Comparison of computational methods for the identification of topologically associating domains by Marie Zufferey, Daniele Tavernari, Elisa Oricchio, Giovanni Ciriello

Subjects: “…Topologically associating domain…”
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SuperTAD: robust detection of hierarchical topologically associated domains with optimized structural information by Yu Wei Zhang, Meng Bo Wang, Shuai Cheng Li

Subjects: “…Topologically associating domain…”
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Three‐dimensional genome structure and function by Hao Liu, Hsiangyu Tsai, Maoquan Yang, Guozhi Li, Qian Bian, Gang Ding, Dandan Wu, Jiewen Dai

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Pattern recognition of topologically associating domains using deep learning by Jhen Yuan Yang, Jia-Ming Chang

Subjects: “…Topologically associating domain…”
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Forces driving the three‐dimensional folding of eukaryotic genomes by Alvaro Rada‐Iglesias, Frank G Grosveld, Argyris Papantonis

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Case report: Management of pediatric gigantism caused by the TADopathy, X-linked acrogigantism by Manuela Caruso, Diego Mazzatenta, Diego Mazzatenta, Sofia Asioli, Sofia Asioli, Giuseppe Costanza, Giampaolo Trivellin, Giampaolo Trivellin, Martin Franke, Dayana Abboud, Julien Hanson, Véronique Raverot, Patrick Pétrossians, Albert Beckers, Marco Cappa, Adrian F. Daly

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Capture Hi-C reveals the influence on dynamic three-dimensional chromosome organization perturbed by genetic variation or vanillin stress in Saccharomyces cerevisiae by Xinning Wang, Xinning Wang, Bolun Yang, Weiquan Zhao, Wenyan Cao, Yu Shen, Zailu Li, Xiaoming Bao

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Transcription-coupled structural dynamics of topologically associating domains regulate replication origin efficiency by Yongzheng Li, Boxin Xue, Mengling Zhang, Liwei Zhang, Yingping Hou, Yizhi Qin, Haizhen Long, Qian Peter Su, Yao Wang, Xiaodong Guan, Yanyan Jin, Yuan Cao, Guohong Li, Yujie Sun

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Mysteries of gene regulation: Promoters are not the sole triggers of gene expression by Chi-Nga Chow, Kuan-Chieh Tseng, Ping-Fu Hou, Nai-Yun Wu, Tzong-Yi Lee, Wen-Chi Chang

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TAD-like single-cell domain structures exist on both active and inactive X chromosomes and persist under epigenetic perturbations by Yubao Cheng, Miao Liu, Mengwei Hu, Siyuan Wang

Subjects: “…Topologically associating domain (TAD)…”
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The generation of PD-L1 and PD-L2 in cancer cells: From nuclear chromatin reorganization to extracellular presentation by Zhiwei Fan, Changyue Wu, Miaomiao Chen, Yongying Jiang, Yuanyuan Wu, Renfang Mao, Yihui Fan

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Reconstructing high-resolution chromosome three-dimensional structures by Hi-C complex networks by Tong Liu, Zheng Wang

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InTAD: chromosome conformation guided analysis of enhancer target genes by Konstantin Okonechnikov, Serap Erkek, Jan O. Korbel, Stefan M. Pfister, Lukas Chavez

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A Topological Cluster of Differentially Regulated Genes in Mice Lacking PER3 by Daan R. Van der Veen, Emma E. Laing, Sung-Eun Bae, Jonathan D. Johnston, Derk-Jan Dijk, Derk-Jan Dijk, Simon N. Archer

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Exploring mammalian chromatin architecture and its impact on gene regulation by Long, HS

Subjects: “…Topologically associating domains…”

Emerging regulatory mechanisms of noncoding RNAs in topologically associating domains by Yeo, Samuel Jianjie, Ying, Chen, Fullwood, Melissa Jane, Tergaonkar, Vinay

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Glucocorticoid stimulation induces regionalized gene responses within topologically associating domains by Christophe Tav, Christophe Tav, Christophe Tav, Éric Fournier, Éric Fournier, Éric Fournier, Michèle Fournier, Michèle Fournier, Fatemeh Khadangi, Fatemeh Khadangi, Audrey Baguette, Maxime C. Côté, Maxime C. Côté, Maruhen A. D. Silveira, Maruhen A. D. Silveira, Félix-Antoine Bérubé-Simard, Félix-Antoine Bérubé-Simard, Guillaume Bourque, Guillaume Bourque, Arnaud Droit, Arnaud Droit, Arnaud Droit, Arnaud Droit, Steve Bilodeau, Steve Bilodeau, Steve Bilodeau, Steve Bilodeau

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TADMaster: a comprehensive web-based tool for the analysis of topologically associated domains by Sean Higgins, Victor Akpokiro, Allen Westcott, Oluwatosin Oluwadare

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HPTAD: A computational method to identify topologically associating domains from HiChIP and PLAC-seq datasets by Jonathan Rosen, Lindsay Lee, Armen Abnousi, Jiawen Chen, Jia Wen, Ming Hu, Yun Li

Subjects: “…Topologically associating domains (TADs)…”
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A computational method to predict topologically associating domain boundaries combining histone Marks and sequence information by Wei Gan, Juan Luo, Yi Zhou Li, Jia Li Guo, Min Zhu, Meng Long Li

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