ArticleNucleic acids research2011
Conservation of transcription factor binding events predicts gene expression across species.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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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.
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Who cites it
20 citing papers in PubMed, 32 citations in OpenAlex.
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- Effect of Low Red-to-Far-Red Light on Stem Elongation and Pith Cell Development in Dicots.Plant direct · 2025Article
- Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level.Nature communications · 2022Article
- Persistence and plasticity in bacterial gene regulation.Nature methods · 2021Article
- Human protein-RNA interaction network is highly stable across mammals.BMC genomics · 2019Article
- Network Medicine in the Age of Biomedical Big Data.Frontiers in genetics · 2019Review
- Elk1 affects katanin and spastin proteins via differential transcriptional and post-transcriptional regulations.PloS one · 2019Article
- In vivo genome-wide binding interactions of mouse and human constitutive androstane receptors reveal novel gene targets.Nucleic acids research · 2018Article
- Uncoupling evolutionary changes in DNA sequence, transcription factor occupancy and enhancer activity.eLife · 2017Article
- SeqEnrich: A tool to predict transcription factor networks from co-expressed Arabidopsis and Brassica napus gene sets.PloS one · 2017Article
- Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge.Bioinformatics (Oxford, England) · 2015Article
- Identifying transcription factor complexes and their roles.Bioinformatics (Oxford, England) · 2014Article
- Relative specificity: all substrates are not created equal.Genomics, proteomics & bioinformatics · 2014Review
- Integrated genome analysis suggests that most conserved non-coding sequences are regulatory factor binding sites.Nucleic acids research · 2012Article
- i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules.Nucleic acids research · 2012Article
- Cooperativity of stress-responsive transcription factors in core hypoxia-inducible factor binding regions.PloS one · 2012Article
- Combinatorial binding in human and mouse embryonic stem cells identifies conserved enhancers active in early embryonic development.PLoS computational biology · 2011Article
- Cross-species ChIP-seq studies provide insights into regulatory strategies of PPARγ in adipocytes.TranscriptionArticle
- TFBSFootprinter: a multiomics tool for prediction of transcription factor binding sites in vertebrate species.TranscriptionArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 2 institutions in 1 country.
Funding
Abstract
Recent technological advances have made it possible to determine the genome-wide binding sites of transcription factors (TFs). Comparisons across species have suggested a relatively low degree of evolutionary conservation of experimentally defined TF binding events (TFBEs). Using binding data for six different TFs in hepatocytes and embryonic stem cells from human and mouse, we demonstrate that evolutionary conservation of TFBEs within orthologous proximal promoters is closely linked to function, defined as expression of the target genes. We show that (i) there is a significantly higher degree of conservation of TFBEs when the target gene is expressed in both species; (ii) there is increased conservation of binding events for groups of TFs compared to individual TFs; and (iii) conserved TFBEs have a greater impact on the expression of their target genes than non-conserved ones. These results link conservation of structural elements (TFBEs) to conservation of function (gene expression) and suggest a higher degree of functional conservation than implied by previous studies.
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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.