ArticleBMC bioinformatics2006
Frequency distribution of TATA Box and extension sequences on human promoters.
Article in BMC bioinformatics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 29 citations in OpenAlex.
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- GOLEM: A tool for visualizing the distribution of Gene regulatOry eLEMents within the plant promoters with a focus on male gametophyte.The Plant journal : for cell and molecular biology · 2025Article
- On the Role of TATA Boxes and TATA-Binding Protein inPlants (Basel, Switzerland) · 2023Review
- Integrating quantitative proteomics with accurate genome profiling of transcription factors by greenCUT&RUN.Nucleic acids research · 2021Article
- Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters.PloS one · 2019Article
- DeePromoter: Robust Promoter Predictor Using Deep Learning.Frontiers in genetics · 2019Article
- Article
- Core Promoter Plasticity Between Maize Tissues and Genotypes Contrasts with Predominance of Sharp Transcription Initiation Sites.The Plant cell · 2015Article
- Plant promoters: an approach of structure and function.Molecular biotechnology · 2014Review
- Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters.Nature structural & molecular biology · 2011Article
- Isochores and the regulation of gene expression in the human genome.Genome biology and evolution · 2011Article
- TC-motifs at the TATA-box expected position in plant genes: a novel class of motifs involved in the transcription regulation.BMC genomics · 2010Article
- Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis.Nucleic acids research · 2007Article
- Development of computations in bioscience and bioinformatics and its application: review of the Symposium of Computations in Bioinformatics and Bioscience (SCBB06).BMC bioinformatics · 2006Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundTATA box is one of the most important transcription factor binding sites. But the exact sequences of TATA box are still not very clear.
resultsIn this study, we conduct a dedicated analysis on the frequency distribution of TATA Box and its extension sequences on human promoters. Sixteen TATA elements derived from the TATA Box motif, TATAWAWN, are classified into three distribution patterns: peak, bottom-peak, and bottom. Fourteen TATA extension sequences are predicted to be the new TATA Box elements due to their high motif factors, which indicate their statistical significance. Statistical analysis on the promoters of mice, zebrafish and drosophila melanogaster verifies seven of these elements. It is also observed that the distribution of TATA elements on the promoters of housekeeping genes are very similar with their distribution on the promoters of tissue specific genes in human.
conclusionThe dedicated statistical analysis on TATA box and its extension sequences yields new TATA elements. The statistical significance of these elements has been verified on random data sets by calculating their p values.
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