ArticleCell2013
Cooperativity and rapid evolution of cobound transcription factors in closely related mammals.
Article in Cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 101 papers.
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Who cites it
101 citing papers in PubMed, 169 citations in OpenAlex.
- Extensive binding of poorly characterized human transcription factors to genomic dark matter.Nature communications · 2026Article
- Early tolerance and late persistence as alternative drug responses in cancer.Nature communications · 2025Article
- Combinatorial transcription factor binding encodes cis-regulatory wiring of mouse forebrain GABAergic neurogenesis.Developmental cell · 2025Article
- Evidence for compensatory evolution within pleiotropic regulatory elements.Genome research · 2024Article
- Identification of transcription factor co-binding patterns with non-negative matrix factorization.Nucleic acids research · 2024Article
- Regulatory transposable elements in the encyclopedia of DNA elements.Nature communications · 2024Article
- DNA methylation patterns of transcription factor binding regions characterize their functional and evolutionary contexts.Genome biology · 2024Article
- SPT6L, a newly discovered ancestral component of the plant RNA-directed DNA methylation pathway.Frontiers in plant science · 2024Article
- Cooperative assembly confers regulatory specificity and long-term genetic circuit stability.Cell · 2023Article
- TFSyntax: a database of transcription factors binding syntax in mammalian genomes.Nucleic acids research · 2023Article
- ChIP-seq profiling of H3K4me3 and H3K27me3 in an invasive insect,Frontiers in genetics · 2023Article
- Extensive co-binding and rapid redistribution of NANOG and GATA6 during emergence of divergent lineages.Nature communications · 2022Article
- Hormone-controlled cooperative binding of transcription factors drives synergistic induction of fasting-regulated genes.Nucleic acids research · 2022Article
- Evolution of transcription factor binding through sequence variations and turnover of binding sites.Genome research · 2022Article
- Review
- Perfect and imperfect views of ultraconserved sequences.Nature reviews. Genetics · 2022Review
- System drift and speciation.Evolution; international journal of organic evolution · 2022Article
- Article
- Harnessing natural variation to identify cis regulators of sex-biased gene expression in a multi-strain mouse liver model.PLoS genetics · 2021Article
- Evolution of mouse circadian enhancers from transposable elements.Genome biology · 2021Article
41 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors at 7 institutions in 3 countries.
Funding
Abstract
To mechanistically characterize the microevolutionary processes active in altering transcription factor (TF) binding among closely related mammals, we compared the genome-wide binding of three tissue-specific TFs that control liver gene expression in six rodents. Despite an overall fast turnover of TF binding locations between species, we identified thousands of TF regions of highly constrained TF binding intensity. Although individual mutations in bound sequence motifs can influence TF binding, most binding differences occur in the absence of nearby sequence variations. Instead, combinatorial binding was found to be significant for genetic and evolutionary stability; cobound TFs tend to disappear in concert and were sensitive to genetic knockout of partner TFs. The large, qualitative differences in genomic regions bound between closely related mammals, when contrasted with the smaller, quantitative TF binding differences among Drosophila species, illustrate how genome structure and population genetics together shape regulatory evolution.
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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.