| Xdb |
Description |
Xkey |
| AGI |
Arabidopsis Genome Initiative (AGI) at TAIR. |
Locus code. |
| AmiGO |
The Gene Ontology official browser. |
GO identifier including the 'GO:' prefix. |
| AraCyc |
Arabidopsis thaliana metabolic pathway database AraCyc. |
Identifier. |
| ArrayExpress |
Microarray experiment warehouse at EBI. |
The UniProt accession code. |
| ATC |
Anatomical Therapeutic Chemical Classification System for the classification of drugs. |
the code including the single-letter prefix. |
| BookFinder |
ISBN book directory service. |
ISBN number; 10 digits without other characters. |
| BRENDA |
BRENDA enzyme database. |
The EC number without any prefix. |
| CAS |
Chemical Abstracts Service registry number. The resolver is set to the NLM website, which is not really the proper authority for this. |
the RN identifier including the dashes. |
| CDD |
Conserved Domain Database (CDD) at NCBI. |
Identifier number with 'cd' prefix included. |
| CGD |
Candida Genome Database (CGD). |
Locus identifier. |
| CGD_gene |
Candida Genome Database (CGD). |
Gene name (symbol). |
| ChEBI |
Chemical Entities of Biological Interest (ChEBI) at EBI. |
The numerical identifier without the 'CHEBI:' prefix. |
| ClinicalTrials |
ClinicalTrials.gov website (FDA). |
Identifier including the 'NCT' prefix. |
| DailyMed |
Current Medication Information, from National Library of Medicine. |
the identifier number. |
| DDB_REF |
Dictyostelium discoideum (amoeba) database. |
Literature reference number. |
| DDBJ |
The DDBJ nucleotide database. |
Sequence accession number. |
| Dictybase |
Dictyostelium discoideum (amoeba) database. |
Accession identifier. |
| Dictybase_gene_name |
Dictyostelium discoideum (amoeba) database. |
Gene name (symbol). |
| DictyBase_REF |
Dictyostelium discoideum (amoeba) database. |
Literature reference number. |
| DIP |
Database of Interacting Proteins (DIP). |
The DIP identifier excluding the 'DIP:' identifier. |
| DOI |
Digital Object Identifier lookup and forwarding service. |
DOI identifier. |
| DrugBank |
Database of information on drugs and drug targets. |
The DrugBank identifier. |
| EC |
The IUBMB Enzyme Commission classification system for enzymes. The address for the Enzyme Commission site is derived from the EC number in an absolutely brain-dead way... |
The EC number excluding any prefix. |
| EchoBase |
EchoBASE post-genomic database for Escherichia coli. |
Record identifier. |
| ECK |
The EcoGene Database of Escherichia coli Sequence and Function. |
EcoGene Accession number |
| EcoCyc |
The Encyclopedia of E. coli metabolism. |
Pathway identifier. |
| EcoGene |
The EcoGene Database of Escherichia coli Sequence and Function. |
EcoGene Accession number |
| EMBL |
The EMBL nucleotide database. |
Sequence accession number. |
| Ensembl |
EMBL & Sanger eukaryotic genome database. This implementation cannot handle XML format (if there were any...). |
The Ensembl identifier, which is analysed to determine which species-specific address to use. |
| EntrezGene |
NCBI Entrez Gene (LocusLink) database. |
The GeneID number. |
| EntrezMapViewer |
NCBI Entrez Gene Viewer. |
The GeneID number. |
| Enzyme |
The Enzyme Commission database hosted at ExPASy. |
EC number excluding the 'EC:' prefix. |
| FB |
Drosophila (fruit fly) genetics database. |
Gene identifier or symbol (?). |
| FlyBase |
Drosophila (fruit fly) genetics database. |
Gene identifier or symbol (?). |
| GDB |
The Human Genome Database. |
Accession number excluding the 'GDB:' prefix. |
| GENATLAS |
Gene mapping and genetic disease database. |
The HGNC gene symbol, which is used in a database search. |
| GenBank |
NCBI Entrez GenBank nucleotide sequence database. The 'xml' format is the so-called TinySeq XML format. The 'insdseq' format is a more verbose XML format. |
GI excluding the 'GI:' prefix, or the accession code. |
| GenBankProtein |
NCBI protein sequence database. The 'xml' format is the so-called TinySeq XML format. The 'insdseq' format is a more verbose XML format. |
GenBank using GI (without 'GI:' part) or accession code. |
| GeneCards |
GeneCards, an integrated database of human genes. |
The HGNC identifier excluding the 'HGNC:' prefix. |
| GeneDB_Gmorsitans |
GeneDB Glossina morsitans (tsetse). |
Gene identifier. |
| GeneDB_Lmajor |
GeneDB Leishmania major. |
Gene identifier. |
| GeneDB_Pfalciparum |
GeneDB Plasmodium falciparum. |
Gene identifier. |
| GeneDB_Spombe |
GeneDB Schizosaccharomyces pombe. |
Gene identifier. |
| GeneDB_Tbrucei |
GeneDB Trypanosoma brucei. |
Gene identifier. |
| GeneTests |
GeneTests, a publicly funded medical genetics information resource. |
HGNC gene symbol. |
| GermOnline |
Gateway for gametogenesis. Gene expression database. |
The identifier, which is the Ensembl identifier. |
| GO |
The Gene Ontology official browser. |
GO identifier including the 'GO:' prefix. |
| GO/wr |
The GO/wr web resource site. |
GO accession code, with or without the 'GO:' prefix. |
| GoPubmed |
Knowledge-based text search engine. |
The HGNC gene symbol. |
| GR |
Gramene: A Comparative Mapping Resource for Grains. |
Identifier of the object. |
| GR_GENE |
Gramene: A Comparative Mapping Resource for Grains. |
Gene identifier. |
| GR_PROTEIN |
Gramene: A Comparative Mapping Resource for Grains. |
Protein identifier. |
| GR_QTL |
Gramene: A Comparative Mapping Resource for Grains. |
QTL identifier. |
| GR_REF |
Gramene: A Comparative Mapping Resource for Grains. |
Reference identifier. |
| Gramene |
Gramene: A Comparative Mapping Resource for Grains. |
Identifier of the object. |
| HAMAP |
High-quality Automated and Manual Annotation of microbial Proteomes. |
Identifier. |
| HCDM |
Human Cell Differentiation Molecules. |
CD identifier. |
| HCOP |
The HGNC Comparison of Orthology Predictions database. |
HGNC gene symbol. |
| HGNC |
HUGO Gene Nomenclature Committee. |
Gene identifier number excluding the 'HGNC:' prefix.. |
| HGNC/wr |
The HGNC/wr web resource site. |
HGNC gene symbol, or the HGNC identifier, with or without the 'HGNC:' prefix. |
| HGNC_symbol |
HUGO Gene Nomenclature Committee. |
HGNC gene symbol. |
| HORDE |
The Human Olfactory Receptor Database Exploratorium. |
HGNC gene symbol or identifier. |
| HPA |
Human Protein Atlas (HPA). |
The HPA identifier. |
| IMG |
Integrated Microbial Genomes; JGI web site for genome annotation. |
Gene identifier without the 'IMG:' prefix, |
| IMGT_GENE_DB |
IMGT, the international ImMunoGeneTics information system. |
HGNC gene symbol. |
| IntAct |
IntAct protein interaction database. |
Accession number excluding the 'EBI-' prefix. |
| InterFil |
The Human Intermediate Filament Database |
HGNC id including the prefix 'HGNC:'. |
| InterPro |
The InterPro database of protein domains and motifs. |
Identifier including (!) the 'IPR' prefix. |
| ISBNdb |
ISBNdb book search service. |
ISBN number. |
| IUPHAR |
The IUPHAR Receptor Database, nominally all receptors, in practice only for GPCRs. |
IUPHAR GPCR receptor id number. |
| KEGG |
Kyoto Encyclopedia of Genes and Genomes (KEGG). |
The identifier including the 'hsa:' (or similar) prefix. |
| KeggGene |
Kyoto Encyclopedia of Genes and Genomes, gene lookup service. |
The KEGG identifier in the form 'hsa:3265' (note the colon). |
| KeggLigand |
Kyoto Encyclopedia of Genes and Genomes, pathway database. |
The KEGG identifier in the form 'C00577'. |
| KeggPathway |
Kyoto Encyclopedia of Genes and Genomes, pathway database. |
The KEGG identifier in the form 'hsa04010' (no colon, apparently). |
| KZFN |
LLNL Human KZNF Gene Catalog. |
Accession number without any prefix. |
| LinkBaton |
ISBN book directory service. |
ISBN number; 10 digits without other characters. |
| MEROPS |
MEROPS peptidase database. |
The peptidase family identifier. |
| MeSH |
Medical Subject Headings (MesH), currently set to the 2006 version. |
Term. |
| MeSH2005 |
Medical Subject Headings (MesH), the 2005 version. |
Term. |
| MetaCyc |
The Metabolic Encyclopedia of metabolic and other pathways. |
Identifier for pathway or reaction. |
| MGI |
Mouse Genome Database Informatics. |
Gene identifier including the 'MGI:' prefix. |
| MIM |
Online Mendelian Inheritance in Man, genetic disorders. |
OMIM identifier number. |
| MIPS_funcat |
The MIPS functional catalogue. |
Identifier. |
| miRNA |
miRBase: microRNA database. |
Identifier including the 'MI' prefix. |
| NASDAQ |
NASDAQ stock exchange. |
the NASDAQ ticker symbol for the company. |
| NCBI_Gene |
NCBI Entrez Gene (LocusLink) database. |
The GeneID number. |
| NCBI_gi |
NCBI GenBank database, nucleotides. |
the GI number without any prefix. |
| NCBI_GP |
NCBI GenPept database. |
Protein identifier. |
| NCBI_Taxonomy |
NCBI Taxonomy database. |
Species/taxon identifier number. |
| OMIM |
Online Mendelian Inheritance in Man, genetic disorders. |
OMIM identifier number. |
| Orphanet |
ORPHANET is a database dedicated to information on rare diseases and orphan drugs. |
The entry number. |
| PDB |
Protein Data Bank (PDB) at Research Collaboratory for Structural Bioinformatics (RSCB). Biomolecular 3D structure data determined by X-ray crystallography and NMR. |
PDB identifier. |
| Pfam |
Pfam protein families database of domain alignments and HMMs. |
Accession number including the 'PF' prefix. |
| PharmGKB |
The Pharmacogenetics and Pharmacogenomics Knowledge Base. |
Identifier including the 'PA' prefix. |
| PIR |
Protein Information Resource (PIR) at Georgetown University, USA. |
The entry name or the accession code. |
| PIRSF |
PIR Superfamily Classification System. |
Identifier excluding the 'PIRSF:' prefix. |
| PMID |
PubMed life sciences literature. |
The PMID (PubMed identifier) number. |
| PRINTS |
PRINTS compendium of protein fingerprints. |
Accession code including the 'PR' prefix. |
| ProDom |
ProDom is a comprehensive set of protein domain families automatically generated from the SWISS-PROT and TrEMBL sequence databases. |
Accesion code including the 'PD' or 'CG' prefixes. |
| Prosite |
Prosite database of protein families and domains. |
Accession number including the 'PS' prefix. |
| PseudoCAP |
Pseudomonas aeruginosa Genome Project. |
Gene identifier. |
| PSI_MOD |
Proteomics Standards Initiative protein modification ontology. |
Identifier excluding the 'MOD:' prefix. |
| PubChem |
PubMed chemical compound. |
The compound identifier number (CID) without any prefix. |
| PubMed |
PubMed life sciences literature. |
The PMID (PubMed identifier) number. |
| PubMedBook |
PubMed life sciences literature on-line textbook service. |
Reference identifier (rid). |
| PubMedSearch |
PubMed life sciences literature search service. |
Term to search for. |
| QuickGO |
Gene Ontology browser at EBI. |
GO accession code including the 'GO:' prefix. |
| Reactome |
Reactome molecular events and pathways database. |
The numerical identifier of the Reactome entry. |
| RefSeq |
NCBI RefSeq sequence database. |
Identifier including the 'XX_' prefix. |
| RefSeq_NA |
NCBI RefSeq nucleotide sequence database. |
Identifier including the 'XX_' prefix. |
| RefSeq_NP |
NCBI RefSeq protein sequence database. |
Identifier including the 'XX_' prefix. |
| RefSeq_Prot |
NCBI RefSeq protein sequence database. |
Identifier including the 'YP_' prefix. |
| RefSeqNucleotide |
NCBI RefSeq nucleotide sequence database. |
Identifier including the 'XX_' prefix. |
| RefSeqProtein |
NCBI RefSeq protein sequence database. |
Identifier including the 'YP_' prefix. |
| Rfam |
The RNA families database of alignments and CMs. |
Accession code including the 'RF' prefix. |
| RGD |
Rat Genome Database. |
Identifier without the 'RGD:' prefix. |
| RNAmods |
The RNA Modification Database. |
Identifier without the 'RNAmods:' prefix. |
| SGD |
Saccharomyces Genome Database. |
Identifier for the SGD Locus including the 'S' prefix. |
| SGD_gene |
Saccharomyces Genome Database. |
Gene name (symbol). |
| SGD_ref |
Saccharomyces Genome Database. |
Literature reference identifier. |
| SignalingGateway |
Signaling Gateway molecular signal transduction database. |
The identifier with the alphabetical prefix. |
| SMART |
Simple Modular Architecture Research Tool. |
Accession code including the 'SM' prefix. |
| SMR |
Swiss-Model Repository (SMR). A database of annotated three-dimensional comparative protein structure models generated by the fully automated homology-modelling pipeline SWISS-MODEL. |
The UniProt accession code. |
| snoRNABase |
snoRNABase, a comprehensive database of human H/ACA and C/D box snoRNAs. |
Accession code including the 'SR' prefix. |
| SP_KW |
UniProt Knowledgebase keywords. |
Keyword accession code including the 'KW-' prefix. |
| TAIR |
The Arabidopsis Information Resource. |
Accession number including the prefix specifying the type of object (e.g. 'gene:', 'communication:', etc). |
| TC |
The Transport Protein Database. |
TC identifier excluding the 'TC:' prefix. |
| TIGR |
The Institute for Genomic Research, TIGR Gene Index. |
TC accession. |
| TIGR_CMR |
The Institute for Genomic Research, Comprehensive Microbial Resource. |
Locus identifier. |
| TIGR_TIGRFAMS |
TIGR protein families based on Hidden Markov Models |
Accession code including the 'TIGR' prefix. |
| Treefam |
Tree families, a database of phylogenetic trees of animal genes. |
HGNC gene identifier excluding the 'HGNC:' prefix. |
| UCSCBrowser |
UCSC Genome Browser. |
EMBL sequence accession code. |
| UCSCIndex |
UCSC Genome Index. |
EMBL sequence accession code. |
| UniGene |
UniGene: Organized view of the transcriptome. |
The gene identifier (?) including the 'Hs.' prefix. XXX The template URL links to a search result page, which is suboptimal. |
| UniParc |
UniProt Archive; a non-redundant archive of protein sequences extracted from Swiss-Prot, TrEMBL, PIR-PSD, EMBL, Ensembl, IPI, PDB, RefSeq, FlyBase, WormBase, European Patent Office, United States Patent and Trademark Office, and Japanese Patent Office. |
Accession number including the 'UPI' prefix. |
| UniProt |
UniProt at EBI. Protein sequence and annotation database. |
The accession code or the entry name. |
| UniProtKB |
UniProt at EBI. Protein sequence and annotation database. |
The accession code or the entry name. |
| Vega |
The Vertebrate Genome Annotation (VEGA) database, the human part. A central repository for high quality, frequently updated, manual annotation of vertebrate finished genome sequence. |
HGNC gene symbol. |
| WB |
Caenorhabditis elegans (nematode) genetics database. |
Gene identifier including the 'WBGene' prefix, or the gene symbol. |
| WB_GENE |
Caenorhabditis elegans (nematode) genetics database. |
Gene identifier including the 'WBGene' prefix, or the gene symbol. |
| WB_REF |
Caenorhabditis elegans (nematode) genetics database. |
Gene literature reference identifier including the 'WBPaper' prefix, |
| Wikipedia |
The English Wikipedia resource. |
Subject. |
| WormBase |
Caenorhabditis elegans (nematode) genetics database. |
Gene identifier including the 'WBGene' prefix, or the gene symbol. |
| WormPep |
WormPep, database of proteins of C. elegans. |
The peptide identifier including the 'WP:' prefix. |
| WP |
WormPep, database of proteins of C. elegans. |
The peptide identifier including the 'WP:' prefix. |
| ZFIN |
The Zebrafish Information Network. |
Accession ID *including* the 'ZDB-whatever-' prefix. |