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Ultra-conserved sequence databases | Comparative genomics

Ultraconserved sequences (UCRs) are genomic sequences that were found identical comparing human, rat and mouse genomes (Bejerano et al., 2004). Because of their extreme conservation it has been postulated that these regions must have biological…
FANTOM
Dataset

FANTOM Functional ANnoTation Of the Mammalian genome

Contains web-based tools and data-access points for the research community to…

Contains web-based tools and data-access points for the research community to search and extract data related to samples, genes, promoter activities, transcription factors (TF) and enhancers across…

VISTA Enhancer…
Dataset

VISTA Enhancer Browser

A central resource for experimentally validated human and mouse noncoding…

A central resource for experimentally validated human and mouse noncoding fragments with gene enhancer activity as assessed in transgenic mice. The purpose of VISTA Enhancer Browser is to facilitate…

ECRbase
Dataset

ECRbase

Provides users with detailed synteny structure interconnecting pair of genomes.…

Provides users with detailed synteny structure interconnecting pair of genomes. ECRbase is a portal to pre-computed, post-processed whole-genome comparative data that allows the extraction of…

CEGA
Dataset

CEGA Conserved Elements from Genomic Alignments

Aims to provide an easy access to unbiased and comprehensive sets of conserved…

Aims to provide an easy access to unbiased and comprehensive sets of conserved non-coding sequences (CNCs) at distinct levels of the vertebrate lineage. The sets were computed based on a strategy to…

UCbase
Dataset

UCbase

A web tool dedicated to the analysis of ultraconserved sequences (UCRs). UCRs…

A web tool dedicated to the analysis of ultraconserved sequences (UCRs). UCRs are 481 sequences >200 bases sharing 100% identity among human, mouse and rat genomes. They are frequently located in…

CONDOR
Dataset

CONDOR

A resource dealing with conserved non-coding elements (CNEs) identified through…

A resource dealing with conserved non-coding elements (CNEs) identified through targeted multiple alignments of orthologous DNA sequence between the Fugu genome and a number of mammalian genomes.…

C-It-Loci
Dataset

C-It-Loci

A tool to explore and to compare the expression profiles of conserved loci…

A tool to explore and to compare the expression profiles of conserved loci among various tissues in three organisms. Conversed loci are pairs of adjacent homologous protein-coding genes shared…

Ancora
Dataset

Ancora

Provides data and tools for exploring genomic organization of highly conserved…

Provides data and tools for exploring genomic organization of highly conserved noncoding elements (HCNEs) for multiple genomes. Ancora includes a genome browser that shows HCNE locations and features…

UCNEbase
Dataset

UCNEbase

Provides information on the evolution and genomic organization of…

Provides information on the evolution and genomic organization of ultra-conserved non-coding elements (UCNEs) in multiple vertebrate species. UCNEbase currently covers 4,351 such elements in 18…

ECR Browser
Web

ECR Browser

Allows users to visualize and analyze evolutionary conserved regions (ECRs) in…

Allows users to visualize and analyze evolutionary conserved regions (ECRs) in genomes of sequenced species. Since its initial implementation, when only the genomes of human and mouse were available,…

BacterialID?
Dataset

BacterialID?

Identifies uniquely conserved regions (UCRs) as candidate diagnostic targets…

Identifies uniquely conserved regions (UCRs) as candidate diagnostic targets for a selected group of organisms solely from their genomic sequences. Using a sequence-indexing algorithm to identify…

cneViewer
Dataset

cneViewer Conserved Non-encoding Element Viewer

Systematizes information on conserved non-coding DNA elements in zebrafish. A…

Systematizes information on conserved non-coding DNA elements in zebrafish. A key feature here is the ability to search for conserved non-coding elements (CNEs) that may be relevant to…

CORG
Dataset

CORG Comparative Regulatory Genomics

Aims to gather information about the genome-wide annotation of conserved…

Aims to gather information about the genome-wide annotation of conserved sequence elements in non-coding genomic DNA. CORG focuses on the detection and collection of conserved blocks from the…

DG-CST
Dataset

DG-CST Disease Gene - Conserved Sequence Tags

Collects human–mouse conserved elements associated to disease genes. DG-CST…

Collects human–mouse conserved elements associated to disease genes. DG-CST is an annotated collection of conserved sequences related to genes involved in genetic diseases. The database contains a…

TFCONES
Dataset

TFCONES Transcription Factor genes & associated COnserved Noncoding ElementS

Contains all human, mouse and fugu TF-encoding genes and conserved noncoding…

Contains all human, mouse and fugu TF-encoding genes and conserved noncoding elements (CNEs) associated with them. The CNEs were identified by gene-by-gene alignments of orthologous TF-encoding gene…

UCDB
Dataset

UCDB Ulcerative Colitis Database

Catalogs the genes showing evidence in ulcerative colitis (UC) pathogenesis (UC…

Catalogs the genes showing evidence in ulcerative colitis (UC) pathogenesis (UC GENE), drugs used in chemotherapy (UC DRUG), UC susceptibility single nucleotide polymorphism (SNP) loci (UC LOCUS),…

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