ArticleThe European physical journal. E, Soft matter2006
Chromatin code, local non-equilibrium dynamics, and the emergence of transcription regulatory programs.
Article in The European physical journal. E, Soft matter, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
16 citing papers in PubMed, 35 citations in OpenAlex.
- From inert matter to the global society life as multi-level networks of processes.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Article
- A TDG/CBP/RARα ternary complex mediates the retinoic acid-dependent expression of DNA methylation-sensitive genes.Genomics, proteomics & bioinformatics · 2014Article
- Critical dynamics in host-pathogen systems.Current topics in microbiology and immunology · 2013Review
- Deciphering heterogeneity in pig genome assembly Sscrofa9 by isochore and isochore-like region analyses.PloS one · 2010Article
- Spatial epigenetic control of mono- and bistable gene expression.PLoS biology · 2010Article
- On the spontaneous stochastic dynamics of a single gene: complexity of the molecular interplay at the promoter.BMC systems biology · 2010Article
- Chromatin: linking structure and function in the nucleolus.Chromosoma · 2009Review
- Feature context-dependency and complexity-reduction in probability landscapes for integrative genomics.Theoretical biology & medical modelling · 2008Article
- Gene regulatory network inference using out of equilibrium statistical mechanics.HFSP journal · 2008Article
- Probability landscapes for integrative genomics.Theoretical biology & medical modelling · 2008Article
- Generation of synthetic transcriptome data with defined statistical properties for the development and testing of new analysis methods.Genomics, proteomics & bioinformatics · 2007Article
- Systems biology meets chromatin function: a report on the Fourth Elmau Conference on Nuclear Organization.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2007Article
- High-sensitivity transcriptome data structure and implications for analysis and biologic interpretation.Genomics, proteomics & bioinformatics · 2006Article
- Chromatin physics: Replacing multiple, representation-centered descriptions at discrete scales by a continuous, function-dependent self-scaled model.The European physical journal. E, Soft matter · 2006Review
- The chromatin regulatory code: beyond a histone code.The European physical journal. E, Soft matter · 2006Article
- Chromatin fiber functional organization: some plausible models.The European physical journal. E, Soft matter · 2006Article
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2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Chromatin is a, if not the, hallmark of eukaryotic life. Any molecular process entailing genomic DNA or the nucleus by default provokes or depends on chromatin structural dynamics on various space and time scales. Chromatin dynamics are result of changes in the physico-chemical properties of the chromatin constituents themselves or the nuclear environment. Chromatin has been found in the former case to undergo many different covalent enzyme-mediated chemical modifications. Their identification sheds light on the molecular mechanisms and the physico-chemical properties underlying chromatin dynamics, and allows the development of quantitative models for the chromatin fiber. The abundance of the different modifications, their dynamics, and short- as well as long-range correlation phenomena between different modifications also point to a second layer of genomic coding implemented at the level of chromatin. Especially, gene regulatory coding seems to depend on such a second-level code. The information-theoretical properties of chromatin in the context of gene regulatory coding are discussed. A model for the emergence of cellular differentiation from the intricate interplay between genomic and chromatin code is presented and discussed in light of recent experimental insights.
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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.