ReviewBiophysics reviews2021
Self-organization of whole-gene expression through coordinated chromatin structural transition.
Review in Biophysics reviews, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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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.
The trial behind it
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
19 citing papers in PubMed.
- Role of frustrations in cell reprogramming.PNAS nexus · 2025Article
- Structural-Scaling Transitions and Criticality Cascade in DNA with Open States.International journal of molecular sciences · 2025Article
- Phase Separation in Chromatin Organization and Human Diseases.International journal of molecular sciences · 2025Review
- Genomic-Thermodynamic Phase Synchronization: Maxwell's Demon-like Regulation of Cell Fate Transition.International journal of molecular sciences · 2025Article
- Impact of Gold Nanoparticles and Ionizing Radiation on Whole Chromatin Organization as Detected by Single-Molecule Localization Microscopy.International journal of molecular sciences · 2024Article
- PeculiarGenes · 2024Article
- Synchronization between Attractors: Genomic Mechanism of Cell-Fate Change.International journal of molecular sciences · 2023Review
- Self-Regulated Symmetry Breaking Model for Stem Cell Differentiation.Entropy (Basel, Switzerland) · 2023Article
- Spatial-Temporal Genome Regulation in Stress-Response and Cell-Fate Change.International journal of molecular sciences · 2023Review
- Article
- Advanced image-free analysis of the nano-organization of chromatin and other biomolecules by Single Molecule Localization Microscopy (SMLM).Computational and structural biotechnology journal · 2023Article
- Single-cell transcriptional uncertainty landscape of cell differentiation.F1000Research · 2023Article
- Analysis of Dormancy-Associated Transcriptional Networks Reveals a Shared Quiescence Signature in Lung and Colorectal Cancer.International journal of molecular sciences · 2022Article
- A multivariate statistical test for differential expression analysis.Scientific reports · 2022Article
- Life Entrapped in a Network of Atavistic Attractors: How to Find a Rescue.International journal of molecular sciences · 2022Review
- The Eco-Evo Mandala: Simplifying Bacterioplankton Complexity into Ecohealth Signatures.Entropy (Basel, Switzerland) · 2021Article
- Study on attractors during organism evolution.Scientific reports · 2021Article
- Differentiating cancer cells reveal early large-scale genome regulation by pericentric domains.Biophysical journal · 2021Article
- Cell-Fate Determination from Embryo to Cancer Development: Genomic Mechanism Elucidated.International journal of molecular sciences · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The human DNA molecule is a 2-m-long polymer collapsed into the micrometer space of the cell nucleus. This simple consideration rules out any "Maxwell demon"-like explanation of regulation in which a single regulatory molecule (e.g., a transcription factor) finds autonomously its way to the particular target gene whose expression must be repressed or enhanced. A gene-by-gene regulation is still more contrasting with the physical reality when in the presence of cell state transitions involving the contemporary expression change of thousands of genes. This state of affair asks for a statistical mechanics inspired approach where specificity arises from a selective unfolding of chromatin driving the rewiring of gene expression pattern. The arising of "expression waves" marking state transitions related to chromatin structural reorganization through self-organized critical control of whole-genome expression will be described in the present paper. We adopt as a model system the gene expression time course of a cancer cell (MCF-7) population exposed to an efficient stimulus causing a state transition in comparison with an ineffective stimulus. The obtained results will be put into the perspective of biological adaptive systems living on the edge of chaos.
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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.