Multiscale 3D Genome Rewiring during Mouse Neural Development
Bonev, Boyan, Mendelson Cohen, Netta, Szabo, Quentin, Fritsch, Lauriane, Papadopoulos, Giorgio L., Lubling, Yaniv, Xu, Xiaole, Lv, Xiaodan +3 more·2017·Cell
Cited by (1,000)
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- Human Body Single-Cell Atlas of 3D Genome Organization and DNA MethylationJingtian Zhou, Yue Wu, Hanqing Liu, Wei Tian, Rosa Castanon, Anna Bartlett, Zuolong Zhang, Guocong Yao, Difang Shi, Ben Clock et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
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- Effect of loops on the mean-square displacement of Rouse-model chromatinTianyu Yuan, Hao Yan, Mary Lou P. Bailey, Jessica F. Williams, Ivan Vladimirovich Surovtsev, Megan C. King, S. G. J. Mochrie · 2024 · Physical review. E
- Understanding direct neuronal reprogramming — from pioneer factors to 3D chromatinJovica Ninkovic, Magdalena Götz · 2018 · Current Opinion in Genetics & Development
- HiCBricks: building blocks for efficient handling of large Hi-C datasetsKoustav Pal, Ilario Tagliaferri, Carmen Maria Livi, Francesco Ferrari · 2019 · Bioinformatics
- From 3D organization of the genome to gene expressionAviv Elimelech, Ramon Y. Birnbaum · 2020 · Current Opinion in Systems Biology
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- HCMB: A stable and efficient algorithm for processing the normalization of highly sparse Hi-C contact dataHonglong Wu, Xuebin Wang, Mengtian Chu, Dongfang Li, Lixin Cheng, Ke Zhou · 2021 · Computational and Structural Biotechnology Journal
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- Building regulatory landscapes: enhancer recruits cohesin to create contact domains, engage CTCF sites and activate distant genesRinzema, Niels J., Sofiadis, Konstantinos, Tjalsma, Sjoerd J. D., Verstegen, Marjon J.A.M., Oz, Yuva, Valdes-Quezada, Christian, Felder, Anna-Karina, Filipovska, Teodora, van der Elst, Stefan, de Andrade dos Ramos, Zaria et al. · 2021
- The Human Accelerated Region HAR202 Controls <i>NPAS3</i> Expression in the Developing Forebrain Displaying Differential Enhancer Activity Between Modern and Archaic Human SequencesCaporale, Alfredo Leandro, Cinalli, Alejandro R, Rubinstein, Marcelo, Franchini, Lucía F · 2024 · Molecular Biology and Evolution
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- Pervasive RNA-binding protein enrichment on TAD boundaries regulates TAD organizationQiang Sun, Qin Zhou, Yulong Qiao, Xiaona Chen, Hao Sun, Huating Wang · 2024 · Nucleic Acids Research
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- Single-cell dynamics of genome-nucleolus interactions captured by nucleolar laser microdissection (NoLMseq)Kaivalya Walavalkar, Shivani Gupta, Jelena Kresoja‐Rakic, Mathieu Raingeval, Chiara Mungo, Philip D. Rubin, Raffaella Santoro · 2025 · Nature Communications
- Of Dots and Stripes: The Morse Code of Micro-C Reveals the Ultrastructure of Transcriptional and Architectural Mammalian 3D Genome OrganizationLi‐Hsin Chang, Daan Noordermeer · 2020 · Molecular Cell
- SnapFISH: a computational pipeline to identify chromatin loops from multiplexed DNA FISH dataLindsay Lee, Hongyu Yu, B. Jia, Adam P. Jussila, Chenxu Zhu, Jia-Wen Chen, Liang-Qi Xie, Antonina Hafner, Shreya Mishra, Duan-Qing Wang et al. · 2022 · bioRxiv
- The remote transcriptional control of Hox genesClaudia Gentile, Marie Kmita · 2018 · The International Journal of Developmental Biology
- Interrogating cell type-specific cooperation of transcriptional regulators in 3D chromatinXianfu Yi, Zhanye Zheng, Hang Xu, Yao Zhou, Dandan Huang, Jianhua Wang, Xiangling Feng, Ke Zhao, Xutong Fan, Shijie Zhang et al. · 2021 · iScience
- Rare Does Not Mean Worthless: How Rare Diseases Have Shaped Neurodevelopment Research in the NGS EraMattia Zaghi, Federica Banfi, Edoardo Niccolò Bellini, Alessandro Sessa · 2021 · Biomolecules
- TADreg: a versatile regression framework for TAD identification, differential analysis and rearranged 3D genome predictionRaphaël Mourad · 2022 · BMC Bioinformatics
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- scHiCEmbed: Bin-Specific Embeddings of Single-Cell Hi-C Data Using Graph Auto-EncodersTong Liu, Zheng Wang · 2022 · Genes
- DFHiC: a dilated full convolution model to enhance the resolution of Hi-C dataBin Wang, Kun Liu, Yaohang Li, Jianxin Wang · 2023 · Bioinformatics
- Ultrafine mapping of chromosome conformation at hundred basepair resolution reveals regulatory genome architectureYizhou Zhu, Michael G. Rosenfeld, Yousin Suh · 2023 · Proceedings of the National Academy of Sciences
- Spatial orchestration of the genome: topological reorganisation during X-chromosome inactivationAlexandra Martitz, Edda G. Schulz · 2024 · Current Opinion in Genetics & Development
- TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcriptionGuangyu Wang, Qingshu Meng, Bo Xia, Shuo Zhang, Jie Lv, Dongyu Zhao, Yanqiang Li, Xin Wang, Lili Zhang, John P. Cooke et al. · 2020 · Genome biology
- Bifractal nature of chromosome contact mapsSimone Pigolotti A, Mogens H. Jensen, Yinxiu Zhan, Guido Tiana · 2020 · Physical Review Research
- Recombination of repeat elements generates somatic complexity in human genomesGiovanni Pascarella, Kosuke Hashimoto, Annika Busch, Joachim Luginbühl, Callum Parr, Chung-Chau Hon, Wing Hin Yip, K. Abe, Anton Kratz, Alessandro Bonetti et al. · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- SOX11 is a lineage-dependency factor and master epigenetic regulator in neuroblastomaBieke Decaesteker, Amber Louwagie, Siebe Loontiens, Fanny De Vloed, Juliette Roels, Suzanne Vanhauwaert, Sara De Brouwer, Ellen Sanders, Geertrui Denecker, Eva D’haene et al. · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
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- Loop extrusion creates rare, long-lived encounters underlying enhancer-promoter communicationMattia Alberto Ubertini, Nessim Louafi, Kristina Landry, Pavel I. Kos, Grégory Roth, Edoardo Marchi, Julie Cramard, Guido Tiana, Luca Giorgetti · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Dynamic barriers modulate cohesin positioning and genome folding at fixed occupancyRahmaninejad, Hadi, Xiao, Yao, Tortora, Maxime M.C., Fudenberg, Geoffrey · 2025 · Genome Research
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- Evolutionary analysis of gene ages across TADs associates chromatin topology with whole-genome duplicationsCaelinn James, Marco Trevisán-Herraz, David Juan, Daniel Rico · 2024 · Cell Reports
- Pushing the TAD boundary: Decoding insulator codes of clustered CTCF sites in 3D genomesHaiyan Huang, Qiang Wu · 2024 · BioEssays
- Uncovering topologically associating domains from three-dimensional genome maps with TADGATEDachang Dang, Shao-Wu Zhang, Kangning Dong, Ran Duan, Shihua Zhang · 2024 · Nucleic Acids Research
- FISHnet: detecting chromatin domains in single-cell sequential Oligopaints imaging dataRohan V. Patel, Kenneth Pham, Harshini Chandrashekar, Jennifer E. Phillips‐Cremins · 2025 · Nature Methods
- Klf5-adjacent super-enhancer functions as a 3D genome structure-dependent transcriptional driver to safeguard ESC identityGuangsong Su, Bohan Chen, Yingjie Song, Qingqing Yin, Wenbin Wang, Xueyuan Zhao, Sibo Fan, Jie Lian, Dongqing Li, Jinfang Bi et al. · 2025 · Nature Communications
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- 3D Genome Plasticity in Normal and Diseased NeurodevelopmentAmara L. Plaza-Jennings, Aditi Valada, Schahram Akbarian · 2022 · Genes
- scENCORE: leveraging single-cell epigenetic data to predict chromatin conformation using graph embeddingZiheng Duan, Siwei Xu, Shushrruth Sai Srinivasan, Ahyeon Hwang, Che-Yu Lee, Feng Yue, Mark Gerstein, Yu Luan, Matthew J. Girgenti, Jing Zhang · 2024 · Briefings in Bioinformatics
- R Tutorial: Detection of Differentially Interacting Chromatin Regions From Multiple Hi‐C DatasetsJohn C. Stansfield, Duc Tran, Tin Nguyen, Mikhail G. Dozmorov · 2019 · Current Protocols in Bioinformatics
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- Emerging Roles of Single-Cell Multi-Omics in Studying Developmental Temporal PatterningAndrea Lopes, Elia Magrinelli, Ludovic Telley · 2020 · International Journal of Molecular Sciences
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