ArticleBMC systems biology2012
The preservation of bidirectional promoter architecture in eukaryotes: what is the driving force?
Article in BMC systems biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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
19 citing papers in PubMed, 25 citations in OpenAlex.
- RUBY-BD: a highly efficient visual reporter system for assessing bidirectional promoter activity.Planta · 2026Article
- Lineage-associated Human Divergently-paired Genes Exhibit Structural and Regulatory Characteristics.Genomics, proteomics & bioinformatics · 2025Article
- Molecular models of bidirectional promoter regulation.Current opinion in structural biology · 2024Review
- Higher-order modular regulation of the human proteome.Molecular systems biology · 2023Article
- Bidirectional promoters: an enigmatic genome architecture and their roles in cancers.Molecular biology reports · 2021Review
- Pan-Cancer Analysis of Head-to-Head Gene Pairs in Terms of Transcriptional Activity, Co-expression and Regulation.Frontiers in genetics · 2020Article
- Gene Repositioning Is Under Constraints After Evolutionary Conserved Gene Neighborhood Separate.Frontiers in genetics · 2019Article
- Epigenetic Variability Confounds Transcriptome but Not Proteome Profiling for Coexpression-based Gene Function Prediction.Molecular & cellular proteomics : MCP · 2018Article
- Pan-Cancer Analysis Reveals Differential Susceptibility of Bidirectional Gene Promoters to DNA Methylation, Somatic Mutations, and Copy Number Alterations.International journal of molecular sciences · 2018Article
- Pervasive coexpression of spatially proximal genes is buffered at the protein level.Molecular systems biology · 2017Article
- Genetic variability of the activity of bidirectional promoters: a pilot study in bovine muscle.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- The Role of Transcription Factors at Antisense-Expressing Gene Pairs in Yeast.Genome biology and evolution · 2016Article
- Bilaterian-like promoters in the highly compact Amphimedon queenslandica genome.Scientific reports · 2016Article
- Isolation and Functional Characterization of Bidirectional Promoters in Rice.Frontiers in plant science · 2016Article
- Characteristics of Antisense Transcript Promoters and the Regulation of Their Activity.International journal of molecular sciences · 2015Review
- Bidirectional promoters of insects: genome-wide comparison, evolutionary implication and influence on gene expression.Journal of molecular biology · 2015Article
- Intergenic sequence between Arabidopsis caseinolytic protease B-cytoplasmic/heat shock protein100 and choline kinase genes functions as a heat-inducible bidirectional promoter.Plant physiology · 2014Article
- Terminate and make a loop: regulation of transcriptional directionality.Trends in biochemical sciences · 2014Review
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Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe bidirectional gene architecture has been studied in many organisms, and the conservation of bidirectional arrangement has received considerable attention. However, the explanation for the evolutionary conservation about this genomic structure is still insufficient. In this study the large scale identification and pathway enrichment analysis for bidirectional genes were performed in several eukaryotes and the comparative analysis of this arrangement between human and mouse were dissected for the purpose of discovering the driving force of the preservation of this genomic structure.
resultsWe identified the bidirectional gene pairs in eight different species and found this structure to be prevalent in eukaryotes. The pathway enrichment analysis indicated the bidirectional genes at the genome level are conserved in certain pathways, such as the DNA repair and some other fundamental cellular pathways. The comparative analysis about the gene expression, function, between human and mouse bidirectional genes were also performed and we observed that the selective force of this architecture doesn't derive from the co-regulation between paired genes, but the functional bias of bidirectional genes at whole genome level is observed strengthened during evolution.
conclusionsOur result validated the coexpression of bidirectional genes; however failed to support their functional relevance. The conservation of bidirectional promoters seems not the result of functional connection between paired genes, but the functional bias at whole genome level, which imply that the genome-wide functional constraint is important for the conservation of bidirectional structure.
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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.