ontology”.
# File lib/biointerchange/goxref.rb, line 106 def self.CL RDF::URI.new("http://purl.obolibrary.org/obo/CL_") end
Returns the link-out URI for objects of “NCBI COG cluster”.
# File lib/biointerchange/goxref.rb, line 111 def self.COG_Cluster RDF::URI.new("http://www.ncbi.nlm.nih.gov/COG/new/release/cow.cgi?cog=") end
Returns the link-out URI for objects of “NCBI COG function”.
# File lib/biointerchange/goxref.rb, line 116 def self.COG_Function RDF::URI.new("http://www.ncbi.nlm.nih.gov/COG/grace/shokog.cgi?fun=") end
Returns the link-out URI for objects of “NCBI COG pathway”.
# File lib/biointerchange/goxref.rb, line 121 def self.COG_Pathway RDF::URI.new("http://www.ncbi.nlm.nih.gov/COG/new/release/coglist.cgi?pathw=") end
Returns the link-out URI for objects of “CORUM - the Comprehensive Resource of Mammalian protein complexes”.
# File lib/biointerchange/goxref.rb, line 126 def self.CORUM RDF::URI.new("http://mips.gsf.de/genre/proj/corum/complexdetails.html?id=") end
Returns the link-out URI for objects of “DNA Databank of Japan”.
# File lib/biointerchange/goxref.rb, line 136 def self.DDBJ RDF::URI.new("http://arsa.ddbj.nig.ac.jp/arsa/ddbjSplSearch?KeyWord=") end
Returns the link-out URI for objects of “Digital Object Identifier”.
# File lib/biointerchange/goxref.rb, line 156 def self.DOI RDF::URI.new("http://dx.doi.org/DOI:") end
Returns the link-out URI for objects of “Enzyme Commission”.
# File lib/biointerchange/goxref.rb, line 161 def self.EC RDF::URI.new("http://www.expasy.org/enzyme/") end
Returns the link-out URI for objects of “EcoGene Database of Escherichia coli Sequence and Function”.
# File lib/biointerchange/goxref.rb, line 171 def self.ECK RDF::URI.new("http://www.ecogene.org/geneInfo.php?eck_id=") end
Returns the link-out URI for objects of “EcoGene Database of Escherichia coli Sequence and Function”.
# File lib/biointerchange/goxref.rb, line 186 def self.ECOGENE RDF::URI.new("http://www.ecogene.org/geneInfo.php?eg_id=") end
Returns the link-out URI for objects of “EMBL Nucleotide Sequence Database”.
# File lib/biointerchange/goxref.rb, line 191 def self.EMBL RDF::URI.new("http://www.ebi.ac.uk/cgi-bin/emblfetch?style=html&Submit=Go&id=") end
Returns the link-out URI for objects of “European Nucleotide Archive”.
# File lib/biointerchange/goxref.rb, line 196 def self.ENA RDF::URI.new("http://www.ebi.ac.uk/ena/data/view/") end
Returns the link-out URI for objects of “Ensembl database of automatically annotated genomic data”.
# File lib/biointerchange/goxref.rb, line 201 def self.ENSEMBL RDF::URI.new("http://www.ensembl.org/id/") end
Returns the link-out URI for objects of “Ensembl database of automatically annotated genomic data”.
# File lib/biointerchange/goxref.rb, line 206 def self.ENSEMBL_GeneID RDF::URI.new("http://www.ensembl.org/id/") end
Returns the link-out URI for objects of “Ensembl database of automatically annotated genomic data”.
# File lib/biointerchange/goxref.rb, line 211 def self.ENSEMBL_ProteinID RDF::URI.new("http://www.ensembl.org/id/") end
Returns the link-out URI for objects of “Ensembl database of automatically annotated genomic data”.
# File lib/biointerchange/goxref.rb, line 216 def self.ENSEMBL_TranscriptID RDF::URI.new("http://www.ensembl.org/id/") end
Returns the link-out URI for objects of “Swiss Institute of Bioinformatics enzyme database”.
# File lib/biointerchange/goxref.rb, line 221 def self.ENZYME RDF::URI.new("http://www.expasy.ch/cgi-bin/nicezyme.pl?") end
Returns the link-out URI for objects of “EchoBASE post-genomic database for Escherichia coli”.
# File lib/biointerchange/goxref.rb, line 166 def self.EchoBASE RDF::URI.new("http://www.biolws1.york.ac.uk/echobase/Gene.cfm?recordID=") end
Returns the link-out URI for objects of “Encyclopedia of E. coli metabolism”.
# File lib/biointerchange/goxref.rb, line 176 def self.EcoCyc RDF::URI.new("http://biocyc.org/ECOLI/NEW-IMAGE?type=PATHWAY&object=") end
Returns the link-out URI for objects of “Encyclopedia of E. coli metabolism”.
# File lib/biointerchange/goxref.rb, line 181 def self.EcoCyc_REF RDF::URI.new("http://biocyc.org/ECOLI/reference.html?type=CITATION-FRAME&object=") end
Returns the link-out URI for objects of “Drosophila gross anatomy”.
# File lib/biointerchange/goxref.rb, line 226 def self.FBbt RDF::URI.new("http://flybase.org/cgi-bin/fbcvq.html?query=FBbt:") end
Returns the link-out URI for objects of “Human Genome Database”.
# File lib/biointerchange/goxref.rb, line 231 def self.GDB RDF::URI.new("http://www.gdb.org/gdb-bin/genera/accno?accessionNum=GDB:") end
Returns the link-out URI for objects of “NCBI Gene Expression Omnibus”.
# File lib/biointerchange/goxref.rb, line 271 def self.GEO RDF::URI.new("http://www.ncbi.nlm.nih.gov/sites/GDSbrowser?acc=") end
Returns the link-out URI for objects of “Gene Ontology Database”.
# File lib/biointerchange/goxref.rb, line 276 def self.GO RDF::URI.new("http://amigo.geneontology.org/cgi-bin/amigo/term-details.cgi?term=GO:") end
Returns the link-out URI for objects of “Gene Ontology Normal Usage Tracking System (GONUTS
)”.
# File lib/biointerchange/goxref.rb, line 286 def self.GONUTS RDF::URI.new("http://gowiki.tamu.edu/wiki/index.php/") end
Returns the link-out URI for objects of “Gene Ontology Database references”.
# File lib/biointerchange/goxref.rb, line 281 def self.GO_REF RDF::URI.new("http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:") end
Returns the link-out URI for objects of “Gramene: A Comparative Mapping Resource for Grains”.
# File lib/biointerchange/goxref.rb, line 291 def self.GR RDF::URI.new("http://www.gramene.org/db/searches/browser?search_type=All&RGN=on&query=") end
Returns the link-out URI for objects of “Gramene: A Comparative Mapping Resource for Grains”.
# File lib/biointerchange/goxref.rb, line 296 def self.GR_GENE RDF::URI.new("http://www.gramene.org/db/genes/search_gene?acc=") end
Returns the link-out URI for objects of “Gramene: A Comparative Mapping Resource for Grains”.
# File lib/biointerchange/goxref.rb, line 301 def self.GR_PROTEIN RDF::URI.new("http://www.gramene.org/db/protein/protein_search?acc=") end
Returns the link-out URI for objects of “Gramene: A Comparative Mapping Resource for Grains”.
# File lib/biointerchange/goxref.rb, line 306 def self.GR_QTL RDF::URI.new("http://www.gramene.org/db/qtl/qtl_display?qtl_accession_id=") end
Returns the link-out URI for objects of “Gramene: A Comparative Mapping Resource for Grains”.
# File lib/biointerchange/goxref.rb, line 311 def self.GR_REF RDF::URI.new("http://www.gramene.org/db/literature/pub_search?ref_id=") end
Returns the link-out URI for objects of “GenBank”.
# File lib/biointerchange/goxref.rb, line 236 def self.GenBank RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=") end
Returns the link-out URI for objects of “Domain Architecture Classification”.
# File lib/biointerchange/goxref.rb, line 241 def self.Gene3D RDF::URI.new("http://gene3d.biochem.ucl.ac.uk/superfamily/?accession=") end
Returns the link-out URI for objects of “Glossina morsitans GeneDB”.
# File lib/biointerchange/goxref.rb, line 246 def self.GeneDB_Gmorsitans RDF::URI.new("http://www.genedb.org/genedb/Search?organism=glossina&name=") end
Returns the link-out URI for objects of “Leishmania major GeneDB”.
# File lib/biointerchange/goxref.rb, line 251 def self.GeneDB_Lmajor RDF::URI.new("http://www.genedb.org/genedb/Search?organism=leish&name=") end
Returns the link-out URI for objects of “Plasmodium falciparum GeneDB”.
# File lib/biointerchange/goxref.rb, line 256 def self.GeneDB_Pfalciparum RDF::URI.new("http://www.genedb.org/genedb/Search?organism=malaria&name=") end
Returns the link-out URI for objects of “Schizosaccharomyces pombe GeneDB”.
# File lib/biointerchange/goxref.rb, line 261 def self.GeneDB_Spombe RDF::URI.new("http://old.genedb.org/genedb/Search?organism=pombe&name=") end
Returns the link-out URI for objects of “Trypanosoma brucei GeneDB”.
# File lib/biointerchange/goxref.rb, line 266 def self.GeneDB_Tbrucei RDF::URI.new("http://www.genedb.org/genedb/Search?organism=tryp&name=") end
Returns the link-out URI for objects of “High-quality Automated and Manual Annotation of microbial Proteomes”.
# File lib/biointerchange/goxref.rb, line 326 def self.HAMAP RDF::URI.new("http://us.expasy.org/unirules/") end
Returns the link-out URI for objects of “HUGO Gene Nomenclature Committee”.
# File lib/biointerchange/goxref.rb, line 331 def self.HGNC RDF::URI.new("http://www.genenames.org/data/hgnc_data.php?hgnc_id=HGNC:") end
Returns the link-out URI for objects of “HUGO Gene Nomenclature Committee”.
# File lib/biointerchange/goxref.rb, line 336 def self.HGNC_gene RDF::URI.new("http://www.genenames.org/data/hgnc_data.php?app_sym=") end
Returns the link-out URI for objects of “Human Protein Atlas tissue profile information”.
# File lib/biointerchange/goxref.rb, line 341 def self.HPA RDF::URI.new("http://www.proteinatlas.org/tissue_profile.php?antibody_id=") end
Returns the link-out URI for objects of “Human Protein Atlas antibody information”.
# File lib/biointerchange/goxref.rb, line 346 def self.HPA_antibody RDF::URI.new("http://www.proteinatlas.org/antibody_info.php?antibody_id=") end
Returns the link-out URI for objects of “H-invitational Database”.
# File lib/biointerchange/goxref.rb, line 316 def self.H_invDB_cDNA RDF::URI.new("http://www.h-invitational.jp/hinv/spsoup/transcript_view?acc_id=") end
Returns the link-out URI for objects of “H-invitational Database”.
# File lib/biointerchange/goxref.rb, line 321 def self.H_invDB_locus RDF::URI.new("http://www.h-invitational.jp/hinv/spsoup/locus_view?hix_id=") end
Returns the link-out URI for objects of “Integrated Microbial Genomes; JGI web site for genome annotation”.
# File lib/biointerchange/goxref.rb, line 351 def self.IMG RDF::URI.new("http://img.jgi.doe.gov/cgi-bin/pub/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=") end
Returns the link-out URI for objects of “International Standard Book Number”.
# File lib/biointerchange/goxref.rb, line 366 def self.ISBN RDF::URI.new("http://my.linkbaton.com/get?lbCC=q&nC=q&genre=book&item=") end
Returns the link-out URI for objects of “International Union of Pharmacology”.
# File lib/biointerchange/goxref.rb, line 371 def self.IUPHAR_GPCR RDF::URI.new("http://www.iuphar-db.org/DATABASE/FamilyMenuForward?familyId=") end
Returns the link-out URI for objects of “International Union of Pharmacology”.
# File lib/biointerchange/goxref.rb, line 376 def self.IUPHAR_RECEPTOR RDF::URI.new("http://www.iuphar-db.org/DATABASE/ObjectDisplayForward?objectId=") end
Returns the link-out URI for objects of “IntAct protein interaction database”.
# File lib/biointerchange/goxref.rb, line 356 def self.IntAct RDF::URI.new("http://www.ebi.ac.uk/intact/search/do/search?searchString=") end
Returns the link-out URI for objects of “InterPro database of protein domains and motifs”.
# File lib/biointerchange/goxref.rb, line 361 def self.InterPro RDF::URI.new("http://www.ebi.ac.uk/interpro/IEntry?ac=") end
Returns the link-out URI for objects of “Comprehensive Microbial Resource at the J. Craig Venter Institute”.
# File lib/biointerchange/goxref.rb, line 381 def self.JCVI_CMR RDF::URI.new("http://cmr.jcvi.org/cgi-bin/CMR/shared/GenePage.cgi?locus=") end
Returns the link-out URI for objects of “Comprehensive Microbial Resource at the J. Craig Venter Institute”.
# File lib/biointerchange/goxref.rb, line 386 def self.JCVI_EGAD RDF::URI.new("http://cmr.jcvi.org/cgi-bin/CMR/EgadSearch.cgi?search_string=") end
Returns the link-out URI for objects of “Genome Properties database at the J. Craig Venter Institute”.
# File lib/biointerchange/goxref.rb, line 391 def self.JCVI_GenProp RDF::URI.new("http://cmr.jcvi.org/cgi-bin/CMR/shared/GenomePropDefinition.cgi?prop_acc=") end
Returns the link-out URI for objects of “Medicago truncatula genome database at the J. Craig Venter Institute ”.
# File lib/biointerchange/goxref.rb, line 396 def self.JCVI_Medtr RDF::URI.new("http://medicago.jcvi.org/cgi-bin/medicago/search/shared/ORF_infopage.cgi?orf=") end
Returns the link-out URI for objects of “TIGRFAMs HMM collection at the J. Craig Venter Institute”.
# File lib/biointerchange/goxref.rb, line 401 def self.JCVI_TIGRFAMS RDF::URI.new("http://search.jcvi.org/search?p&q=") end
Returns the link-out URI for objects of “Digital archive of scholarly articles”.
# File lib/biointerchange/goxref.rb, line 406 def self.JSTOR RDF::URI.new("http://www.jstor.org/stable/") end
Returns the link-out URI for objects of “KEGG Enzyme Database”.
# File lib/biointerchange/goxref.rb, line 411 def self.KEGG_ENZYME RDF::URI.new("http://www.genome.jp/dbget-bin/www_bget?ec:") end
Returns the link-out URI for objects of “KEGG LIGAND Database”.
# File lib/biointerchange/goxref.rb, line 416 def self.KEGG_LIGAND RDF::URI.new("http://www.genome.jp/dbget-bin/www_bget?cpd:") end
Returns the link-out URI for objects of “KEGG Pathways Database”.
# File lib/biointerchange/goxref.rb, line 421 def self.KEGG_PATHWAY RDF::URI.new("http://www.genome.jp/dbget-bin/www_bget?path:") end
Returns the link-out URI for objects of “KEGG Reaction Database”.
# File lib/biointerchange/goxref.rb, line 426 def self.KEGG_REACTION RDF::URI.new("http://www.genome.jp/dbget-bin/www_bget?rn:") end
Returns the link-out URI for objects of “LifeDB”.
# File lib/biointerchange/goxref.rb, line 431 def self.LIFEdb RDF::URI.new("http://www.dkfz.de/LIFEdb/LIFEdb.aspx?ID=") end
Returns the link-out URI for objects of “Adult Mouse Anatomical Dictionary”.
# File lib/biointerchange/goxref.rb, line 436 def self.MA RDF::URI.new("http://www.informatics.jax.org/searches/AMA.cgi?id=MA:") end
Returns the link-out URI for objects of “MEROPS peptidase database”.
# File lib/biointerchange/goxref.rb, line 451 def self.MEROPS RDF::URI.new("http://merops.sanger.ac.uk/cgi-bin/pepsum?mid=") end
Returns the link-out URI for objects of “MEROPS peptidase database”.
# File lib/biointerchange/goxref.rb, line 456 def self.MEROPS_fam RDF::URI.new("http://merops.sanger.ac.uk/cgi-bin/famsum?family=") end
Returns the link-out URI for objects of “Mouse Genome Informatics”.
# File lib/biointerchange/goxref.rb, line 471 def self.MGI RDF::URI.new("http://www.informatics.jax.org/accession/") end
Returns the link-out URI for objects of “MIPS Functional Catalogue”.
# File lib/biointerchange/goxref.rb, line 476 def self.MIPS_funcat RDF::URI.new("http://mips.gsf.de/cgi-bin/proj/funcatDB/search_advanced.pl?action=2&wert=") end
Returns the link-out URI for objects of “MGED Ontology”.
# File lib/biointerchange/goxref.rb, line 481 def self.MO RDF::URI.new("http://mged.sourceforge.net/ontologies/MGEDontology.php#") end
Returns the link-out URI for objects of “MaizeGDB”.
# File lib/biointerchange/goxref.rb, line 441 def self.MaizeGDB RDF::URI.new("http://www.maizegdb.org/cgi-bin/id_search.cgi?id=") end
Returns the link-out URI for objects of “MaizeGDB”.
# File lib/biointerchange/goxref.rb, line 446 def self.MaizeGDB_Locus RDF::URI.new("http://www.maizegdb.org/cgi-bin/displaylocusresults.cgi?term=") end
Returns the link-out URI for objects of “Medical Subject Headings”.
# File lib/biointerchange/goxref.rb, line 461 def self.MeSH RDF::URI.new("http://www.nlm.nih.gov/cgi/mesh/2005/MB_cgi?mode=&term=") end
Returns the link-out URI for objects of “Metabolic Encyclopedia of metabolic and other pathways”.
# File lib/biointerchange/goxref.rb, line 466 def self.MetaCyc RDF::URI.new("http://biocyc.org/META/NEW-IMAGE?type=NIL&object=") end
Returns the link-out URI for objects of “ModBase comprehensive Database of Comparative Protein Structure Models”.
# File lib/biointerchange/goxref.rb, line 486 def self.ModBase RDF::URI.new("http://salilab.org/modbase/searchbyid?databaseID=") end
Returns the link-out URI for objects of “Nottingham Arabidopsis Stock Centre Seeds Database”.
# File lib/biointerchange/goxref.rb, line 491 def self.NASC_code RDF::URI.new("http://seeds.nottingham.ac.uk/NASC/stockatidb.lasso?code=") end
Returns the link-out URI for objects of “NCBI GenPept”.
# File lib/biointerchange/goxref.rb, line 506 def self.NCBI_GP RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&val=") end
Returns the link-out URI for objects of “NCBI Gene”.
# File lib/biointerchange/goxref.rb, line 496 def self.NCBI_Gene RDF::URI.new("http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=gene&list_uids=") end
Returns the link-out URI for objects of “NCBI databases”.
# File lib/biointerchange/goxref.rb, line 501 def self.NCBI_gi RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=") end
Returns the link-out URI for objects of “Neuroscience Information Framework standard ontology, subcellular hierarchy”.
# File lib/biointerchange/goxref.rb, line 511 def self.NIF_Subcellular RDF::URI.new("http://www.neurolex.org/wiki/") end
Returns the link-out URI for objects of “National Microbial Pathogen Data Resource”.
# File lib/biointerchange/goxref.rb, line 516 def self.NMPDR RDF::URI.new("http://www.nmpdr.org/linkin.cgi?id=") end
Returns the link-out URI for objects of “Mendelian Inheritance in Man”.
# File lib/biointerchange/goxref.rb, line 521 def self.OMIM RDF::URI.new("http://omim.org/entry/") end
Returns the link-out URI for objects of “Genome Annotation Tool (Agrobacterium tumefaciens C58); PAMGO Interest Group”.
# File lib/biointerchange/goxref.rb, line 526 def self.PAMGO_GAT RDF::URI.new("http://agro.vbi.vt.edu/public/servlet/GeneEdit?&Search=Search&level=2&genename=") end
Returns the link-out URI for objects of “Magnaporthe grisea database”.
# File lib/biointerchange/goxref.rb, line 531 def self.PAMGO_MGG RDF::URI.new("http://scotland.fgl.ncsu.edu/cgi-bin/adHocQuery.cgi?adHocQuery_dbName=smeng_goannotation&Action=Data&QueryName=Functional+Categorization+of+MGG+GO+Annotation&P_KeyWord=") end
Returns the link-out URI for objects of “Virginia Bioinformatics Institute Microbial Database”.
# File lib/biointerchange/goxref.rb, line 536 def self.PAMGO_VMD RDF::URI.new("http://vmd.vbi.vt.edu/cgi-bin/browse/go_detail.cgi?gene_id=") end
Returns the link-out URI for objects of “Protein ANalysis THrough Evolutionary Relationships”.
# File lib/biointerchange/goxref.rb, line 541 def self.PANTHER RDF::URI.new("http://pantree.org/node/annotationNode.jsp?id=") end
Returns the link-out URI for objects of “PathoSystems Resource Integration Center”.
# File lib/biointerchange/goxref.rb, line 546 def self.PATRIC RDF::URI.new("http://patric.vbi.vt.edu/gene/overview.php?fid=") end
Returns the link-out URI for objects of “Protein Data Bank”.
# File lib/biointerchange/goxref.rb, line 551 def self.PDB RDF::URI.new("http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=") end
Returns the link-out URI for objects of “Protein Information Resource”.
# File lib/biointerchange/goxref.rb, line 566 def self.PIR RDF::URI.new("http://pir.georgetown.edu/cgi-bin/pirwww/nbrfget?uid=") end
Returns the link-out URI for objects of “PIR Superfamily Classification System”.
# File lib/biointerchange/goxref.rb, line 571 def self.PIRSF RDF::URI.new("http://pir.georgetown.edu/cgi-bin/ipcSF?id=") end
Returns the link-out URI for objects of “Pubmed Central”.
# File lib/biointerchange/goxref.rb, line 576 def self.PMCID RDF::URI.new("http://www.ncbi.nlm.nih.gov/sites/entrez?db=pmc&cmd=search&term=") end
Returns the link-out URI for objects of “PubMed”.
# File lib/biointerchange/goxref.rb, line 581 def self.PMID RDF::URI.new("http://www.ncbi.nlm.nih.gov/pubmed/") end
Returns the link-out URI for objects of “Plant Ontology Consortium Database”.
# File lib/biointerchange/goxref.rb, line 586 def self.PO RDF::URI.new("http://www.plantontology.org/amigo/go.cgi?action=query&view=query&search_constraint=terms&query=PO:") end
Returns the link-out URI for objects of “Plant Ontology custom references”.
# File lib/biointerchange/goxref.rb, line 591 def self.PO_REF RDF::URI.new("http://wiki.plantontology.org:8080/index.php/PO_REF:") end
Returns the link-out URI for objects of “Protein Ontology”.
# File lib/biointerchange/goxref.rb, line 601 def self.PR RDF::URI.new("http://www.proconsortium.org/cgi-bin/pro/entry_pro?id=PR:") end
Returns the link-out URI for objects of “PRINTS compendium of protein fingerprints”.
# File lib/biointerchange/goxref.rb, line 606 def self.PRINTS RDF::URI.new("http://www.bioinf.manchester.ac.uk/cgi-bin/dbbrowser/sprint/searchprintss.cgi?display_opts=Prints&category=None&queryform=false®expr=off&prints_accn=") end
Returns the link-out URI for objects of “Proteomics Standards Initiative protein modification ontology”.
# File lib/biointerchange/goxref.rb, line 626 def self.PSI_MOD RDF::URI.new("http://www.ebi.ac.uk/ontology-lookup/?termId=MOD:") end
Returns the link-out URI for objects of “Pfam database of protein families”.
# File lib/biointerchange/goxref.rb, line 556 def self.Pfam RDF::URI.new("http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?") end
Returns the link-out URI for objects of “Pharmacogenetics and Pharmacogenomics Knowledge Base”.
# File lib/biointerchange/goxref.rb, line 561 def self.PharmGKB RDF::URI.new("http://www.pharmgkb.org/do/serve?objId=") end
Returns the link-out URI for objects of “PomBase”.
# File lib/biointerchange/goxref.rb, line 596 def self.PomBase RDF::URI.new("http://www.pombase.org/spombe/result/") end
Returns the link-out URI for objects of “ProDom protein domain families”.
# File lib/biointerchange/goxref.rb, line 611 def self.ProDom RDF::URI.new("http://prodom.prabi.fr/prodom/current/cgi-bin/request.pl?question=DBEN&query=") end
Returns the link-out URI for objects of “Prosite database of protein families and domains”.
# File lib/biointerchange/goxref.rb, line 616 def self.Prosite RDF::URI.new("http://www.expasy.ch/cgi-bin/prosite-search-ac?") end
Returns the link-out URI for objects of “Pseudomonas Genome Project”.
# File lib/biointerchange/goxref.rb, line 621 def self.PseudoCAP RDF::URI.new("http://v2.pseudomonas.com/getAnnotation.do?locusID=") end
Returns the link-out URI for objects of “NCBI PubChem database of bioassay records”.
# File lib/biointerchange/goxref.rb, line 631 def self.PubChem_BioAssay RDF::URI.new("http://pubchem.ncbi.nlm.nih.gov/assay/assay.cgi?aid=") end
Returns the link-out URI for objects of “NCBI PubChem database of chemical structures”.
# File lib/biointerchange/goxref.rb, line 636 def self.PubChem_Compound RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&DB=pccompound&term=") end
Returns the link-out URI for objects of “NCBI PubChem database of chemical substances”.
# File lib/biointerchange/goxref.rb, line 641 def self.PubChem_Substance RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&DB=pcsubstance&term=") end
Returns the link-out URI for objects of “Rat Genome Database”.
# File lib/biointerchange/goxref.rb, line 671 def self.RGD RDF::URI.new("http://rgd.mcw.edu/generalSearch/RgdSearch.jsp?quickSearch=1&searchKeyword=") end
Returns the link-out URI for objects of “Rhea, the Annotated Reactions Database”.
# File lib/biointerchange/goxref.rb, line 676 def self.RHEA RDF::URI.new("http://www.ebi.ac.uk/rhea/reaction.xhtml?id=") end
Returns the link-out URI for objects of “RNA Modification Database”.
# File lib/biointerchange/goxref.rb, line 681 def self.RNAmods RDF::URI.new("http://s59.cas.albany.edu/RNAmods/cgi-bin/rnashow.cgi?") end
Returns the link-out URI for objects of “OBO Relation Ontology Ontology”.
# File lib/biointerchange/goxref.rb, line 686 def self.RO RDF::URI.new("http://purl.obolibrary.org/obo/RO_") end
Returns the link-out URI for objects of “Reactome - a curated knowledgebase of biological pathways”.
# File lib/biointerchange/goxref.rb, line 646 def self.Reactome RDF::URI.new("http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=") end
Returns the link-out URI for objects of “RefSeq”.
# File lib/biointerchange/goxref.rb, line 651 def self.RefSeq RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=") end
Returns the link-out URI for objects of “RefSeq (Nucleic Acid)”.
# File lib/biointerchange/goxref.rb, line 656 def self.RefSeq_NA RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=") end
Returns the link-out URI for objects of “RefSeq (Protein)”.
# File lib/biointerchange/goxref.rb, line 661 def self.RefSeq_Prot RDF::URI.new("http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=") end
Returns the link-out URI for objects of “Rfam database of RNA families”.
# File lib/biointerchange/goxref.rb, line 666 def self.Rfam RDF::URI.new("http://rfam.sanger.ac.uk/family/") end
Returns the link-out URI for objects of “SABIO Reaction Kinetics”.
# File lib/biointerchange/goxref.rb, line 691 def self.SABIO_RK RDF::URI.new("http://sabio.villa-bosch.de/reacdetails.jsp?reactid=") end
Returns the link-out URI for objects of “The SEED
;”.
# File lib/biointerchange/goxref.rb, line 696 def self.SEED RDF::URI.new("http://www.theseed.org/linkin.cgi?id=") end
Returns the link-out URI for objects of “Saccharomyces Genome Database”.
# File lib/biointerchange/goxref.rb, line 701 def self.SGD RDF::URI.new("http://db.yeastgenome.org/cgi-bin/locus.pl?dbid=") end
Returns the link-out URI for objects of “Saccharomyces Genome Database”.
# File lib/biointerchange/goxref.rb, line 706 def self.SGD_LOCUS RDF::URI.new("http://db.yeastgenome.org/cgi-bin/locus.pl?locus=") end
Returns the link-out URI for objects of “Saccharomyces Genome Database”.
# File lib/biointerchange/goxref.rb, line 711 def self.SGD_REF RDF::URI.new("http://db.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=") end
Returns the link-out URI for objects of “Sol Genomics
Network”.
# File lib/biointerchange/goxref.rb, line 716 def self.SGN RDF::URI.new("http://www.sgn.cornell.edu/phenome/locus_display.pl?locus_id=") end
Returns the link-out URI for objects of “Sol Genomics
Network”.
# File lib/biointerchange/goxref.rb, line 721 def self.SGN_ref RDF::URI.new("http://www.sgn.cornell.edu/chado/publication.pl?pub_id=") end
Returns the link-out URI for objects of “Simple Modular Architecture Research Tool”.
# File lib/biointerchange/goxref.rb, line 726 def self.SMART RDF::URI.new("http://smart.embl-heidelberg.de/smart/do_annotation.pl?BLAST=DUMMY&DOMAIN=") end
Returns the link-out URI for objects of “Sequence Ontology”.
# File lib/biointerchange/goxref.rb, line 731 def self.SO RDF::URI.new("http://song.sourceforge.net/SOterm_tables.html#SO:") end
Returns the link-out URI for objects of “SUPERFAMILY protein annotation database”.
# File lib/biointerchange/goxref.rb, line 736 def self.SUPERFAMILY RDF::URI.new("http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/scop.cgi?ipid=SSF") end
Returns the link-out URI for objects of “UniProtKB/Swiss-Prot”.
# File lib/biointerchange/goxref.rb, line 741 def self.Swiss_Prot RDF::URI.new("http://www.uniprot.org/uniprot/") end
Returns the link-out URI for objects of “The Arabidopsis Information Resource”.
# File lib/biointerchange/goxref.rb, line 746 def self.TAIR RDF::URI.new("http://arabidopsis.org/servlets/TairObject?accession=") end
Returns the link-out URI for objects of “Transport Protein Database”.
# File lib/biointerchange/goxref.rb, line 756 def self.TC RDF::URI.new("http://www.tcdb.org/tcdb/index.php?tc=") end
Returns the link-out URI for objects of “Tetrahymena Genome Database”.
# File lib/biointerchange/goxref.rb, line 761 def self.TGD_LOCUS RDF::URI.new("http://db.ciliate.org/cgi-bin/locus.pl?locus=") end
Returns the link-out URI for objects of “Tetrahymena Genome Database”.
# File lib/biointerchange/goxref.rb, line 766 def self.TGD_REF RDF::URI.new("http://db.ciliate.org/cgi-bin/reference/reference.pl?dbid=") end
Returns the link-out URI for objects of “UniProtKB-TrEMBL protein sequence database”.
# File lib/biointerchange/goxref.rb, line 771 def self.TrEMBL RDF::URI.new("http://www.uniprot.org/uniprot/") end
Returns the link-out URI for objects of “Uber-anatomy ontology”.
# File lib/biointerchange/goxref.rb, line 776 def self.UBERON RDF::URI.new("http://purl.obolibrary.org/obo/UBERON_") end
Returns the link-out URI for objects of “University of Minnesota Biocatalysis/Biodegradation Database”.
# File lib/biointerchange/goxref.rb, line 781 def self.UM_BBD_enzymeID RDF::URI.new("http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=ep&enzymeID=") end
Returns the link-out URI for objects of “University of Minnesota Biocatalysis/Biodegradation Database”.
# File lib/biointerchange/goxref.rb, line 786 def self.UM_BBD_reactionID RDF::URI.new("http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=r&reacID=") end
Returns the link-out URI for objects of “University of Minnesota Biocatalysis/Biodegradation Database”.
# File lib/biointerchange/goxref.rb, line 791 def self.UM_BBD_ruleID RDF::URI.new("http://umbbd.msi.umn.edu/servlets/rule.jsp?rule=") end
Returns the link-out URI for objects of “UniMod”.
# File lib/biointerchange/goxref.rb, line 796 def self.UniMod RDF::URI.new("http://www.unimod.org/modifications_view.php?editid1=") end
Returns the link-out URI for objects of “UniProt Archive”.
# File lib/biointerchange/goxref.rb, line 801 def self.UniParc RDF::URI.new("http://www.uniprot.org/uniparc/") end
Returns the link-out URI for objects of “UniPathway”.
# File lib/biointerchange/goxref.rb, line 806 def self.UniPathway RDF::URI.new("http://www.grenoble.prabi.fr/obiwarehouse/unipathway/upa?upid=") end
Returns the link-out URI for objects of “Universal Protein Knowledgebase”.
# File lib/biointerchange/goxref.rb, line 811 def self.UniProtKB RDF::URI.new("http://www.uniprot.org/uniprot/") end
Returns the link-out URI for objects of “UniProt Knowledgebase keywords”.
# File lib/biointerchange/goxref.rb, line 816 def self.UniProtKB_KW RDF::URI.new("http://www.uniprot.org/keywords/") end
Returns the link-out URI for objects of “UniProt Knowledgebase Subcellular Location vocabulary”.
# File lib/biointerchange/goxref.rb, line 821 def self.UniProtKB_SubCell RDF::URI.new("http://www.uniprot.org/locations/") end
Returns the link-out URI for objects of “Viral Bioinformatics Resource Center”.
# File lib/biointerchange/goxref.rb, line 826 def self.VBRC RDF::URI.new("http://vbrc.org/query.asp?web_id=VBRC:") end
Returns the link-out URI for objects of “Vertebrate Genome Annotation database”.
# File lib/biointerchange/goxref.rb, line 831 def self.VEGA RDF::URI.new("http://vega.sanger.ac.uk/perl/searchview?species=all&idx=All&q=") end
Returns the link-out URI for objects of “Virginia Bioinformatics Institute Microbial Database”.
# File lib/biointerchange/goxref.rb, line 836 def self.VMD RDF::URI.new("http://vmd.vbi.vt.edu/cgi-bin/browse/browserDetail_new.cgi?gene_id=") end
Returns the link-out URI for objects of “WormBase database of nematode biology”.
# File lib/biointerchange/goxref.rb, line 841 def self.WB RDF::URI.new("http://www.wormbase.org/db/gene/gene?name=") end
Returns the link-out URI for objects of “WormBase database of nematode biology”.
# File lib/biointerchange/goxref.rb, line 846 def self.WB_REF RDF::URI.new("http://www.wormbase.org/db/misc/paper?name=") end
Returns the link-out URI for objects of “Wormpep database of proteins of C. elegans”.
# File lib/biointerchange/goxref.rb, line 856 def self.WP RDF::URI.new("http://www.wormbase.org/db/get?class=Protein;name=WP:") end
Returns the link-out URI for objects of “Wikipedia”.
# File lib/biointerchange/goxref.rb, line 851 def self.Wikipedia RDF::URI.new("http://en.wikipedia.org/wiki/") end
Returns the link-out URI for objects of “Zebrafish Information Network”.
# File lib/biointerchange/goxref.rb, line 861 def self.ZFIN RDF::URI.new("http://zfin.org/cgi-bin/ZFIN_jump?record=") end
Returns the link-out URI for objects of “NCBI dbSNP”.
# File lib/biointerchange/goxref.rb, line 131 def self.dbSNP RDF::URI.new("http://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs=") end
Returns the link-out URI for objects of “dictyBase”.
# File lib/biointerchange/goxref.rb, line 141 def self.dictyBase RDF::URI.new("http://dictybase.org/gene/") end
Returns the link-out URI for objects of “dictyBase literature references”.
# File lib/biointerchange/goxref.rb, line 151 def self.dictyBase_REF RDF::URI.new("http://dictybase.org/db/cgi-bin/dictyBase/reference/reference.pl?refNo=") end
Returns the link-out URI for objects of “dictyBase”.
# File lib/biointerchange/goxref.rb, line 146 def self.dictyBase_gene_name RDF::URI.new("http://dictybase.org/gene/") end
Returns the link-out URI for objects of “NCBI Taxonomy”.
# File lib/biointerchange/goxref.rb, line 751 def self.taxon RDF::URI.new("http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=") end