Comprehensive 3D epigenomic maps define limbal stem/progenitor cell function and identity
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DOI: 10.1038/s41467-022-28966-6
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- Jesse R. Dixon & Siddarth Selvaraj & Feng Yue & Audrey Kim & Yan Li & Yin Shen & Ming Hu & Jun S. Liu & Bing Ren, 2012. "Topological domains in mammalian genomes identified by analysis of chromatin interactions," Nature, Nature, vol. 485(7398), pages 376-380, May.
- Yichao Cai & Ying Zhang & Yan Ping Loh & Jia Qi Tng & Mei Chee Lim & Zhendong Cao & Anandhkumar Raju & Erez Lieberman Aiden & Shang Li & Lakshmanan Manikandan & Vinay Tergaonkar & Greg Tucker-Kellogg , 2021. "H3K27me3-rich genomic regions can function as silencers to repress gene expression via chromatin interactions," Nature Communications, Nature, vol. 12(1), pages 1-22, December.
- Soufiane Boumahdi & Gregory Driessens & Gaelle Lapouge & Sandrine Rorive & Dany Nassar & Marie Le Mercier & Benjamin Delatte & Amélie Caauwe & Sandrine Lenglez & Erwin Nkusi & Sylvain Brohée & Isabell, 2014. "SOX2 controls tumour initiation and cancer stem-cell functions in squamous-cell carcinoma," Nature, Nature, vol. 511(7508), pages 246-250, July.
- Rene C. Adam & Hanseul Yang & Shira Rockowitz & Samantha B. Larsen & Maria Nikolova & Daniel S. Oristian & Lisa Polak & Meelis Kadaja & Amma Asare & Deyou Zheng & Elaine Fuchs, 2015. "Pioneer factors govern super-enhancer dynamics in stem cell plasticity and lineage choice," Nature, Nature, vol. 521(7552), pages 366-370, May.
- Mingsen Li & Huaxing Huang & Lingyu Li & Chenxi He & Liqiong Zhu & Huizhen Guo & Li Wang & Jiafeng Liu & Siqi Wu & Jingxin Liu & Tao Xu & Zhen Mao & Nan Cao & Kang Zhang & Fei Lan & Junjun Ding & Jin , 2021. "Core transcription regulatory circuitry orchestrates corneal epithelial homeostasis," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
- Jasmin M. Siegle & Alice Basin & Ana Sastre-Perona & Yoshiya Yonekubo & Jessie Brown & Rachel Sennett & Michael Rendl & Aristotelis Tsirigos & John A. Carucci & Markus Schober, 2014. "SOX2 is a cancer-specific regulator of tumour initiating potential in cutaneous squamous cell carcinoma," Nature Communications, Nature, vol. 5(1), pages 1-12, December.
- Alessandro Magli & June Baik & Pruthvi Pota & Carolina Ortiz Cordero & Il-Youp Kwak & Daniel J. Garry & Paul E. Love & Brian D. Dynlacht & Rita C. R. Perlingeiro, 2019. "Pax3 cooperates with Ldb1 to direct local chromosome architecture during myogenic lineage specification," Nature Communications, Nature, vol. 10(1), pages 1-17, December.
- Soohwan Oh & Jiaofang Shao & Joydeep Mitra & Feng Xiong & Matteo D’Antonio & Ruoyu Wang & Ivan Garcia-Bassets & Qi Ma & Xiaoyu Zhu & Joo-Hyung Lee & Sreejith J. Nair & Feng Yang & Kenneth Ohgi & Kelly, 2021. "Enhancer release and retargeting activates disease-susceptibility genes," Nature, Nature, vol. 595(7869), pages 735-740, July.
- Yingyao Zhou & Bin Zhou & Lars Pache & Max Chang & Alireza Hadj Khodabakhshi & Olga Tanaseichuk & Christopher Benner & Sumit K. Chanda, 2019. "Metascape provides a biologist-oriented resource for the analysis of systems-level datasets," Nature Communications, Nature, vol. 10(1), pages 1-10, December.
- Emily Crane & Qian Bian & Rachel Patton McCord & Bryan R. Lajoie & Bayly S. Wheeler & Edward J. Ralston & Satoru Uzawa & Job Dekker & Barbara J. Meyer, 2015. "Condensin-driven remodelling of X chromosome topology during dosage compensation," Nature, Nature, vol. 523(7559), pages 240-244, July.
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