ArticleNature genetics2011
High conservation of transcription factor binding and evidence for combinatorial regulation across six Drosophila species.
Article in Nature genetics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 85 papers.
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Who cites it
85 citing papers in PubMed.
- Deep conservation of cis-regulatory elements and chromatin organization in echinoderms uncover ancestral regulatory features of animal genomes.Nature ecology & evolution · 2026Article
- Circadian regulation of stereotypic chromatin conformations at enhancers.bioRxiv : the preprint server for biology · 2024Article
- Inter-organ steroid hormone signaling promotes myoblast fusion via direct transcriptional regulation of a single key effector gene.Current biology : CB · 2024Article
- Evolution of Transcript Abundance is Influenced by Indels in Protein Low Complexity Regions.Journal of molecular evolution · 2024Article
- Prediction and analysis of cis-regulatory elements in Dorsal and Ventral patterning genes of Tribolium castaneum and its comparison with Drosophila melanogaster.Molecular and cellular biochemistry · 2024Article
- Article
- Chromatin accessibility in the Drosophila embryo is determined by transcription factor pioneering and enhancer activation.Developmental cell · 2023Article
- TFSyntax: a database of transcription factors binding syntax in mammalian genomes.Nucleic acids research · 2023Article
- Prediction accuracy of regulatory elements from sequence varies by functional sequencing technique.Frontiers in cellular and infection microbiology · 2023Article
- Evolution of transcription factor binding through sequence variations and turnover of binding sites.Genome research · 2022Article
- Fitting thermodynamic-based models: Incorporating parameter sensitivity improves the performance of an evolutionary algorithm.Mathematical biosciences · 2021Article
- Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research.Nature communications · 2021Article
- Molecular Co-occupancy Identifies Transcription Factor Binding Cooperativity In Vivo.Molecular cell · 2021Article
- Seven myths of how transcription factors read the cis-regulatory code.Current opinion in systems biology · 2020Article
- Transcriptional Silencers in Drosophila Serve a Dual Role as Transcriptional Enhancers in Alternate Cellular Contexts.Molecular cell · 2020Article
- The Role of Chromatin Accessibility in cis-Regulatory Evolution.Genome biology and evolution · 2019Article
- Expression Changes of Structural Protein Genes May Be Related to Adaptive Skin Characteristics Specific to Humans.Genome biology and evolution · 2019Article
- A map of direct TF-DNA interactions in the human genome.Nucleic acids research · 2019Article
- Network Medicine in the Age of Biomedical Big Data.Frontiers in genetics · 2019Review
- Damage-responsive elements inGenome research · 2018Article
25 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
Abstract
The binding of some transcription factors has been shown to diverge substantially between closely related species. Here we show that the binding of the developmental transcription factor Twist is highly conserved across six Drosophila species, revealing strong functional constraints at its enhancers. Conserved binding correlates with sequence motifs for Twist and its partners, permitting the de novo discovery of their combinatorial binding. It also includes over 10,000 low-occupancy sites near the detection limit, which tend to mark enhancers of later developmental stages. These results suggest that developmental enhancers can be highly evolutionarily constrained, presumably because of their complex combinatorial nature.
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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.