SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data.
The explosion in the number of functional genomic datasets generated with tools such as DNA microarrays has created a critical need for resources that facilitate the interpretation of large-scale biological data. SOURCE is a web-based database that brings together information from a broad range of resources, and provides it in manner particularly useful for genome-scale analyses. SOURCE's GeneReports include aliases, chromosomal location, functional descriptions, GeneOntology annotations, gene expression data, and links to external databases. We curate published microarray gene expression datasets and allow users to rapidly identify sets of co-regulated genes across a variety of tissues and a large number of conditions using a simple and intuitive interface. SOURCE provides content both in gene and cDNA clone-centric pages, and thus simplifies analysis of datasets generated using cDNA microarrays. SOURCE is continuously updated and contains the most recent and accurate information available for human, mouse, and rat genes. By allowing dynamic linking to individual gene or clone reports, SOURCE facilitates browsing of large genomic datasets. Finally, SOURCEs batch interface allows rapid extraction of data for thousands of genes or clones at once and thus facilitates statistical analyses such as assessing the enrichment of functional attributes within clusters of genes. SOURCE is available at http://source.stanford.edu.
Diehn
Maximilian
M
Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA. diehn@genome.stanford.edu
Sherlock
Gavin
G
Binkley
Gail
G
Jin
Heng
H
Matese
John C
JC
Hernandez-Boussard
Tina
T
Rees
Christian A
CA
Cherry
J Michael
JM
Botstein
David
D
Brown
Patrick O
PO
Alizadeh
Ash A
AA
D000818:Animals; D000951:Antigens, Neoplasm; D002874:Chromosome Mapping; D004250:DNA Topoisomerases, Type II / Q000096:biosynthesis / Q000235:genetics; D004268:DNA-Binding Proteins; D030541:Databases, Genetic; D020869:Gene Expression Profiling; D023281:Genomics; D006801:Humans; D016247:Information Storage and Retrieval; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D011506:Proteins / Q000235:genetics* / Q000378:metabolism / Q000502:physiology*; D051381:Rats
D000951:Antigens, Neoplasm; D004268:DNA-Binding Proteins; D011506:Proteins; D004250:DNA Topoisomerases, Type II