ArticleNature genetics2009
Intrinsic variability of gene expression encoded in nucleosome positioning sequences.
Article in Nature genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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Who cites it
80 citing papers in PubMed, 157 citations in OpenAlex.
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- Comparative studies of genomic and epigenetic factors influencing transcriptional variation in two insect species.G3 (Bethesda, Md.) · 2022Article
- NucHMM: a method for quantitative modeling of nucleosome organization identifying functional nucleosome states distinctly associated with splicing potentiality.Genome biology · 2021Article
- Identifying chromatin features that regulate gene expression distribution.Scientific reports · 2020Article
- Multivariable regulation of gene expression plasticity in metazoans.Open biology · 2019Article
- Resolving noise-control conflict by gene duplication.PLoS biology · 2019Article
- Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters.PloS one · 2019Article
- Deep learning architectures for prediction of nucleosome positioning from sequences data.BMC bioinformatics · 2018Article
- A unified computational framework for modeling genome-wide nucleosome landscape.Physical biology · 2018Article
- Broad distribution spectrum from Gaussian to power law appears in stochastic variations in RNA-seq data.Scientific reports · 2018Article
20 more citing papers are in PubMed but not listed here.
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
Variation in gene expression is an essential material for biological diversity among single cells, individuals and populations or species. Here we show that expression variability is an intrinsic property that persists at those different levels. Each promoter seems to have a unique capacity to respond to external signals that can be environmental, genetic or even stochastic. Our investigation into nucleosome organization of variably responding promoters revealed a commonly positioned nucleosome at a critical regulatory region where most transcription start sites and TATA elements are located, a deviation from typical nucleosome-free status. The nucleotide sequences in this region of variable promoters showed a high propensity for DNA bending and a periodic distribution of particular dinucleotides, encoding preferences for DNA-nucleosome interaction. Variable expression is likely to occur during removal of this nucleosome for gene activation. This is a unique example of how promoter sequences intrinsically encode regulatory flexibility, which is vital for biological processes such as adaptation, development and evolution.
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