ArticleGenome biology2007
cis-Decoder discovers constellations of conserved DNA sequences shared among tissue-specific enhancers.
Article in Genome biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
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Who cites it
16 citing papers in PubMed.
- A Notch-dependent transcriptional mechanism controls expression of temporal patterning factors ineLife · 2022Article
- Annotating the Insect Regulatory Genome.Insects · 2021Review
- Ultraconserved Non-coding DNA Within Diptera and Hymenoptera.G3 (Bethesda, Md.) · 2020Article
- REDfly: the transcriptional regulatory element database for Drosophila.Nucleic acids research · 2019Article
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- Regulation of a duplicated locus: Drosophila sloppy paired is replete with functionally overlapping enhancers.Developmental biology · 2012Article
- Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers.Developmental dynamics : an official publication of the American Association of Anatomists · 2012Article
- Identification of cis-Regulatory Elements in the dmyc Gene of Drosophila Melanogaster.Gene regulation and systems biology · 2012Article
- Conserved sequence block clustering and flanking inter-cluster flexibility delineate enhancers that regulate nerfin-1 expression during Drosophila CNS development.Gene expression patterns : GEP · 2009Article
- Sequence conservation and combinatorial complexity of Drosophila neural precursor cell enhancers.BMC genomics · 2008Article
- Rapid detection and curation of conserved DNA via enhanced-BLAT and EvoPrinterHD analysis.BMC genomics · 2008Article
- REDfly 2.0: an integrated database of cis-regulatory modules and transcription factor binding sites in Drosophila.Nucleic acids research · 2008Article
- Phylogenetic footprinting analysis in the upstream regulatory regions of the Drosophila enhancer of split genes.Genetics · 2007Article
- The cis-regulatory dynamics of the Drosophila CNS determinant castor are controlled by multiple sub-pattern enhancers.Gene expression patterns : GEPArticle
- Functional analysis of conserved sequences within a temporally restricted neural precursor cell enhancer.Mechanisms of developmentArticle
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
A systematic approach is described for analysis of evolutionarily conserved cis-regulatory DNA using cis-Decoder, a tool for discovery of conserved sequence elements that are shared between similarly regulated enhancers. Analysis of 2,086 conserved sequence blocks (CSBs), identified from 135 characterized enhancers, reveals most CSBs consist of shorter overlapping/adjacent elements that are either enhancer type-specific or common to enhancers with divergent regulatory behaviors. Our findings suggest that enhancers employ overlapping repertoires of highly conserved core elements.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.