Active genes dynamically colocalize to shared sites of ongoing transcription

By Cameron S. Osborne, L. Chakalova, K. Brown, David R F Carter, Alice Horton, E. Debrand, B. Goyenechea, Jennifer A. Mitchell, Susana Lopes, Wolf Reik and 1 more. Nature Genetics, 2004

1,109 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/b99dcd1b1de1483113756a629489012d0bb96f91

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Citations in the corpus

Beyond the sequence: cellular organization of genome function. (2007, positive): “Initial evidence for spatial clustering of RNA pol II-transcribed genes in mammalian cells has recently come from the observation of colocalization of coordinately activated genes in erythroid cells (Osborne et al., 2004).”
A t(1;19)(q10;p10) mediates the combined deletions of 1p and 19q and predicts a better prognosis of patients with oligodendroglioma. (2006, background): “Recent evidence suggests that chromosomes (including chromosomal centromeres) are organized into a specific intranuclear anatomy that is cell type and developmental stage specific (30, 31).”
A decade of 3C technologies: insights into nuclear organization. (2012, background): “In yeast, loops form on genes when they are either active or poised, but not when they are repressed (O’Sullivan et al. 2004).”
Liquid phase condensation in cell physiology and disease (2017, background): “Although their material states and assembly are still poorly understood, transcription factories as well as repressive polycomb group (PcG) bodies also seem to harbor multiple genomic loci for coregulation of several related genes, which is crucial for proper developmental processes (152, 153).”
Functional and mechanistic diversity of distal transcription enhancers (2011, positive): “Transcription factories have been proposed to underlie the observation that active gene loci distributed across single chromosomesor even located on separate chromosomes tend to colocalize in the nucleus (Osborne et al., 2004; Simonis et al., 2006).”
Stochastic gene expression and its consequences (2008, background): “Another point to consider is that transcription doesn't take place in a uniform fashion throughout the genome but is concentrated in transcriptional " factories " (Jackson et al., 1993; Wansink et al., 1993) to which active genes are recruited (Osborne et al., 2004).”
Complex multi-enhancer contacts captured by Genome Architecture Mapping (GAM) (2017, positive): “Remarkably, the top TAD triplets are also enriched for contacts formed between highly transcribed TADs, or combinations of SE and highly transcribed TADs, consistent with previous observations that active genes co-localize42,43 and that gene-rich R bands cluster44 in mammalian nuclei.”
Intermingling of Chromosome Territories in Interphase Suggests Role in Translocations and Transcription-Dependent Associations (2006, background): “chromosomeshavebeen reported [17,18],whichare reminiscent”
The genomic complexity of primary human prostate cancer (2011, neutral): “Conceivably, such a phenomenon could reflect migration to “transcription factories”—preassembled nuclear subcompartments that contain RNA polymerase II holoenzyme 30 .”
Chromatin organization by an interplay of loop extrusion and compartmental segregation (2017, background): “Spatial segregation is further supported by imaging of individual loci (5, 6) and whole compartmental segments (7).”
Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions (2006, background): “Three different sequences representing interactions present only in undifferentiated cells (1), in both differentiated and undifferentiated cells (2) or only in differentiated cells (3) were picked and hybridized with 4C samples from undifferentiated and differentiated ES cells.”