Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters

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    Marta Casado-Peláez, Alberto Bueno-Costa, Manel Esteller · 2022 · Trends in cancer
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    Stefan Schoenfelder, Biola M. Javierre, Mayra Furlan-Magaril, Steven Wingett, Peter Fraser · 2018 · Journal of Visualized Experiments
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    Audrey C. Woerner, Renata C. Gallagher, Jerry E. Vockley, Aashish N. Adhikari · 2021 · Frontiers in Pediatrics
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    Zhuo Chen, Feng Miao, Barbara H. Braffett, John M. Lachin, Lingxiao Zhang, Xiwei Wu, Delnaz Roshandel, Melanie A. Carless, Xuejun Arthur Li, Joshua D. Tompkins et al. · 2020 · Nature Metabolism
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    Maria Rigau, David Juan, Alfonso Valencia, Daniel Rico · 2019 · PLoS Genetics
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    Xiaofeng Chen, Dong‐Li Zhu, Man Gil Yang, Wei‐Xin Hu, Yuan-Yuan Duan, Bing-Jie Lü, Yu Rong, Shan‐Shan Dong, Ruo-Han Hao, Jiabin Chen et al. · 2018 · The American Journal of Human Genetics
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    Aguet, François, Alasoo, Kaur, Li, Yang I., Battle, Alexis, Im, Hae Kyung, Montgomery, Stephen B., Lappalainen, Tuuli · 2023 · Nature Reviews Methods Primers
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    Chakraborty, Abhijit, Ay, Ferhat · 2018 · Bioinformatics
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    Matthew Traylor, Daniel J. Tozer, Iain David Croall, D Ford, Abiodun Olubunmi Olorunda, Giorgio Battista Boncoraglio, Martin Dichgans, Robin Lemmens, Jonathan M. Rosand, Natalia S. Rost et al. · 2019 · Neurology
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    Micaela Elisa Consens, Cameron Dufault, Michael Wainberg, Duncan Forster, Mehran Karimzadeh, Hani Goodarzi, Fabian Joachim Theis, Alan M Moses, Bo Wang · 2025 · Nature Machine Intelligence
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    Binbin Lai, Qingsong Tang, Wenfei Jin, Gangqing Hu, Darawalee Wangsa, Kairong Cui, Benjamin Z. Stanton, Gang Ren, Yi Ding, Ming Zhao et al. · 2018 · Nature Methods
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    Jacqueline L. Norrie, Marybeth S. Lupo, Beisi Xu, Issam Aldiri, Marc B. Valentine, Daniel K. Putnam, Lyra M. Griffiths, Jiakun Zhang, Dianna A. Johnson, John B. Easton et al. · 2019 · Neuron
30. Transcription Factor-Directed Re-Wiring of Chromatin Architecture for Somatic Cell Nuclear Reprogramming Toward Trans-differentiation
    Alessandra Dall’Agnese, Luca Caputo, C. Nicoletti, J. di Iulio, A. Schmitt, Sole Gatto, Yarui Diao, Zhen Ye, M. Forcato, Ranjan J. Perera et al. · 2019 · Molecules and Cells
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    Chun Su, Matthew E. Johnson, Annabel Torres, Rajan M. Thomas, Elisabetta Manduchi, Prabhat Kumar Sharma, Parul Mehra, Carole Le Coz, Michelle E. Leonard, Sumei Lu et al. · 2020 · Nature Communications
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    Phuc H. Hoang, Sara E. Dobbins, Alex J. Cornish, Daniel Chubb, Philip Law, Martin Kaiser, Richard S. Houlston · 2018 · Leukemia
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    Zhong Zhuang, Xiaotong Shen, Wei Pan · 2019 · Bioinformatics
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    Jayaram Vijayakrishnan, Maoxiang Qian, James B. Studd, Wenjian Yang, Ben Kinnersley, Philip Law, Peter Broderick, Elizabeth A. Raetz, James M. Allan, Ching‐Hon Pui et al. · 2019 · Nature Communications
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    Nanni, Luca, Ceri, Stefano, Logie, Colin · 2020 · Genome Biology
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    Simone Ecker, Véra Pancaldi, Alfonso Valencia, Stephan Beck, Dirk S. Paul · 2017 · BioEssays
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    Zhuoxin Chen, Valentina Snetkova, Grace Bower, Sandra H. Jacinto, Ben Clock, Atrin Dizehchi, Iros Barozzi, Brandon J. Mannion, Ana Alcaina‐Caro, Javier López-Rı́os et al. · 2024 · Nature Genetics
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    Jonathan S. Packer, Cole Trapnell · 2018 · Trends in Genetics
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    Katarzyna Placek, Joachim Ludwig Schultze, Anna C. Aschenbrenner · 2019 · Journal of Clinical Investigation
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    Cecília Pessoa Rodrigues, Maria Shvedunova, Asifa Akhtar · 2020 · Trends in Genetics
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    Luca Bello, Elena Pegoraro · 2019 · Journal of Clinical Medicine
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    Álvaro Rada-Iglesias, Frank G. Grosveld, Argyris Papantonis · 2018 · Molecular Systems Biology
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    Ting Qi, Liyang Song, Yazhou Guo, Chang Chen, Jian Yang · 2024 · Trends in Genetics
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    Ray-Jones, Helen, Spivakov, Mikhail · 2021 · Cellular and Molecular Life Sciences
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    Marazzi, Ivan, Greenbaum, Benjamin D., Low, Diana H. P., Guccione, Ernesto · 2018 · Nature Reviews Molecular Cell Biology
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    Chun Su, Long Gao, Catherine Lee May, James A. Pippin, Keith D. Boehm, Michelle Lee, Chengyang Liu, Matthew C. Pahl, Maria L. Golson, Ali Naji et al. · 2022 · Cell Metabolism
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    Si-Yuan Kong, Yubo Zhang · 2019 · Cell Biology and Toxicology
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    Burren, Oliver S., Rubio García, Arcadio, Javierre, Biola-Maria, Rainbow, Daniel B., Cairns, Jonathan, Cooper, Nicholas J., Lambourne, John J., Schofield, Ellen, Castro Dopico, Xaquin, Ferreira, Ricardo C. et al. · 2017 · Genome Biology
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    Xiaolin Wei, Xiang Yu, Derek Peters, Choiselle Marius, Tongyu Sun, Ruocheng Shan, Jianhong Ou, Xin Lin, Feng Yue, Wei Li et al. · 2022 · Molecular Cell
50. Widespread Enhancer Activity from Core Promoters
    Medina-Rivera, Alejandra, Santiago-Algarra, David, Puthier, Denis, Spicuglia, Salvatore · 2018 · Trends in Biochemical Sciences
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    Denis M. Nyaga, Mark Hedley Vickers, Craig Jefferies, Jo Kate Perry, Justin Martin O'Sullivan · 2018 · Molecular and Cellular Endocrinology
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    Hume Stroud, Marty G. Yang, Yael N. Tsitohay, Christopher P. Davis, Maxwell A. Sherman, Siniša Hrvatin, Emi Ling, Michael E. Greenberg · 2020 · Neuron
53. Multi-level remodelling of chromatin underlying activation of human T cells
    Naiara G. Bediaga, Hannah D. Coughlan, Timothy M. Johanson, Alexandra L. Garnham, Gaetano Naselli, Jan Schröder, Liam G. Fearnley, Esther Bandala‐Sanchez, Rhys S. Allan, Gordon K. Smyth et al. · 2021 · Scientific Reports
54. Three-dimensional genome architecture and emerging technologies: looping in disease
    A. Mishra, R. Hawkins · 2017 · Genome Medicine
55. Multimodal profiling of the transcriptional regulatory landscape of the developing mouse cortex identifies Neurog2 as a key epigenome remodeler
    Florian Noack, Silvia Vangelisti, Gerald Raffl, Madalena Carido, Jeisimhan Diwakar, Faye Chong, Boyan Bonev · 2022 · Nature Neuroscience
56. Interpreting non-coding disease-associated human variants using single-cell epigenomics
    Kyle J. Gaulton, Sebastian Preißl, Bing Ren · 2023 · Nature Reviews Genetics
57. Understanding the 3D genome: Emerging impacts on human disease
    Anton Krumm, Zhijun Duan · 2018 · Seminars in Cell and Developmental Biology
58. Epigenomic drivers of immune dysfunction in aging
    Christine R. Keenan, Rhys S. Allan · 2018 · Aging Cell
59. Mammalian Transcription Factor Networks: Recent Advances in Interrogating Biological Complexity
    Wilkinson, Adam C., Nakauchi, Hiromitsu, Göttgens, Berthold · 2017 · Cell Systems
60. Transcription-dependent cohesin repositioning rewires chromatin loops in cellular senescence
    Olan, Ioana, Parry, Aled J., Schoenfelder, Stefan, Narita, Masako, Ito, Yoko, Chan, Adelyne S. L., Slater, Guy St.C., Bihary, Dóra, Bando, Masashige, Shirahige, Katsuhiko et al. · 2020 · Nature Communications
61. Deconvolution of bulk blood eQTL effects into immune cell subpopulations
    Raúl Aguirre‐Gamboa, Niek de Klein, Jennifer Di Tommaso, Annique Claringbould, Monique G.P. van der Wijst, Dylan H. de Vries, Harm Brugge, Roy Oelen, Urmo Võsa, Maria Magdalena Zorro et al. · 2020 · BMC Bioinformatics
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    Lihua Zhang, Jing Zhang, Qing Hua Nie · 2022 · Science Advances
63. tagHi-C Reveals 3D Chromatin Architecture Dynamics during Mouse Hematopoiesis.
    Chao Zhang, Zihan Xu, Shang-Da Yang, Guo-Huan Sun, L. Jia, Zhaofeng Zheng, Quan Gu, W. Tao, T. Cheng, Cheng Li et al. · 2020 · Cell Reports
64. Promoter capture Hi-C-based identification of recurrent noncoding mutations in colorectal cancer
    Giulia Orlando, Philip Law, Alex J. Cornish, Sara E. Dobbins, Daniel Chubb, Peter Broderick, Kevin Litchfield, Fadi Hariri, Tomi Pastinen, Cameron S. Osborne et al. · 2018 · Nature Genetics
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    Si-Wei Deng, Yu-Liang Feng, S. Pauklin · 2022 · Journal of Hematology & Oncology
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    Charles G. Danko, Lauren A. Choate, Brooke A. Marks, Edward J. Rice, Zhong Wang, Tinyi Chu, Andre L. Martins, Noah Dukler, Scott Alexander Coonrod, Elia D. Tait Wojno et al. · 2018 · Nature Ecology & Evolution
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    Jing Yang, Amanda McGovern, Paul Martin, Kate Duffus, Xiangyu Jack Ge, Peyman Zarrineh, Andrew P. Morris, Antony D. Adamson, Peter Fraser, Magnus Rattray et al. · 2020 · Nature Communications
68. Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells
    Kousuke Mouri, Michael H. Guo, Carl G. de Boer, Michelle M. Lissner, Ingrid A. Harten, Gregory A. Newby, Hannah A. DeBerg, Winona F. Platt, Matteo Gentili, David R. Liu et al. · 2022 · Nature Genetics
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    Mun‐Kit Choy, Biola M. Javierre, Simon G. Williams, Stephanie L. Baross, Yingjuan Liu, Steven Wingett, Artur Akbarov, Chris Wallace, Paula Freire-Pritchett, Peter J. Rugg‐Gunn et al. · 2018 · Nature Communications
70. Approaches and advances in the genetic causes of autoimmune disease and their implications
    Inshaw, Jamie R. J., Cutler, Antony J., Burren, Oliver S., Stefana, M. Irina, Todd, John A. · 2018 · Nature Immunology
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    Marina Aznaourova, Nils Schmerer, Bernd Schmeck, Leon N. Schulte · 2020 · Frontiers in Genetics
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    Reza K. Hammond, Matthew C. Pahl, Chun Su, Diana L. Cousminer, Michelle E. Leonard, Sumei Lu, Claudia A. Doege, Yadav Wagley, Kenyaita M. Hodge, Chiara Lasconi et al. · 2021 · eLife
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    Eliza C. Miller, Ashley Wilczek, Natalie Ann Bello, Sarah E. Tom, Ronald J. Wapner, Yousin Suh · 2021 · Ageing Research Reviews
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    Yun Li, Ming Hu, Yin Shen · 2018 · Human Molecular Genetics
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    Shanshan Zhang, Dylan Plummer, Leina Lu, Jian Cui, Wanying Xu, Miao Wang, Xiaoxiao Liu, Nachiketh Prabhakar, Jatin Shrinet, Divyaa Srinivasan et al. · 2022 · Nature Genetics
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    Marit Willemijn Vermunt, Di Zhang, Gerd A. Blobel · 2018 · The Journal of Cell Biology
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    Barthélémy Caron, Yufei Luo, Antonio Rausell · 2019 · Genome biology
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    Richard A. Voit, Liming Tao, Fulong Yu, Liam D. Cato, Blake Cohen, Travis J. Fleming, Mateusz Antoszewski, Xiaotian Liao, Claudia Fiorini, Satish Kumar Nandakumar et al. · 2022 · Nature Immunology
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    Sneha Mitra, Ro Malik, Wilfred Wong, Afsana Rahman, Alexander J. Hartemink, Yuri Pritykin, Kushal K. Dey, Christina S. Leslie · 2024 · Nature Genetics
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    Greeshma Ray, Michelle S. Longworth · 2018 · Inflammatory Bowel Diseases
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    H. Efsun Arda, Jennifer Tsai, Yenny Rosli, Paul G. Giresi, Rita Bottino, William James Greenleaf, Howard Y. Chang, Seung K. Kim · 2018 · Cell Systems
85. Tissue-specific enhancer–gene maps from multimodal single-cell data identify causal disease alleles
    Saori Sakaue, Kathryn Weinand, Shakson Isaac, Kushal K. Dey, Karthik A. Jagadeesh, Masahiro Kanai, Gerald F. M. Watts, Zhu Zhu, Accelerating Medicines Partnership® RA/SLE Program and Network, Jennifer Albrecht et al. · 2024 · Nature Genetics
86. Chromatin priming of genes in development: Concepts, mechanisms and consequences
    Constanze Bonifer, Peter N. Cockerill · 2017 · Experimental Hematology
87. Genetic-Driven Druggable Target Identification and Validation
    Matteo Floris, Stefania Olla, David Schlessinger, Francesco Cucca · 2018 · Trends in Genetics
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    Kousik Kundu, Manuel Tardáguila, Alice Mann, Stephen Watt, Hannes Ponstingl, Louella J. Vasquez, Dominique Von Schiller, Nicholas W. Morrell, Oliver Stegle, Tomi Pastinen et al. · 2022 · Nature Genetics
89. High‐resolution mapping of cancer cell networks using co‐functional interactions
    Evan A. Boyle, Jonathan K. Pritchard, William James Greenleaf · 2018 · Molecular Systems Biology
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    Haifeng Wang, Mengting Han, Lei S. Qi · 2021 · Nature Reviews Genetics
91. Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas
    D. Hübschmann, K. Kleinheinz, R. Wagener, S. Bernhart, C. López, U. Toprak, Stephanie Sungalee, Naveed Ishaque, H. Kretzmer, M. Kreuz et al. · 2021 · Leukemia
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    Silvert, Martin, Quintana-Murci, Lluis, Rotival, Maxime · 2019 · The American Journal of Human Genetics
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    Ilias Boltsis, Frank G. Grosveld, Guillaume Giraud, Petros Kolovos · 2021 · Frontiers in Cell and Developmental Biology
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    Romina Petersen, John J. Lambourne, Biola M. Javierre, Luigi Grassi, Roman Kreuzhuber, Dace Ruklisa, Isabel M. Rosa, Ana R. Tomé, Heather Elding, Johanna P. van Geffen et al. · 2017 · Nature Communications
95. Divergent wiring of repressive and active chromatin interactions between mouse embryonic and trophoblast lineages
    Schoenfelder, Stefan, Mifsud, Borbala, Senner, Claire E., Todd, Christopher D., Chrysanthou, Stephanie, Darbo, Elodie, Hemberger, Myriam, Branco, Miguel R. · 2018 · Nature Communications
96. Genetic perturbation of PU.1 binding and chromatin looping at neutrophil enhancers associates with autoimmune disease
    Watt, Stephen, Vasquez, Louella, Walter, Klaudia, Mann, Alice L., Kundu, Kousik, Chen, Lu, Sims, Ying, Ecker, Simone, Burden, Frances, Farrow, Samantha et al. · 2021 · Nature Communications
97. Recent advances in understanding the genetic basis of systemic lupus erythematosus
    Eunji Ha, Sang‐Cheol Bae, Kwang-Woo Kim · 2021 · Seminars in Immunopathology
98. Multimodal single-cell datasets characterize antigen-specific CD8+ T cells across SARS-CoV-2 vaccination and infection
    Bingjie Zhang, Rabi Upadhyay, Yuhan Hao, Marie I. Samanovic, Ramin S. Herati, John D. Blair, Jordan E. Axelrad, Mark J. Mulligan, Dan R. Littman, Rahul Satija · 2023 · Nature Immunology
99. Human monocyte-to-macrophage differentiation involves highly localized gain and loss of DNA methylation at transcription factor binding sites
    Koen F. Dekkers, Annette E. Neele, J. Wouter Jukema, Bastiaan T. Heijmans, Menno P.J. de Winther · 2019 · Epigenetics & Chromatin
100. Differential expression and regulation of MS4A family members in myeloid cells in physiological and pathological conditions
     Rita Silva-Gomes, Sarah N. Mapelli, Marie‐Astrid Boutet, Irene Mattiola, Marina Sironi, Fabio Grizzi, Federico Colombo, Domenico Supino, Silvia Carnevale, Fabio Pasqualini et al. · 2021 · Journal of Leukocyte Biology