ReviewNature genetics2018
Challenges and guidelines toward 4D nucleome data and model standards.
Review in Nature genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 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
28 citing papers in PubMed.
- Article
- CGeNArateWeb: a web server for the atomistic study of the structure and dynamics of chromatin fibers.Nucleic acids research · 2025Article
- Physical models of bacterial chromosomes.Molecular microbiology · 2025Review
- The genome in space and time comes of age.Nucleus (Austin, Tex.) · 2024Article
- Power-law behavior of transcriptional bursting regulated by enhancer-promoter communication.Genome research · 2024Article
- 4D nucleome equation predicts gene expression controlled by long-range enhancer-promoter interaction.PLoS computational biology · 2023Article
- Large-scale data-driven and physics-based models offer insights into the relationships among the structures, dynamics, and functions of chromosomes.Journal of molecular cell biology · 2023Review
- Gene regulatory network inference in the era of single-cell multi-omics.Nature reviews. Genetics · 2023Review
- Review
- Dynamics and Pathways of Chromosome Structural Organizations during Cell Transdifferentiation.JACS Au · 2022Article
- Biology and Model Predictions of the Dynamics and Heterogeneity of Chromatin-Nuclear Lamina Interactions.Frontiers in cell and developmental biology · 2022Review
- Regulatory Architecture of the RCA Gene Cluster Captures an Intragenic TAD Boundary, CTCF-Mediated Chromatin Looping and a Long-Range Intergenic Enhancer.Frontiers in immunology · 2022Article
- The existence of a nonclassical TCA cycle in the nucleus that wires the metabolic-epigenetic circuitry.Signal transduction and targeted therapy · 2021Article
- Understanding 3D genome organization by multidisciplinary methods.Nature reviews. Molecular cell biology · 2021Review
- 4D nucleome modeling.Current opinion in genetics & development · 2021Review
- The Nucleome Data Bank: web-based resources to simulate and analyze the three-dimensional genome.Nucleic acids research · 2021Article
- FISH Going Meso-Scale: A Microscopic Search for Chromatin Domains.Frontiers in cell and developmental biology · 2021Review
- Are the processes of DNA replication and DNA repair reading a common structural chromatin unit?Nucleus (Austin, Tex.) · 2020Review
- Insulator-based loops mediate the spreading of H3K27me3 over distant micro-domains repressing euchromatin genes.Genome biology · 2020Article
- Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
14 authors.
Funding
Abstract
Due to recent advances in experimental and theoretical approaches, the dynamic three-dimensional organization (3D) of the nucleus has become a very active area of research in life sciences. We now understand that the linear genome is folded in ways that may modulate how genes are expressed during the basic functioning of cells. Importantly, it is now possible to build 3D models of how the genome folds within the nucleus and changes over time (4D). Because genome folding influences its function, this opens exciting new possibilities to broaden our understanding of the mechanisms that determine cell fate. However, the rapid evolution of methods and the increasing complexity of data can result in ambiguity and reproducibility challenges, which may hamper the progress of this field. Here, we describe such challenges ahead and provide guidelines to think about strategies for shared standardized validation of experimental 4D nucleome data sets and models.
Indexed as
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30262815What 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.