New technologies, new findings, and new concepts in the study of vertebrate cis‐regulatory sequences
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Summary
Some of the recent technological developments that will likely lead to a surge in research on how vertebrates encode regulation of transcriptional activity, how regulatory sequences constrain genomic architecture, and ultimately how vertebrate form has evolved are reviewed.
- Type
- review
- Published
- 2006-04-01
- Cited by
- 50
- References
- 109
- Access
- Open access
- OpenAlex
- https://openalex.org/W2075018560
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:41587692
Keywords
Biology, Zebrafish, Vertebrate, Genome, Computational biology
References
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- Genomic Regulatory Systems: Development and Evolution
- Conserved non-genic sequences — an unexpected feature of mammalian genomes
- Enhancer trapping in zebrafish using the Sleeping Beauty transposon
- Species‐specific organization of CpG island promoters at mammalian homologous genes
- Highly conserved regulatory elements around the SHH gene may contribute to the maintenance of conserved synteny across human chromosome 7q36.3.
- Functional analysis of chicken Sox2 enhancers highlights an array of diverse regulatory elements that are conserved in mammals.
- Regulation of Otx2 expression and its functions in mouse epiblast and anterior neuroectoderm
- Separable enhancer sequences regulate the expression of the neural bHLH transcription factor neurogenin 1.
- Defining the CREB regulon: a genome-wide analysis of transcription factor regulatory regions.
- Comparative analyses of multi-species sequences from targeted genomic regions
- Search for enhancers: teleost models in comparative genomic and transgenic analysis of cis regulatory elements.
- Genomic deletion of a long-range bone enhancer misregulates sclerostin in Van Buchem disease.
- Applied bioinformatics for the identification of regulatory elements
- Iroquois genes: genomic organization and function in vertebrate neural development.
- Serial deletions and duplications suggest a mechanism for the collinearity of Hoxd genes in limbs
Cited by
- Characterization of transcripts expressed from the Meis2 locus in the Natal Long-fingered bat (Miniopterus natalensis)
- Long-range transcriptional regulation of vertebrate developmental genes and the evolution of genome architecture
- Cellular and molecular studies of postembryonic muscle fibre recruitment in zebrafish (Danio rerio L.)
- FUNCTION OF CORE PROMOTERS IN DIFFERENTIAL GENE REGULATION DURING EMBRYOGENESIS
- A study of the generation of diversity in the central nervous system
- A cis-element in the Notch1 locus is involved in the regulation of gene expression in interneuron progenitors
- Identification of a transient Sox5 expressing progenitor population in the neonatal ventral forebrain by a novel cis-regulatory element
- The words of the regulatory code are arranged in a variable manner in highly conserved enhancers.
- Conserved co-regulation and promoter sharing of hoxb3a and hoxb4a in zebrafish.
- Zebrafish: an integrative system for neurogenomics and neurosciences.
- Foxa2 regulates the expression of Nato3 in the floor plate by a novel evolutionarily conserved promoter.
- Proper differentiation of photoreceptors and amacrine cells depends on a regulatory loop between NeuroD and Six6
- Identification of the first recurrent PAR1 deletion in Léri-Weill dyschondrosteosis and idiopathic short stature reveals the presence of a novel SHOX enhancer
- Retracted: Gene duplication and functional evolution of Hox genes in fishes.
- Unexpectedly large number of conserved noncoding regions within the ancestral chordate Hox cluster
- Identification of a Dopaminergic Enhancer Indicates Complexity in Vertebrate Dopamine Neuron Phenotype Specification
- Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci
- Regulation of Hypocretin (Orexin) Expression in Embryonic Zebrafish*
- Identification and embryonic expression of a highly conserved Meis-linked gene
- Understanding the regulatory genome.
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