Table 1 Description of all publicly accessible BioMarts to date
Name of BioMart | Description of contents | Location of BioMart |
|---|---|---|
Ensembl Genes | Automated annotation of over 40 eukaryotic genomes | EMBL-EBI, UK |
Ensembl Homology | Ensembl Compara orthologues and paralogues | EMBL-EBI, UK |
Ensembl Variation | Ensembl Variation data from dbSNP and other sources | EMBL-EBI, UK |
Ensembl Genomic Features | Ensembl Markers, clones and contigs data | EMBL-EBI, UK |
Vega | Manually curated human, mouse and zebrafish genes | EMBL-EBI, UK |
HTGT | High throughput gene targeting/trapping to produce mouse knock-outs | Sanger, UK |
Gramene | Comparative Grass Genomics | CSHL, USA |
Reactome | Curated database of biological pathways | CSHL, USA |
Wormbase | C. elegans and C. briggsae genome database | CSHL, USA |
Dictybase | Dictyostelium discoideum genome database | Northwestern University, USA |
RGD | Rat model organism database | Medical College of Wisconsin, USA |
PRIDE | Proteomic data repository | EMBL-EBI, UK |
EURATMart | Rat tissue expression compendium | EMBL-EBI, UK |
MSD | Protein structures | EMBL-EBI, UK |
Uniprot | Protein sequence and function repository | EMBL-EBI, UK |
Pancreatic Expression Database | Pancreatic cancer expression database | Barts & The London School of Medicine, UK |
PepSeeker | Peptide mass spectrometer data for proteomics | University of Manchester, UK |
ArrayExpress | Microarray data repository | EMBL-EBI, UK |
GermOnLine | Cross species knowledgebase of genes relevant for sexual reproduction | Biozentrum/SIB, Switzerland |
DroSpeGe | Annotation of 12 Drosophila genomes | Indiana Univeristy, USA |
HapMap | Catalogue of common human variations in a range of populations | CSHL, USA |
VectorBase | Invertebrate vectors of human pathogens | University of Notre Dame, USA |
Paramecium DB | Paramecium tetraurelia model organism database | CNRS, France |
Eurexpress | Mouse in situ expression data | MRC Edinburgh, UK |
Europhenome | Mouse phenotype data from high throughput standardized screens | MRC Harwell, UK |