Activation of proto-oncogenes by disruption of chromosome neighborhoods

Hnisz, Denes, Weintraub, Abraham S., Day, Daniel S., Valton, Anne-Laure, Bak, Rasmus O., Li, Charles H., Goldmann, Johanna, Lajoie, Bryan R. +9 more·2016·Science

DOI 10.1126/science.aad9024

Cited by (1,000)

Items 401–500 of 1,000

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Guifang Du, Hao Li, Yang Ding, Shuai Jiang, Hao Hong, Jingbo Gan, Longteng Wang, Yuanping Yang, Yinyin Li, Xin Huang et al. · 2021 · Computational and Structural Biotechnology Journal
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T. Warwick, Marcel H. Schulz, R. Gilsbach, R. P. Brandes, S. Seuter · 2022 · Nucleic Acids Research
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Hsiuyi V. Chen, Michael H. Lorenzini, Shanna N. Lavalle, Karthyayani Sajeev, Ariana Fonseca, Patrick C. Fiaux, Arko Sen, Ishika Luthra, Aaron J. Ho, Aaron R. Chen et al. · 2023 · The American Journal of Human Genetics
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Rachel Patton McCord, Adayabalam S. Balajee · 2018 · Advances in experimental medicine and biology
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Sandip De, Natalie Gehred, Miki Fujioka, Fountane W Chan, James B. Jaynes, Judith A. Kassis · 2020 · Genetics
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Qi Yang, Nian Jiang, Han Zou, Xuning Fan, Tao Liu, Xi Huang, S. Wanggou, Xuejun Li · 2022 · Computational and Structural Biotechnology Journal
Characterization of Structural Variations in the Context of 3D Chromatin Structure.
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Targeted degradation of CTCF decouples local insulation of chromosome domains from higher-order genomic compartmentalization
2016
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Ting Li, Mu‐Yang Huang, Jin‐Jian Lu · 2024 · Chinese Journal of Natural Medicines
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Argyris Papantonis, A. Marieke Oudelaar · 2025 · Annual Review of Genomics and Human Genetics
preciseTAD: a transfer learning framework for 3D domain boundary prediction at base-pair resolution
Spiro Christos Stilianoudakis, Maggie A. Marshall, Mikhail G. Dozmorov · 2021 · Bioinformatics
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Sophie S. Steinhäuser, Patrı́cia Silva, Lennart Lenk, Thomas Beder, Alina Hartmann, Sonja Hänzelmann, Lars R. Fransecky, Martín Neumann, Lorenz Bastian, Simone Lipinski et al. · 2022 · Leukemia
Hi-TrAC detects active sub-TADs and reveals internal organizations of super-enhancers
Yaqiang Cao, Shuai Liu, Kairong Cui, Qingsong Tang, Keji Zhao · 2023 · Nucleic Acids Research
Regulation of chromatin organization during animal regeneration
Xiaohui Jia, Weifeng Lin, Wei Wang · 2023 · Cell Regeneration
Non-Small Cell Lung Cancer Epigenomes Exhibit Altered DNA Methylation in Smokers and Never-Smokers
Jennifer A. Karlow, Erica C. Pehrsson, Xiaoyun Xing, Mark A. Watson, Siddhartha H. K. Devarakonda, Ramaswamy Govindan, Ting Wang · 2023 · Genomics Proteomics & Bioinformatics
Roles of the RUNX1 Enhancer in Normal Hematopoiesis and Leukemogenesis
Wei‐Siang Liau, Phuong Cao Thi Ngoc, Takaomi Sanda · 2017 · Advances in experimental medicine and biology
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Adayabalam S. Balajee, Jacob T. Sanders, Rosela Golloshi, Igor Shuryak, Rachel Patton McCord, Nicholas Dainiak · 2018 · Health Physics
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Emily L. Flam, Ludmila Danilova, Dylan Z. Kelley, Elena D. Stavrovskaya, Theresa W. Guo, Michael Considine, Jiang X. Qian, Joseph A. Califano, Alexander V. Favorov, Elana Judith Fertig et al. · 2019 · Scientific Reports
3DeFDR: statistical methods for identifying cell type-specific looping interactions in 5C and Hi-C data
Lindsey R. Fernandez, Thomas G. Gilgenast, Jennifer E. Phillips‐Cremins · 2020 · Genome biology
Functional and genetic determinants of mutation rate variability in regulatory elements of cancer genomes
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