Projects per year
Abstract
Our aim is to predict how often genic and non-genic promoters fire within a cell. We first review a parsimonious pan-genomic model for genome organization and gene regulation, where transcription rate is determined by proximity in 3D space of promoters to clusters containing appropriate factors and RNA polymerases. This model reconciles conflicting results indicating that regulatory mammalian networks are both simple (as over-expressing just 4 transcription factors switches cell state) and complex (as genome-wide association studies show phenotypes like cell type are determined by thousands of loci rarely encoding such factors). We then present 3D polymer simulations, and a proximity formula based on our biological model that enables prediction of transcriptional activities of all promoters in three human cell types. This simple fitting-free formula contains just one variable (distance on the genetic map to the nearest active promoter), and we suggest it can in principle be applied to any organism.
Original language | English |
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Article number | 111218 |
Pages (from-to) | 1-16 |
Number of pages | 16 |
Journal | iScience |
Volume | 27 |
Issue number | 12 |
Early online date | 22 Oct 2024 |
DOIs | |
Publication status | Published - 20 Dec 2024 |
Keywords / Materials (for Non-textual outputs)
- Biological sciences
- Data processing in systems biology
- Natural sciences
- Systems biology
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Dive into the research topics of 'A unified-field theory of genome organization and gene regulation'. Together they form a unique fingerprint.Projects
- 1 Finished
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THREEDCELLPHYSICS: The physics of three dimensional chromosome and protein organisation within the cell
Marenduzzo, D. (Principal Investigator)
1/07/15 → 30/06/20
Project: Research