ArticleGenome research2004
Expression profiling and comparative genomics identify a conserved regulatory region controlling midline expression in the zebrafish embryo.
Article in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
13 citing papers in PubMed, 40 citations in OpenAlex.
- Fine-Tuned Expression of Evolutionarily Conserved Signaling Molecules in theInternational journal of molecular sciences · 2024Article
- Article
- Control of tissue growth by Yap relies on cell density and F-actin in zebrafish fin regeneration.Development (Cambridge, England) · 2015Article
- Dose- and time-dependent expression patterns of zebrafish orthologs of selected E2F target genes in response to serum starvation/replenishment.Molecular biology reports · 2011Article
- Temporal and spatial expression of CCN genes in zebrafish.Developmental dynamics : an official publication of the American Association of Anatomists · 2010Article
- Identification of direct T-box target genes in the developing zebrafish mesoderm.Development (Cambridge, England) · 2009Article
- Dynamic SPR monitoring of yeast nuclear protein binding to a cis-regulatory element.Biochemical and biophysical research communications · 2007Article
- Transcriptional profiling reveals barcode-like toxicogenomic responses in the zebrafish embryo.Genome biology · 2007Article
- Functional diversification of sonic hedgehog paralog enhancers identified by phylogenomic reconstruction.Genome biology · 2007Article
- Ancient duplicated conserved noncoding elements in vertebrates: a genomic and functional analysis.Genome research · 2006Article
- Monorail/Foxa2 regulates floorplate differentiation and specification of oligodendrocytes, serotonergic raphé neurones and cranial motoneurones.Development (Cambridge, England) · 2005Article
- Highly conserved non-coding sequences are associated with vertebrate development.PLoS biology · 2005Article
- The expression patterns of minor fibrillar collagens during development in zebrafish.Gene expression patterns : GEPArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Differential gene transcription is a fundamental regulatory mechanism of biological systems during development, body homeostasis, and disease. Comparative genomics is believed to be a rapid means for the identification of regulatory sequences in genomes. We tested this approach to identify regulatory sequences that control expression in the midline of the zebrafish embryo. We first isolated a set of genes that are coexpressed in the midline of the zebrafish embryo during somitogenesis stages by gene array analysis and subsequent rescreens by in situ hybridization. We subjected 45 of these genes to Compare and DotPlot analysis to detect conserved sequences in noncoding regions of orthologous loci in the zebrafish and Takifugu genomes. The regions of homology that were scored in nonconserved regions were inserted into expression vectors and tested for their regulatory activity by transient transgenesis in the zebrafish embryo. We identified one conserved region from the connective tissue growth factor gene (ctgf), which was able to drive expression in the midline of the embryo. This region shares sequence similarity with other floor plate/notochord-specific regulatory regions. Our results demonstrate that an unbiased comparative approach is a relevant method for the identification of tissue-specific cis-regulatory sequences in the zebrafish embryo.
Indexed as
Identifiers
What OpenQuestion holds
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.