About EBI Search
The EBI Search engine, also known as EB-eye, is a scalable text search engine that provides easy and uniform access to the biological data resources hosted at the EMBL-EBI.
The data resources represented in the EBI Search engine include: nucleotide and protein sequences at both the genomic and proteomic levels, structures ranging from chemicals to macro-molecular complexes, gene-expression experiments, binary level molecular interactions as well as reaction maps and pathway models, functional classifications, biological ontologies, and comprehensive literature libraries covering the biomedical sciences and related intellectual property.
The EBI Search presents search results that are up-to-date with the data resources and provides an easy inter-domain navigation via a network of cross-references.
It can be accessed over the web or programmatically using a SOAP Web Services interface. This allows its search and retrieval capabilities to be exploited in workflows and analytical pipe-lines. For more information you can have a look at the EBI Search help & documentation section.
Statistics
| Domain Name | Domain Identifier | Category | Number of entries | Indexed on | Updated on | Released on |
|---|---|---|---|---|---|---|
| Analysis | sra-analysis | Nucleotide sequences | 74 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| ArrayExpress | arrayexpress-repository | Gene expression | 42,729 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| Assembly | genome_assembly | Nucleotide sequences | 15,813 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| Assembly contig (Release) | emblrelease_wgs | Nucleotide sequences | 131,247,705 | 12-Sep-2013 | 01-Jan-1970 | |
| Assembly contig (Update) | emblnew_wgs | Nucleotide sequences | 6,590,740 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| Assembly contig set | wgs_masters | Nucleotide sequences | 13,781 | 30-Sep-2013 | 29-Sep-2013 | 29-Sep-2013 |
| Assembly scaffold (Release) | emblrelease_con | Nucleotide sequences | 10,125,105 | 11-Sep-2013 | 31-Aug-2013 | |
| Assembly scaffold (Update) | emblnew_con | Nucleotide sequences | 662,970 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| BioModels | biomodels | Reactions, pathways & diseases | 143,032 | 01-Aug-2013 | 02-Jul-2013 | 18-Jun-2013 |
| ChEBI | chebi | Small molecules | 38,469 | 30-Aug-2013 | 29-Aug-2013 | |
| ChEMBL Activity | chembl-activity | Small molecules | 5,479,146 | 01-Aug-2013 | 24-Oct-2011 | 01-Aug-2011 |
| ChEMBL Assay | chembl-assay | Small molecules | 582,982 | 01-Aug-2013 | 24-Oct-2011 | 01-Aug-2011 |
| ChEMBL compound | chembl-compound | Small molecules | 1,060,258 | 01-Aug-2013 | 24-Oct-2011 | 01-Aug-2011 |
| ChEMBL target | chembl-target | Small molecules | 8,603 | 01-Aug-2013 | 24-Oct-2011 | 01-Aug-2011 |
| Coding | emblcds | Nucleotide sequences | 86,726,402 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| DGVa | dgva | Genomes | 13,987,901 | 28-Sep-2013 | 27-Sep-2013 | |
| EFO | efo | Ontologies | 4,216 | 24-Sep-2013 | ||
| EGA | ega | Genomes | 691 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| EMDB | emdb | Macromolecular structures | 2,090 | 25-Sep-2013 | 25-Sep-2013 | 25-Sep-2013 |
| Ensembl Gene | ensembl_gene | Genomes | 1,556,803 | 04-Sep-2013 | 03-Sep-2013 | 02-Sep-2013 |
| Ensembl Genomes Gene | ensemblGenomes_gene | Genomes | 35,216,991 | 19-Sep-2013 | 18-Sep-2013 | 17-Sep-2013 |
| EPO | epo | Protein sequences | 2,819,289 | 09-Sep-2013 | 08-Sep-2013 | |
| Expression Atlas Experiments | atlas-experiments | Gene expression | 2,841 | 01-Oct-2013 | 30-Sep-2013 | 22-Jul-2013 |
| Expression Atlas Genes | atlas-genes | Gene expression | 886,439 | 01-Oct-2013 | 30-Sep-2013 | 22-Jul-2013 |
| GO | go | Ontologies | 39,923 | 01-Oct-2013 | 30-Sep-2013 | |
| GPCRDB | gpcrdb | Protein families | 32,803 | 26-Sep-2013 | 23-Sep-0013 | |
| HGNC | hgnc | Genomes | 41,533 | 01-Oct-2013 | ||
| IntAct Experiments | intact-experiments | Molecular interactions | 30,975 | 01-Oct-2013 | 27-Sep-2013 | 27-Sep-2013 |
| IntAct Interactions | intact-interactions | Molecular interactions | 279,827 | 01-Oct-2013 | 27-Sep-2013 | 27-Sep-2013 |
| IntAct Interactors | intact-interactors | Molecular interactions | 76,485 | 01-Oct-2013 | 27-Sep-2013 | 27-Sep-2013 |
| IntEnz | intenz | Enzymes | 6,620 | 06-Sep-2013 | 05-Sep-2013 | 04-Sep-2013 |
| InterPro | interpro | Protein families | 25,090 | 19-Sep-2013 | 19-Sep-2013 | 19-Sep-0013 |
| JPO | jpo | Protein sequences | 1,674,104 | 19-Sep-2013 | 18-Sep-2013 | |
| KIPO | kipo | Protein sequences | 113,599 | 19-Sep-2013 | 18-Sep-2013 | |
| Ligands | pdbechem | Small molecules | 16,860 | 25-Sep-2013 | 25-Sep-2013 | 23-Sep-2013 |
| LRG | lrg | Genomes | 705 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| MEDLINE | medline | Literature | 23,122,025 | 29-Sep-2013 | 28-Sep-2013 | |
| MEROPS Peptidase Clans | merops_clan | Protein families | 88 | 01-Aug-2013 | 27-Feb-2012 | 04-Jul-2011 |
| MEROPS Peptidase Families | merops_family | Protein families | 303 | 01-Aug-2013 | 27-Feb-2012 | 04-Jul-2011 |
| MEROPS Peptidases | merops_id | Protein families | 5,457 | 01-Aug-2013 | 27-Feb-2012 | 04-Jul-2011 |
| MetaboLights | metabolights | Reactions, pathways & diseases | 6,294 | 01-Aug-2013 | 27-Jun-2013 | 27-Jun-2013 |
| NRNL1 | nrnl1 | Nucleotide sequences | 12,349,772 | 01-Aug-2013 | 01-Feb-2013 | |
| NRNL2 | nrnl2 | Nucleotide sequences | 15,009,374 | 01-Aug-2013 | 01-Feb-2013 | |
| NRPL1 | nrpl1 | Protein sequences | 2,630,721 | 01-Aug-2013 | 01-Feb-2013 | |
| NRPL2 | nrpl2 | Protein sequences | 3,771,578 | 01-Aug-2013 | 01-Feb-2013 | |
| OMIM | omim | Reactions, pathways & diseases | 23,141 | 01-Oct-2013 | ||
| Patent Families | patentFamilies | Literature | 119,710 | 01-Aug-2013 | 01-Feb-2013 | |
| Patents | patentdb | Literature | 4,239,074 | 19-Aug-2013 | 24-Nov-2012 | |
| PDBe | pdbe | Macromolecular structures | 94,143 | 25-Sep-2013 | 25-Sep-2013 | 09-Mar-0017 |
| People | ebiweb_people | EBI web | 578 | 01-Oct-2013 | 01-Oct-2013 | |
| PomBase | pombase | Genomes | 7,017 | 13-Sep-2013 | 12-Sep-2013 | |
| PRIDE | pride | Protein sequences | 452,696 | 25-Sep-2013 | 24-Sep-2013 | 06-Mar-0030 |
| Reactome | reactome | Reactions, pathways & diseases | 83,765 | 24-Sep-2013 | 19-Sep-2013 | |
| Read (Experiment) | sra-experiment | Nucleotide sequences | 377,936 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| Read (Run) | sra-run | Nucleotide sequences | 510,402 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| RESID | resid | Small molecules | 611 | 19-Sep-2013 | 17-Sep-2013 | |
| Resources | ebiweb_resources | EBI web | 149 | 01-Oct-2013 | 01-Oct-2013 | |
| Rhea | rhea | Reactions, pathways & diseases | 23,380 | 06-Sep-2013 | 05-Sep-2013 | 04-Sep-2013 |
| Sample | sra-sample | Nucleotide sequences | 398,319 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| SBO | sbo | Ontologies | 604 | 01-Oct-2013 | 01-Oct-2013 | |
| Sequence (Release) | emblrelease_standard | Nucleotide sequences | 167,424,681 | 11-Sep-2013 | 03-Sep-2013 | |
| Sequence (Update) | emblnew_standard | Nucleotide sequences | 759,720 | 27-Sep-2013 | 26-Sep-2013 | 26-Sep-2013 |
| Site | ebiweb_corporate | EBI web | 8,809 | 30-Sep-2013 | 30-Sep-2013 | |
| Study | project | Nucleotide sequences | 54,055 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| Study (Read/Analysis) | sra-study | Nucleotide sequences | 25,246 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| Submission (Read/Analysis) | sra-submission | Nucleotide sequences | 160,387 | 01-Oct-2013 | 01-Oct-2013 | 01-Oct-2013 |
| Taxonomy | taxonomy | Ontologies | 1,078,029 | 01-Oct-2013 | 30-Sep-2013 | |
| Transcriptome assembly contig (Release) | emblrelease_tsa | Nucleotide sequences | 15,403,753 | 11-Sep-2013 | 05-Sep-2013 | 05-Sep-2013 |
| Transcriptome assembly contig (Update) | emblnew_tsa | Nucleotide sequences | 705,191 | 01-Oct-2013 | 30-Sep-2013 | 30-Sep-2013 |
| Transcriptome assembly contig set | tsa_masters | Nucleotide sequences | 253 | 30-Sep-2013 | 29-Sep-2013 | 29-Sep-2013 |
| TreeFam | treefam | Protein families | 15,736 | 12-Sep-2013 | 11-Sep-2013 | 10-May-2013 |
| UniParc | uniparc | Protein sequences | 48,705,074 | 17-Sep-2013 | 16-Sep-2013 | 18-Sep-2013 |
| UniProtKB | uniprot | Protein sequences | 43,362,837 | 17-Sep-2013 | 16-Sep-2013 | 18-Sep-2013 |
| UniRef100 | uniref100 | Protein sequences | 26,599,709 | 17-Sep-2013 | 16-Sep-2013 | 18-Sep-2013 |
| UniRef50 | uniref50 | Protein sequences | 8,082,957 | 17-Sep-2013 | 16-Sep-2013 | 18-Sep-2013 |
| UniRef90 | uniref90 | Protein sequences | 16,269,649 | 17-Sep-2013 | 16-Sep-2013 | 18-Sep-2013 |
| USPTO | uspto | Protein sequences | 2,550,327 | 01-Aug-2013 | 07-Jan-2013 | |
| Total | 693,987,144 |
EBISearch ver: 15.2
