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


Smedley et al. BMC Genomics 2009 10:22   doi:10.1186/1471-2164-10-22

Open Data