Directory of Databases Resources

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

Databases on the expression of genes in mRNA and proteins.

Subcategories

• Online Genomics
• Proteomics

Resources in This Category

• 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.

• BATEx

  http://pgrc.ipk-gatersleben.de/batex/
  Data base for gene expression data from plants.

• European Nucleotide Archive (ENA)

  http://www.ebi.ac.uk/ena/
  Provides a comprehensive record of the world's nucleotide sequencing information. Contains databases of next generation sequencing reads, including RNA-seq data, submitted to the Sequence Read Archive (SRA). It also contains databases of sequence assemblies and annotations.

• 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.

• Gene Expression in Tooth

  http://bite-it.helsinki.fi/
  Database on the expression of different genes in the developing tooth.

• 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.

• GeneExpress

  http://wwwmgs.bionet.nsc.ru/mgs/systems/geneexpress/
  Designed for analysis of genomic regulatory sequences of higher eukaryotes. Includes several databases and programs for visualization of the information contained. From the Laboratory of Theoretical Genetics of the Institute of Cytology and Genetics of Siberian Branch of Russian Academy of Science in Novosibirsk (Russia).

• 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

• Genevestigator

  https://www.genevestigator.com/
  Multi-organism microarray database and expression meta-analysis tool.

• Genomics Portals

  http://www.eh3.uc.edu/GenomicsPortals/
  Integrative platform for analyzing a large collection of genome-scale datasets (more than 400 million data points).

• 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.

• Kyoto Encyclopedia of Genes and Genomes (KEGG)

  http://www.genome.jp/kegg/
  Graphical and hypertext-based information from Kanehisa Laboratories in the Bioinformatics Center of Kyoto University, Japan.

• Mirage

  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.

• Oncomine

  http://www.oncomine.org/
  Compendium of cancer transcriptome profiles with analysis engine.

• Polbase

  http://polbase.neb.com/
  Repository of biochemical, genetic, and structural information about DNA polymerases.

• Ribosomal Database Project

  http://rdp.cme.msu.edu/
  From Center for Microbial Ecology, Michigan State University, USA

• 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.

• 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.

• StemBase

  http://www.stembase.ca/
  A database containing gene expression data from human and mouse stem cells and their derivatives.

• 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.

• WormBase

  http://www.wormbase.org/
  Data bases on the genetics of C elegans and related nematodes.

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