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Gene Expression Omnibus
The Gene Expression Omnibus (GEO) is a public repository that archives and freely distributes microarray, next-generation sequencing, and other forms of high-throughput functional genomic data submitted by the scientific community. In addition to dat
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modMine
modMine is an integrated web resource of data and tools to browse and search modENCODE data and experimental details, download results and access the GBrowse genome browser.
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Expression Atlas
The Expression Atlas is a free resource providing information on gene expression patterns under different biological conditions in a variety of species. Gene expression data is re-analysed in-house to detect genes showing interesting baseline and dif
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GenomeRNAi
The GenomeRNAi database collects RNAi phenotypes recorded in the literature for Homo sapiens and Drosophila melanogaster, as well as details on RNAi reagents. The data is well integrated with information from other resources, allowing comparison with
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BioStudies
The BioStudies database holds descriptions of biological studies, links to data from these studies in other databases at EMBL-EBI or outside, as well as data that do not fit in the structured archives at EMBL-EBI. The database can accept a wide range
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Chemical Effects in Biological Systems (CEBS)
CEBS (Chemical Effects in Biological Systems) is an integrated public repository for toxicogenomics data, including the study design and timeline, clinical chemistry and histopathology findings and microarray and proteomics data. CEBS contains data d
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e-Mouse Atlas of Gene Expression
EMAGE is a database of in situ gene expression data in the mouse embryo. mRNA in situ hybridisation, protein immunohistochemistry, in situ transgenic reporter data, and in situ enhancer data is included. These are sourced from the community and curat
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BloodSpot
BloodSpot is a database of mRNA expression in healthy and malignant haematopoiesis and includes data from both humans and mice. The core function of BloodSpot is to provide an expression plot of genes in healthy and cancerous haematopoietic cells at
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GeneWeaver
The GeneWeaver data and analytics website is a publically available resource for storing, curating and analyzing sets of genes from heterogeneous data sources. The system enables discovery of relationships among genes, variants, traits, drugs, enviro
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Allen Brain Atlas
Gene expression and neuroanatomical data.
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SOURCE
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 b
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CleanEx
CleanEx is a database which provides access to public gene expression data via unique approved gene symbols and which represents heterogeneous expression data produced by different technologies in a way that facilitates joint analysis and cross-datas
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GeneSigDB
Gene Signature DataBase
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SAGEmap
SAGEmap provides a tool for performing statistical tests designed specifically for differential-type analyses of SAGE (Serial Analysis of Gene Expression) data. The data include SAGE libraries generated by individual labs as well as those generated b
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CODEX
ChIP-Seq, RNA-Seq and DNase-Seq data for haematopoietic and embryonic stem cells
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Gene Expression Barcode
Gene expression data sorted into two groups: expressed and not expressed genes
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GermOnline
GermOnline is a cross-species database gateway focusing on high-throughput expression data relevant for germline development, the meiotic cell cycle and mitosis in healthy versus malignant cells. The portal provides access to the Saccharomyces Genomi
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Integrated Tumor Transcriptome Array and Clinical data Analysis database
ITTACA is a database created for Integrated Tumor Transcriptome Array and Clinical data Analysis. ITTACA centralizes public datasets containing both gene expression and clinical data and currently focuses on the types of cancer that are of particular
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BarleyBase
BarleyBase is a public data resource of Affymetrix GeneChip data for plants.
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CycleBase
Gene expression profiles from cell-cycle microarray studies
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4DXpress
Database for cross species expression pattern comparisons
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PLANdbAffy
Probe-Level Annotation Database for Affymetrix microarrays
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ViBrism DB
ViBrism DB is a database for anatomical gene expression maps and topological co-expression network graphs created with original techniques of microtomy-based gene expression measurements, Transcriptome Tomography. The DB is equipped with a WebGL-base
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SEQanswers
Wiki on all aspects of next-generation genomics
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MitoGenesisDB
Expression data to explore spatio-temporal dynamics of mitochondrial biogenesis
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GEISHA
GEISHA (Gallus Expression In Situ Hybridization Analysis) is a centralized and comprehensive repository of precise spatial and temporal information on chicken embryonic gene expression created through in situ hybridization. Annotations include probe
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STEMFORMATICS
Stemformatics is an established gene expression data portal containing over 420 public gene expression datasets derived from microarray, RNA sequencing and single cell profiling technologies. Developed for the stem cell community, it has a major focu
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GENSAT
The GENSAT (Gene Expression Nervous System ATlas) database captures information on gene expression in mouse brain at several developmental ages. The project began at Rockefeller University in New York under the direction of Nat Heintz, and has since
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OncoMine
Cancer microarray data by gene or cancer type
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GenePaint
Gene expression patterns in the mouse
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dbERGEII
Database of experimental results on gene expression
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CircaDB
A database of circadian expression profiles
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WeGET
Weighted gene co-expression tool
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BloodExpress
Database of Gene Expression in Mouse Haematopoiesis
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M3D
Many Microbe Microarrays Database
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GermSAGE
SAGE data on gene expression in male germ cell development
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Sebida
Sex bias in insect gene expression database
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Coexpedia
Gene co-expression data mapped to medical subject headings (MeSH).
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GeneFriends
RNAseq based human gene and transcript co-expression map
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SpermatogenesisOnline
Spermatogenesis-related genes
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METscout
Spatial organization of metabolic reactions in the mouse
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GeneTrap
Expression patterns in an embryonic stem library of gene trap insertions
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NASCarrays (obsolete)
Nottingham Arabidopsis Stock Centre microarray database
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SBR-Blood
Expression and epigenetic data for mouse hematopoietic cell types
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HemBase
Genes transcribed in differentiating human erythroid cells
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CATMA - Complete Arabidopsis Transcriptome MicroArray
Arabidopsis gene sequence tags
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NetAffx
Public Affymetrix probesets and annotations
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Stanford Tissue Microarray Database
Stanford Tissue Microarray Database
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yMGV - Yeast microarray global viewer
Yeast expression data
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International Gene Trap Consortium Database
International mouse Gene Trap Consortium data
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MAMEP - Molecular Anatomy of the Mouse Embryo Project
Gene expression data on mouse embryos
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HPMR - Human Plasma Membrane Receptome
Plasma membrane protein sequences, literature, and expression database
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rOGED
The rOGED provides immediate analysis of spatio-temporal gene expression profiles for over 28,000 genes in the rat ovarian tissue during follicular growth and the preovulatory period. The database was constructed from total RNA isolated from intact o
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MEPD: A Medaka gene expression pattern database
The Medaka Expression Pattern Database (MEPD) stores and integrates information of gene expression during embryonic development of the small freshwater fish Medaka (Oryzias latipes). Expression patterns of genes identified by ESTs are documented by i
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ImmuCo
Current gene co-expression databases do not support cell-specific analysis because the gene expression matrices for co-expression analysis are from multiple tissues or a mix of cells and tissues. The overall correlation in gene expression identified
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COLOMBOS v2.0: An ever expanding collection of bacterial expression compendia
The COLOMBOS database (http://www.colombos.net) features comprehensive organism-specific cross-platform gene expression compendia of several bacterial model organisms and is supported by a fully interactive web portal and an extensive web API. COLOMB
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STAB
STAB is a comprehensive cell atlas resource for the human brain, containing single-cell gene expression pro- filing of 42 cell subtypes across 20 brain regions and 11 developmental periods. With cell subtypes and their marker genes defined by a unifi
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ABA - Ascidian Body Atlas
ABA (Ascidian Body Atlas) is a digital 3D atlas of ascidian embryo development and gene expression pattern. Our 3D embryo images were reconstructed from more than 3,000 high-resolution real images acquired by a confocal laser microscopy in different
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GPX-Macrophage Expression Atlas
The GPX Macrophage Expression Atlas (GPX-MEA) is an online resource for expression based studies of a range of macrophage cell types following treatment with pathogens and immune modulators. GPX Macrophage Expression Atlas (GPX-MEA) follows the MIAME
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GeneNote
GeneNote is a database of gene expression in normal adult human tissues, based on in-house DNA array experiments using Affymetrix GeneChip HG-U95A-E (http://www.affymetrix.com/analysis/index.affx). The goals of the project are as follows: to create
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CAGE
CAGE Basic and Analysis Databases store an original resource produced by CAGE (cap-analysis gene expression; 1), which measures expression levels of transcription starting sites (TSS) by sequencing large amounts of transcript 5'-ends, termed CAGE tag
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TRANSFAC®
The TRANSFAC® database has been constructed to model the interaction of eukaryotic transcription factors with their DNA-binding sites and how this affects gene expression. At its core are the three tables FACTOR, SITE, and GENE. A link between FACTOR
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*ReputationScore indicates how established a given datasource is. Find out more.