ArticleJournal of cell science2010
Integrating one-dimensional and three-dimensional maps of genomes.
Article in Journal of cell science, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 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
35 citing papers in PubMed, 61 citations in OpenAlex.
- Machine and Deep Learning Methods for Predicting 3D Genome Organization.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Article
- Chromatin Landscape Governing Murine Epidermal Differentiation.The Journal of investigative dermatology · 2023Article
- Deciphering hierarchical organization of topologically associated domains through change-point testing.BMC bioinformatics · 2021Article
- Three-dimensional genome: developmental technologies and applications in precision medicine.Journal of human genetics · 2020Article
- Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance.Nature communications · 2019Article
- Spatial Cell Disparity in the Colonial ChoanoflagellateFrontiers in cell and developmental biology · 2019Article
- Entropic effect of macromolecular crowding enhances binding between nucleosome clutches in heterochromatin, but not in euchromatin.Scientific reports · 2018Article
- ChromoTrace: Computational reconstruction of 3D chromosome configurations for super-resolution microscopy.PLoS computational biology · 2018Article
- Review
- Small chromosomal regions position themselves autonomously according to their chromatin class.Genome research · 2017Article
- Article
- Expression of the DYRK1A gene correlates with its 3D positioning in the interphase nucleus of Down syndrome cells.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2015Article
- Inferential modeling of 3D chromatin structure.Nucleic acids research · 2015Article
- The embryo as a laboratory: quantifying transcription in Drosophila.Trends in genetics : TIG · 2014Review
- Sizing and shaping the nucleus: mechanisms and significance.Current opinion in cell biology · 2014Review
- p63 and Brg1 control developmentally regulated higher-order chromatin remodelling at the epidermal differentiation complex locus in epidermal progenitor cells.Development (Cambridge, England) · 2014Article
- DNA methylation reader MECP2: cell type- and differentiation stage-specific protein distribution.Epigenetics & chromatin · 2014Article
- Genomic Architecture may Influence Recurrent Chromosomal Translocation Frequency in the Igh Locus.Frontiers in immunology · 2013Review
- Remodeling of three-dimensional organization of the nucleus during terminal keratinocyte differentiation in the epidermis.The Journal of investigative dermatology · 2013Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Genomes exist in vivo as complex physical structures, and their functional output (i.e. the gene expression profile of a cell) is related to their spatial organization inside the nucleus as well as to local chromatin status. Chromatin modifications and chromosome conformation are distinct in different tissues and cell types, which corresponds closely with the diversity in gene-expression patterns found in different tissues of the body. The biological processes and mechanisms driving these general correlations are currently the topic of intense study. An emerging theme is that genome compartmentalization - both along the linear length of chromosomes, and in three dimensions by the spatial colocalization of chromatin domains and genomic loci from across the genome - is a crucial parameter in regulating genome expression. In this Commentary, we propose that a full understanding of genome regulation requires integrating three different types of data: first, one-dimensional data regarding the state of local chromatin - such as patterns of protein binding along chromosomes; second, three-dimensional data that describe the population-averaged folding of chromatin inside cells and; third, single-cell observations of three-dimensional spatial colocalization of genetic loci and trans factors that reveal information about their dynamics and frequency of colocalization.
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.