ArticleJournal of cell science2008
Replication-timing-correlated spatial chromatin arrangements in cancer and in primate interphase nuclei.
Article in Journal of cell science, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed, 58 citations in OpenAlex.
- The Chromatin Organization Close to SNP rs12913832, Involved in Eye Color Variation, Is Evolutionary Conserved in Vertebrates.International journal of molecular sciences · 2024Article
- Correlative single molecule lattice light sheet imaging reveals the dynamic relationship between nucleosomes and the local chromatin environment.Nature communications · 2024Article
- Nuclear architecture and the structural basis of mitotic memory.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2023Review
- Multilevel view on chromatin architecture alterations in cancer.Frontiers in genetics · 2022Review
- Chromosomal Rearrangements and Altered Nuclear Organization: Recent Mechanistic Models in Cancer.Cancers · 2021Review
- Review
- GPSeq reveals the radial organization of chromatin in the cell nucleus.Nature biotechnology · 2020Article
- Radial Organization in the Mammalian Nucleus.Frontiers in genetics · 2020Review
- Article
- The Three-Dimensional Organization of Mammalian Genomes.Annual review of cell and developmental biology · 2017Review
- Genomic properties of chromosomal bands are linked to evolutionary rearrangements and new centromere formation in primates.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2017Article
- Understanding Spatial Genome Organization: Methods and Insights.Genomics, proteomics & bioinformatics · 2016Review
- An Overview of Genome Organization and How We Got There: from FISH to Hi-C.Microbiology and molecular biology reviews : MMBR · 2015Review
- Embryonic stem cell specific "master" replication origins at the heart of the loss of pluripotency.PLoS computational biology · 2015Article
- Distinct nuclear orientation patterns for mouse chromosome 11 in normal B lymphocytes.BMC cell biology · 2014Article
- Alterations in replication timing of cancer-related genes in malignant human breast cancer cells.Journal of cellular biochemistry · 2013Article
- Human genome replication proceeds through four chromatin states.PLoS computational biology · 2013Article
- IMACULAT - an open access package for the quantitative analysis of chromosome localization in the nucleus.PloS one · 2013Article
- 3D chromatin conformation correlates with replication timing and is conserved in resting cells.Nucleic acids research · 2012Article
- The radial nuclear positioning of genes correlates with features of megabase-sized chromatin domains.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
Abstract
Using published high-resolution data on S-phase replication timing, we determined the three-dimensional (3D) nuclear arrangement of 33 very-early-replicating and 31 very-late-replicating loci. We analyzed diploid human, non-human primate and rearranged tumor cells by 3D fluorescence in situ hybridization with the aim of investigating the impact of chromosomal structural changes on the nuclear organization of these loci. Overall, their topology was found to be largely conserved between cell types, species and in tumor cells. Early-replicating loci were localized in the nuclear interior, whereas late-replicating loci showed a broader distribution with a higher preference for the periphery than for late-BrdU-incorporation foci. However, differences in the spatial arrangement of early and late loci of chromosome 2, as compared with those from chromosome 5, 7 and 17, argue against replication timing as a major driving force for the 3D radial genome organization in human lymphoblastoid cell nuclei. Instead, genomic properties, and local gene density in particular, were identified as the decisive parameters. Further detailed comparisons of chromosome 7 loci in primate and tumor cells suggest that the inversions analyzed influence nuclear topology to a greater extent than the translocations, thus pointing to geometrical constraints in the 3D conformation of a chromosome territory.
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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.