ArticleThe Journal of cell biology2003
Clustering of multiple specific genes and gene-rich R-bands around SC-35 domains: evidence for local euchromatic neighborhoods.
Article in The Journal of cell biology, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 116 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
116 citing papers in PubMed.
- Nuclear speckles: a fundamental layer of gene regulation.Trends in cell biology · 2026Review
- Genome folding and nuclear speckles converge to orchestrate fibroblast activation.Science advances · 2026Article
- Coordination of nuclear RNA processing by speckle-localized kinase TAOK2.Genes & development · 2026Article
- Endogenous Real Time Imaging Reveals Dynamic Chromosomal Mobility During Ligand-Mediated Transcriptional Burst Events.bioRxiv : the preprint server for biology · 2025Article
- Emerging Functions of the Repeat Genome in Nuclear Structure: A View from the Human Karyotype.Annual review of genomics and human genetics · 2025Review
- Nuclear speckles regulate functional programs in cancer.Nature cell biology · 2025Article
- Cytogenetic bands and sharp peaks of Alu underlie large-scale segmental regulation of nuclear genome architecture.Nucleus (Austin, Tex.) · 2024Article
- Long non-coding RNAs: roles in cellular stress responses and epigenetic mechanisms regulating chromatin.Nucleus (Austin, Tex.) · 2024Review
- Nuclear speckle biology: At the cross-roads of discovery and functional analysis.Current opinion in cell biology · 2024Review
- Epigenetic regulatory layers in the 3D nucleus.Molecular cell · 2024Review
- Differences in Alu vs L1-rich chromosome bands underpin architectural reorganization of the inactive-X chromosome and SAHFs.bioRxiv : the preprint server for biology · 2024Article
- Early chromosome condensation by XIST builds A-repeat RNA density that facilitates gene silencing.Cell reports · 2023Article
- Mammalian nuclear speckles exhibit stable association with chromatin: a biochemical study.Nucleus (Austin, Tex.) · 2022Article
- Transcriptional enhancers at 40: evolution of a viral DNA element to nuclear architectural structures.Trends in genetics : TIG · 2022Review
- Long-distance association of topological boundaries through nuclear condensates.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Alterations to Genome Organisation in Stem Cells, Their Differentiation and Associated Diseases.Results and problems in cell differentiation · 2022Article
- Nuclear compartmentalization as a mechanism of quantitative control of gene expression.Nature reviews. Molecular cell biology · 2021Review
- USP42 drives nuclear speckle mRNA splicing via directing dynamic phase separation to promote tumorigenesis.Cell death and differentiation · 2021Article
- p53 mediates target gene association with nuclear speckles for amplified RNA expression.Molecular cell · 2021Article
- Splicing at the phase-separated nuclear speckle interface: a model.Nucleic acids research · 2021Review
56 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Typically, eukaryotic nuclei contain 10-30 prominent domains (referred to here as SC-35 domains) that are concentrated in mRNA metabolic factors. Here, we show that multiple specific genes cluster around a common SC-35 domain, which contains multiple mRNAs. Nonsyntenic genes are capable of associating with a common domain, but domain "choice" appears random, even for two coordinately expressed genes. Active genes widely separated on different chromosome arms associate with the same domain frequently, assorting randomly into the 3-4 subregions of the chromosome periphery that contact a domain. Most importantly, visualization of six individual chromosome bands showed that large genomic segments ( approximately 5 Mb) have striking differences in organization relative to domains. Certain bands showed extensive contact, often aligning with or encircling an SC-35 domain, whereas others did not. All three gene-rich reverse bands showed this more than the gene-poor Giemsa dark bands, and morphometric analyses demonstrated statistically significant differences. Similarly, late-replicating DNA generally avoids SC-35 domains. These findings suggest a functional rationale for gene clustering in chromosomal bands, which relates to nuclear clustering of genes with SC-35 domains. Rather than random reservoirs of splicing factors, or factors accumulated on an individual highly active gene, we propose a model of SC-35 domains as functional centers for a multitude of clustered genes, forming local euchromatic "neighborhoods."
Indexed as
Identifiers
What OpenQuestion holds
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.