ArticleChromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology2012
The radial nuclear positioning of genes correlates with features of megabase-sized chromatin domains.
Article in Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology, 2012. 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, 45 citations in OpenAlex.
- Major nuclear locales define nuclear genome organization and function beyond A and B compartments.eLife · 2025Article
- Nuclear Compartments: An Incomplete Primer to Nuclear Compartments, Bodies, and Genome Organization Relative to Nuclear Architecture.Cold Spring Harbor perspectives in biology · 2022Review
- Nonequilibrium Biophysical Processes Influence the Large-Scale Architecture of the Cell Nucleus.Biophysical journal · 2020Article
- Gene expression amplification by nuclear speckle association.The Journal of cell biology · 2020Article
- Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler.The Journal of cell biology · 2018Article
- Epichromatin and chromomeres: a 'fuzzy' perspective.Open biology · 2018Review
- Transcription-dependent radial distribution of TCF7L2 regulated genes in chromosome territories.Chromosoma · 2017Article
- A new model of sperm nuclear architecture following assessment of the organization of centromeres and telomeres in three-dimensions.Scientific reports · 2017Article
- Gene functioning and storage within a folded genome.Cellular & molecular biology letters · 2017Review
- Active chromatin and transcription play a key role in chromosome partitioning into topologically associating domains.Genome research · 2016Article
- Chromosome territory repositioning induced by PHA-activation of lymphocytes: A 2D and 3D appraisal.Molecular cytogenetics · 2015Article
- Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization.Genes & development · 2014Article
- Two ways to fold the genome during the cell cycle: insights obtained with chromosome conformation capture.Epigenetics & chromatin · 2014Review
- Positional changes of a pluripotency marker gene during structural reorganization of fibroblast nuclei in cloned early bovine embryos.Nucleus (Austin, Tex.) · 2014Article
- Identification of alternative topological domains in chromatin.Algorithms for molecular biology : AMB · 2014Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A nonrandom radial nuclear organization of genes has been well documented. This study provides further evidence that radial positioning depends on features of corresponding ∼1 Mbp chromatin domains (CDs), which represent the basic units of higher-order chromatin organization. We performed a quantitative three-dimensional analysis of the radial nuclear organization of three genes located on chromosome 1 in a DG75 Burkitt lymphoma-derived cell line. Quantitative real-time polymerase chain reaction revealed similar transcription levels for the three selected genes, whereas the total expression strength (TES) calculated as the sum of transcription of all genes annotated within a surrounding window of about 1 Mbp DNA differed for each region. Radial nuclear position of the studied CDs correlated with TES, i.e., the domain with the highest TES occupied the most interior position. Positions of CDs with stable TES values were stably maintained even under experimental conditions, resulting in genome-wide changes of the expression levels of many other genes. Our results strongly support the hypothesis that knowledge of the local chromatin environment is essential to predict the radial nuclear position of a gene.
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