Gene expression regulatory sites and transcription factors
A database of vertebrate transcription factor-encoding genes and their associated conserved noncoding elements.
Identify potential transcription factors binding sites.
Search for known binding sites in promoters of orthologous vertebrate genes.
Search for activities of the functional sites in DNA and RNA.
Detect sets of region-specific degenerate oligonucleotide motifs in the regulatory regions of the eukaryotic genes.
Search for information on predicted Arabidopsis thaliana trans-factor and cis-element and co-regulated gene relationships based on microarray data.
Search for comprehensive information on Arabidopsis promoter sequences, transcription factors and their target genes.
Search information about a family of positive transcriptional regulators broadly distributed in bacteria.
Generate a map of cis-regulatory elements for the Arabidopsis thaliana genome.
Identify and analyze cis-elements from microarray data.
Search for sequences and other information about prokaryotic transcriptional regulators.
Search for comprehensive Cap-analysis gene expression (CAGE) Basic data and Analysis results.
Analyze microarray and promoter data to infer transcriptional regulatory network.
Find information about DNA-protein interactions.
Analyze data from high throughput ChIP-chip experiments to annotate cis-regulatory elements.
Identify and visualize conserved transcription factor bindings sites in orthologous promoters.
Delineate conserved non-coding blocks from upstream regions of putative orthologous gene pairs from man, mouse, rat, fugu, Mus musculus, Danio rerio, and zebrafish.
Find coexpressed gene lists and networks in human and mouse.
Identify and visualize cis-regulatory modules in the promoter regions of a given set of potentially co-regulated genes in human genome.
Conduct multi-facet analysis of composite regulatory signature by transcription factors and microRNA on gene expression.
A database that characterize experimentally identified and computationally predicted CTCF-binding sites.
Find information about gene expression and transcription factors in yeast.
Analyze and identify maximal numbers of compositionally similar and phylogenetically conserved cis-regulatory element clusters from a list of user-selected genes.
Find clusters of pre-specified motifs in nucleotide sequences.
Identify promoter-enhancer models based on the composition of transcription factor (TF) binding sites and their pairs.
Perform automated comprehensive analyses of promoter regulatory motifs and the effect they exert on mRNA expression profiles.
Find cis-regulatory elements in genomic sequences.
A promoter alignment analysis tool for identification of transcription factor binding sites across species.
Search for information on Arabidopsis transcription factors.
A knowledge-based method for the prediction of DNA-protein interactions.
Search for information on Bacillus transcription factors and conduct comparative genomics study on TFs.
Search for information on tunicate promoters and regulatory elements.
Search for transcriptional starting sites in human and mouse genomes; conduct comparative promoter analysis.
Search for experimentally determined DNA binding proteins and their binding sites over the complete E. coli K12 genome.
Demarcate functional regions in genomic DNA sequences using a list of tools.
Identify distant regulatory elements of co-expressed genes.
Search and analyze eukaryotic promoter sequences in orthologous genes.
Predict gene start sites in mammalian genomes.
Search for information on genes expressed in pancreas.
Search for annotated information on eukaryotic promoters and conduct comparative promoter analysis.
Search for comprehensive information on transcription regulation of estrogen receptor target genes.
A search engine for gene expression data.
Search for extragenic regions in over 230 bacterial and Archaeal genomes.
Identify and extract nucleotide sequence around the start of genes (promoter region) and their translation initiation site (TIS).
Analyze homologous mammalian promoter sequences in order to identify transcriptional DNA regulatory signals.
Find information about the transcription factors in Drosophila melanogaster.
Discover regulatory elements in a set of homologous regulatory regions.
Use comparative genomics approach to characterize gene models and identify putative cis-regulatory regions of RefSeq Gene Orthologs.
Locate multiple transcription factor binding sites for multiple transcription factors simultaneously in unaligned DNA sequences that may be heterogeneous in DNA composition.
Find information about the the estrogen receptor, the androgen receptor and glucocorticoid receptor.
Search for transcription factor binding sites sequences obtained with SELEX and high-throughput SELEX method.
Search for transcription factors involved in the human hematopoietic development and their binding sites in the target gene promoters.
Use a suite of algorithms and tools for the analysis of gene expression data and the discovery of cis-regulatory sequence elements.
An integrated platform of mammalian transcription factors.
Predict of transcription factor binding sites or visualize sequence correspondences among long DNA sequences.
Scan vertebrate genomes for evolutionary conserved modules of transcription factor binding sites.
Search for comprehensive information of known insulator elements in the vertebrates.
Search for transcription factor binding site profiles for multicellular eukaryotes.
A portal of information regarding transcription factor (TF) activity in the developing B and T cells (lymphocytes) in the mouse.
Search potential binding sites for transcription factors (TF binding sites) nucleotide sequences.
Find sequence patterns in DNA and protein sequences.
A graph-based method to predict recurrent cis-regulatory modules from known motifs.
Search for annotated information on mammalian promoters.
Identify functional transcription factor binding sites in genomic sequences.
A comprehensive web server for mining transcription factor binding sites in yeast.
Find information about fruit fly mRNA transcription during development.
A web-based tool for promoter analysis.
Identify motifs that are well conserved across the cis-regulatory regions of these homologous genes in microorganisms.
A tool that allows you to find relevant modules within your expression dataset(s).
Identify functional sites (cis-elements) in DNA sequences.
Find information on Myc target genes, the role of Myc in human cancers, and proteins that interact with the Myc transcription factors
Find nucleosome exclusion sequences and analyze their accessibility to binding factors.
Search for annotated orthologous mammalian gene promoter sequences.
Find experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants using this open-source, open-access database and literature curation system for community-based annotation.
Identify transcription factor (TF) binding sites in DNA sequences.
A comprehensive workbench for mammalian transcriptional regulatory sequence analysis.
Search for documented motifs found in plant cis-acting regulatory DNA elements.
Verify putative regulatory motifs.
Detect transcription factor binding sites in promoters of co-regulated genes.
Discover transcription factor binding sites from co-expressed genes.
Search for curated information on prokaryotic gene expression and regulatory networks.
Conduct genome-wide cis-regulatory module (CRM) predictions for both the human and the mouse genomes.
Find information about transcription factor binding sites.
Find information about 'molecular switchboards'.
Search for information on plant cis-acting regulatory elements, transcription sites, enhancers and repressors.
Search for promoter sequences for RNA polymerase II with experimentally determined transcription start sites from various plant species.
Predict the potential binding sites and its target operons for a given regulatory protein in prokaryotic genomes.
Find confirmed translation initiation sites (TISs) for prokaryotic genomes.
Analyze promoter sequences to locate transcription start sites (TSS) and Transcription factor binding sites (TFBSs).
Search for information on E. coli mRNA promoter sequences and transcriptional start sites.
Predict promoter and transcription starting site (TSS) using orthologous sequences in eukaryotic genomes.
Extract user specified regions around the transcription start site of all annotated human, mouse or rat genes.
Visualize sequence similarities among a group of promoters.
Detect regulatory elements in non-coding sequences.
A tool for the analysis of the evolution of gene regulation across species.
Find information about predicted regulons in prokaryotic transcription regulation.
Search for manually curated regulatory interactions in prokaryotes that captures the knowledge in public scientific literature using a controlled vocabulary.
Search for information on the transcriptional regulatory network of Escherichia coli K12.
Search sequences of known and predicted riboswitches and other conserved bacterial regulatory elements.
Search for information on promoter and regulatory elements in yeast genome.
Search for information on both the experimental data on in vitro selected DNA/RNA oligomers (aptamers) and the applets for these oligomers recognition.
Search for DNA-binding sites and conserved local DNA conformation within the binding regions.
Search DNA motifs against databases of known motifs (JASPAR, TRANSFAC etc.)
Study transcriptional regulation using integrated of gene regulation analysis software.
Analyze nucleic acid sequence motifs that are positionally correlated with a functional site such as a transcription initiation site for instance.
Visualize mapped transcription factor binding sites in the upstream regions of either single or grouped eukaryotic genes.
Find significant clusters of transcription factor binding sites over long genomic sequences.
Use a collection of bioinformatics tools at this portal site.
Search for genome-wide annotations of regulatory sites in yeast and prokaryotes genomes.
Compare a set of position weight matrices (PWM) against the T-Reg database,a relational database on transcriptional regulation that contains a collection of PWMs.
Search or predict transcription factor binding sites in DNA sequences.
Search and characterize composite regulatory elements in mammalian genomes.
Predict prokaryotic translation initiation sites.
Analyze regulatory sequences in metazoan genomes.
Search for computationally predicted transcription factors binding sites in gamma-proteobacterial genomes.
Search for information about composite elements - the basic structures of combinatorial gene regulation in eukaryotes.
Search for comprehensive information on eukaryotic transcription factors.
Analyze and visualize gene regulatory networks that combines encyclopedic information on signal transduction pathway.
Search for annotated and comprehensive information about cis- and trans-regulatory elements in human, mouse and rat genomes.
Search for information on structural and functional organization of transcription regulatory regions of eukaryotic genes.
Predict clusters of binding sites for transcription factors in the context information taken from genome annotations.
Find information about proteins involved in transcription factor regulation.
Search for putative transcription factor binding sites in multiple genomes (human, mouse and D. melanogaster).
Search for information about promoter sequences for tissue-specificity in human.
To search for proteomic information on eukaryotic transcription factors.
Find information about the regulation of microRNA by transcription factors.
Find information about DNA binding in proteins.
Predict transcription factor binding sites using variable order Bayesian trees.
Analyze DNA sequences and compute the DNA helical stability.
Find information about intrinsic terminators of transcription.
Find novel motifs ( transcription factor binding sites ) conserved in a set of regulatory regions of related genes.
Identify transcription factor binding sites or other meaningful DNA motifs.
Find regulatory associations between transcription factors (TF) and target genes and identify complex motifs found to be over-represented in the promoter regions of co-regulated genes in yeast.
Identify good candidates for such transcription factor binding sites by searching for statistically overrepresented motifs.
Search and prediction Zinc Finger Protein binding sites.
Search for conserved regulatory elements.
Transcription factor binding site discovery in human genome using a discriminative pattern analysis.
Search SNPs in human promoter regions.
Identify binding sites conserved in multiple prokaryotes for a given transcription factor.
Predict cis-regulatory elements based on short motifs (protein bindings sites on DNA).
Detect over-represented transcription factor binding sites in the promoters of sets of genes.
Search for binding and interactions information of transcription factors.
Investigate the influence of mutations in regulatory gene regions onto DNA interaction with nuclear proteins.
Analyze the regulatory potential of noncoding sequences.