PUBLICATION
CONDOR: a database resource of developmentally associated conserved non-coding elements
- Authors
- Woolfe, A., Goode, D.K., Cooke, J., Callaway, H., Smith, S., Snell, P., McEwen, G.K., and Elgar, G.
- ID
- ZDB-PUB-070907-38
- Date
- 2007
- Source
- BMC Developmental Biology 7(1): 100 (Journal)
- Registered Authors
- Cooke, Julie E., Elgar, Greg, Goode, Debbie, Smith, Sarah, Woolfe, Adam
- Keywords
- none
- MeSH Terms
-
- Animals
- Base Sequence
- Computational Biology
- Conserved Sequence*
- Databases, Nucleic Acid*
- Evolution, Molecular
- Gene Expression Regulation, Developmental*
- Genomics*
- Phylogeny
- Vertebrates/genetics*
- PubMed
- 17760977 Full text @ BMC Dev. Biol.
Citation
Woolfe, A., Goode, D.K., Cooke, J., Callaway, H., Smith, S., Snell, P., McEwen, G.K., and Elgar, G. (2007) CONDOR: a database resource of developmentally associated conserved non-coding elements. BMC Developmental Biology. 7(1):100.
Abstract
BACKGROUND: Comparative genomics is currently one of the most popular approaches to study the regulatory architecture of vertebrate genomes. Fish-mammal genomic comparisons have proved powerful in identifying conserved non-coding elements likely to be distal cis-regulatory modules such as enhancers, silencers or insulators that control the expression of genes involved in the regulation of early development. The scientific community is showing increasing interest in characterizing the function, evolution and language of these sequences. Despite this, there remains little in the way of user-friendly access to a large dataset of such elements in conjunction with the analysis and the visualization tools needed to study them. Description Here we present CONDOR (COnserved Non-coDing Orthologous Regions) available at: http://condor.fugu.biology.qmul.ac.uk. In an interactive and intuitive way the website displays data on >6800 non-coding elements associated with over 120 early developmental genes and conserved across vertebrates. The database regularly incorporates results of ongoing in vivo zebrafish enhancer assays of the CNEs carried out in-house, which currently number ~100. Included and highlighted within this set are elements derived from duplication events both at the origin of vertebrates and more recently in the teleost lineage, thus providing valuable data for studying the divergence of regulatory roles between paralogs. CONDOR therefore provides a number of tools and facilities to allow scientists to progress in their own studies on the function and evolution of developmental cis-regulation. CONCLUSIONS: By providing access to data with an approachable graphics interface, the CONDOR database presents a rich resource for further studies into the regulation and evolution of genes involved in early development.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping