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1
A TAD Skeptic: Is 3D Genome Topology Conserved?
Trends Genet. 2021 Mar;37(3):216-223. doi: 10.1016/j.tig.2020.10.009. Epub 2020 Nov 14.
3
3D genome evolution and reorganization in the Drosophila melanogaster species group.
PLoS Genet. 2020 Dec 7;16(12):e1009229. doi: 10.1371/journal.pgen.1009229. eCollection 2020 Dec.
4
The role of 3D chromatin domains in gene regulation: a multi-facetted view on genome organization.
Curr Opin Genet Dev. 2020 Apr;61:1-8. doi: 10.1016/j.gde.2020.02.015. Epub 2020 Mar 19.
6
TADKB: Family classification and a knowledge base of topologically associating domains.
BMC Genomics. 2019 Mar 14;20(1):217. doi: 10.1186/s12864-019-5551-2.
7
Mode and Tempo of 3D Genome Evolution in Drosophila.
Mol Biol Evol. 2022 Nov 3;39(11). doi: 10.1093/molbev/msac216.
8
TAD disruption as oncogenic driver.
Curr Opin Genet Dev. 2016 Feb;36:34-40. doi: 10.1016/j.gde.2016.03.008. Epub 2016 Apr 22.
9
Topologically associating domains and their role in the evolution of genome structure and function in .
Genome Res. 2021 Mar;31(3):397-410. doi: 10.1101/gr.266130.120. Epub 2021 Feb 9.
10
Active chromatin and transcription play a key role in chromosome partitioning into topologically associating domains.
Genome Res. 2016 Jan;26(1):70-84. doi: 10.1101/gr.196006.115. Epub 2015 Oct 30.

引用本文的文献

1
TAD conservation in vertebrate genomes is driven by stabilising selection.
BMC Biol. 2025 Aug 5;23(1):241. doi: 10.1186/s12915-025-02362-0.
2
Paradigm Lost.
Cancers (Basel). 2025 Jun 28;17(13):2187. doi: 10.3390/cancers17132187.
6
Uncovering topologically associating domains from three-dimensional genome maps with TADGATE.
Nucleic Acids Res. 2025 Feb 8;53(4). doi: 10.1093/nar/gkae1267.
8
The 3D Genome in Brain Development: An Exploration of Molecular Mechanisms and Experimental Methods.
Neurosci Insights. 2024 Oct 29;19:26331055241293455. doi: 10.1177/26331055241293455. eCollection 2024.
9
Three-dimensional chromatin reorganization regulates B cell development during ageing.
Nat Cell Biol. 2024 Jun;26(6):991-1002. doi: 10.1038/s41556-024-01424-9. Epub 2024 Jun 12.

本文引用的文献

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On the existence and functionality of topologically associating domains.
Nat Genet. 2020 Jan;52(1):8-16. doi: 10.1038/s41588-019-0561-1. Epub 2020 Jan 10.
2
Defining Functionally Relevant Spatial Chromatin Domains: It is a TAD Complicated.
J Mol Biol. 2020 Feb 7;432(3):653-664. doi: 10.1016/j.jmb.2019.12.006. Epub 2019 Dec 18.
3
A Conserved Noncoding Locus Regulates Random Monoallelic Xist Expression across a Topological Boundary.
Mol Cell. 2020 Jan 16;77(2):352-367.e8. doi: 10.1016/j.molcel.2019.10.030. Epub 2019 Nov 20.
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Analysis of the structural variability of topologically associated domains as revealed by Hi-C.
NAR Genom Bioinform. 2020 Mar;2(1). doi: 10.1093/nargab/lqz008. Epub 2019 Sep 30.
5
TADs as the Caller Calls Them.
J Mol Biol. 2020 Feb 7;432(3):638-642. doi: 10.1016/j.jmb.2019.09.026. Epub 2019 Oct 23.
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Decreased Enhancer-Promoter Proximity Accompanying Enhancer Activation.
Mol Cell. 2019 Nov 7;76(3):473-484.e7. doi: 10.1016/j.molcel.2019.07.038. Epub 2019 Sep 4.
7
Biased gene retention during diploidization in Brassica linked to three-dimensional genome organization.
Nat Plants. 2019 Aug;5(8):822-832. doi: 10.1038/s41477-019-0479-8. Epub 2019 Aug 5.
8
Reorganization of 3D genome structure may contribute to gene regulatory evolution in primates.
PLoS Genet. 2019 Jul 19;15(7):e1008278. doi: 10.1371/journal.pgen.1008278. eCollection 2019 Jul.
9
Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression.
Nat Genet. 2019 Aug;51(8):1272-1282. doi: 10.1038/s41588-019-0462-3. Epub 2019 Jul 15.
10
Comparing 3D Genome Organization in Multiple Species Using Phylo-HMRF.
Cell Syst. 2019 Jun 26;8(6):494-505.e14. doi: 10.1016/j.cels.2019.05.011.

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