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Science > Biology > Biochemistry and Molecular Biology > Gene Expression > Databases

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Genomics (19) Proteomics (9)

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	Gene Expression Omnibus - http://www.ncbi.nlm.nih.gov/geo/ Database of gene expression data from NCBI (National Center for Biotechnical Information). Includes a definable search by different characteristics.
	Kyoto Encyclopedia of Genes and Genomes (KEGG) - http://www.genome.ad.jp/kegg/ Graphical and hypertext-based information on biochemical pathways, including metabolic and regulatory pathways cell cycle and growth factor signaling. From Kanehisa Laboratories in the Bioinformatics Center of Kyoto University, Japan.
	WormBase - http://www.wormbase.org/ Data bases on the genetics of C elegans and related nematodes.
	Stanford Microarray Database - http://genome-www5.stanford.edu/ Data from microarray experiments, and the corresponding image files. From Stanford University, USA.
	Allen Brain Atlas - http://www.brain-map.org Database of gene expression patterns in the mouse brain.

	ArrayExpress - http://www.ebi.ac.uk/arrayexpress Database of gene expression and other microarray data at the European Bioinformatics Institute (EBI), located at the Wellcome Trust Foundation in Cambridge, UK.
	Ribosomal Database Project - http://rdp.cme.msu.edu/ From Center for Microbial Ecology, Michigan State University, USA
	Novartis Gene Expression Atlas - http://biogps.gnf.org Database on gene expression in men and mice.
	SymAtlas - http://symatlas.gnf.org Database on gene function and structure, from the Genomics Institute of the Novartis Research Foundation.
	Oncomine - http://www.oncomine.org Compendium of cancer transcriptome profiles with analysis engine.

	Gene Expression in Tooth - http://bite-it.helsinki.fi/ Database on the expression of different genes in the developing tooth.
	The Database of Rice Transcription Factors (DRTF) - http://drtf.cbi.pku.edu.cn Free of charge database of transcription factors of rice. From CBI, Peking University, China.
	http://www.ifti.org/ - http://www.ifti.org/ Information methodologies, tools, and technologies relating to the study of gene expression and signal transduction. From the Institute for Transcriptional Informatics (IFTI), USA.
	GenePaint - http://www.genepaint.org Database of gene expression patterns in the mouse embryo. From Max-Planck-Institute for Biophysical Chemistry, Dept. Genes and Behavior, Göttingen, Germany
	Exploring the Metabolic and Generic Control of Gene Expression - http://cmgm.stanford.edu/pbrown/explore/ Database with the data for the experiments in the paper - DeRisi et. al. Science 278: 680-686. Includes text files that can be downloaded. The original paper requires a subscription fee.

	Rice Transcription Factor Database - http://ricetfdb.bio.uni-potsdam.de/ RiceTFDB is a public database of rice genes involved in transcriptional control. From the University of Potsdam, Berlin, Germany.
	StemBase - http://www.stembase.ca StemBase is a database containing gene expression data from human and mouse stem cells and their derivatives.
	IRES Database - http://ifr31w3.toulouse.inserm.fr/iresdatabase Database on gene expression with information on Internal Ribosome Entry Sites IRES. From INSERM, the French Institute of Health.
	Genevestigator - http://www.genevestigator.ethz.ch Multi-organism microarray database and expression meta-analysis tool.
	IRESite: The Database of Experimentally Verified IRES Structures - http://www.iresite.org This database contains information about the experimentally studied IRES (Internal Ribosome Entry Site) segments.

	http://merna.lbl.gov/ - http://merna.lbl.gov/ A data base of metal binding sites of RNA, from the Holbrooke Laboratory, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
	Genomics Portals - http://www.GenomicsPortals.org Integrative platform for analyzing a large collection of genome-scale datasets (more than 400 million data points).
	Gene Expression Machine Learning Repository - http://gemler.fzv.uni-mb.si A collection of gene expression datasets that can be used for benchmarking gene expression oriented machine learning algorithms.
	http://pgrc.ipk-gatersleben.de/batex/ - http://pgrc.ipk-gatersleben.de/batex/ Data base for gene expression data from plants.
	RNase P Database - http://www.mbio.ncsu.edu/RNaseP/ A compilation of RNase P sequences, sequence alignments, secondary structures, three-dimensional structures, and accessory information.

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