Guo-Cheng Yuan (Guocheng Yuan)

ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 31

Top Venues

Nature communications

Genome biology

Nature biotechnology

Nature

Dana-Farber Cancer Institute

University of Maryland (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Dana-Farber Cancer Institute Aug 15 2006

United States

Associate Professor :: Biostatistics and Computational Biology

Education History

University of Maryland Sep 01 1994 - May 25 1999

United States

PHD

Publications

Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M Schlaeger, Guo-Cheng Yuan, Stuart H Orkin
Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions. Nature communications 15 (1) (2024)
Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M Schlaeger, Guo-Cheng Yuan, Stuart H Orkin
Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions. Nature communications 15 (1) (2024)
Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M Schlaeger, Guo-Cheng Yuan, Stuart H Orkin
Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions. Nature communications 15 (1) (2024)
Michal Polonsky, Louisa M S Gerhardt, Jina Yun, Kari Koppitch, Katsuya Lex Colón, Henry Amrhein, Barbara J Wold, Shiwei Zheng, Guo-Cheng Yuan, Matt Thomson, Long Cai, Andrew P McMahon
Spatial transcriptomics defines injury specific microenvironments and cellular interactions in kidney regeneration and disease. Nature communications 15 (1) (2024)
Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M Schlaeger, Guo-Cheng Yuan, Stuart H Orkin
Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions. Nature communications 15 (1) (2024)
Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M Schlaeger, Guo-Cheng Yuan, Stuart H Orkin
Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions. Nature communications 15 (1) (2024)
Kaiyi Zhu, Jaroslav Bendl, Samir Rahman, James M Vicari, Claire Coleman, Tereza Clarence, Ovaun Latouche, Nadejda M Tsankova, Aiqun Li, Kristen J Brennand, Donghoon Lee, Guo-Cheng Yuan, John F Fullard, Panagiotis Roussos
Multi-omic profiling of the developing human cerebral cortex at the single-cell level. Science advances 9 (41) (2023)
Renying Wang, Peijing Zhang, Jingjing Wang, Lifeng Ma, Weigao E, Shengbao Suo, Mengmeng Jiang, Jiaqi Li, Haide Chen, Huiyu Sun, Lijiang Fei, Ziming Zhou, Yincong Zhou, Yao Chen, Weiqi Zhang, Xinru Wang, Yuqing Mei, Zhongyi Sun, Chengxuan Yu, Jikai Shao, Yuting Fu, Yanyu Xiao, Fang Ye, Xing Fang, Hanyu Wu, Qile Guo, Xiunan Fang, Xia Li, Xianzhi Gao, Dan Wang, Peng-Fei Xu, Rui Zeng, Gang Xu, Lijun Zhu, Lie Wang, Jing Qu, Dan Zhang, Hongwei Ouyang, He Huang, Ming Chen, Shyh-Chang Ng, Guang-Hui Liu, Guo-Cheng Yuan, Guoji Guo, Xiaoping Han
Construction of a cross-species cell landscape at single-cell level. Nucleic acids research (2022)
Natalie Del Rossi, Jiaji G Chen, Guo-Cheng Yuan, Ruben Dries
Analyzing Spatial Transcriptomics Data Using Giotto. Current protocols 2 (4) (2022)
Ruben Dries, Jiaji Chen, Natalie Del Rossi, Mohammed Muzamil Khan, Adriana Sistig, Guo-Cheng Yuan
Advances in spatial transcriptomic data analysis. Genome research 31 (10) (2022)
Soumya Badrinath, Maxence O Dellacherie, Aileen Li, Shiwei Zheng, Xixi Zhang, Miguel Sobral, Jason W Pyrdol, Kathryn L Smith, Yuheng Lu, Sabrina Haag, Hamza Ijaz, Fawn Connor-Stroud, Tsuneyasu Kaisho, Glenn Dranoff, Guo-Cheng Yuan, David J Mooney, Kai W Wucherpfennig
A vaccine targeting resistant tumours by dual T cell plus NK cell attack. Nature 606 (7916) (2022)
Rui Dong, Guo-Cheng Yuan
SpatialDWLS: accurate deconvolution of spatial transcriptomic data. Genome biology 22 (1) (2021)
Nan Liu, Shuqian Xu, Qiuming Yao, Qian Zhu, Yan Kai, Jonathan Y Hsu, Phraew Sakon, Luca Pinello, Guo-Cheng Yuan, Daniel E Bauer, Stuart H Orkin
Transcription factor competition at the γ-globin promoters controls hemoglobin switching. Nature genetics 53 (4) (2021)
Yodai Takei, Jina Yun, Shiwei Zheng, Noah Ollikainen, Nico Pierson, Jonathan White, Sheel Shah, Julian Thomassie, Shengbao Suo, Chee-Huat Linus Eng, Mitchell Guttman, Guo-Cheng Yuan, Long Cai
Integrated spatial genomics reveals global architecture of single nuclei. Nature 590 (7845) (2021)
Yan Kai, Bin E Li, Ming Zhu, Grace Y Li, Fei Chen, Yingli Han, Hye Ji Cha, Stuart H Orkin, Wenqing Cai, Jialiang Huang, Guo-Cheng Yuan
Mapping the evolving landscape of super-enhancers during cell differentiation. Genome biology 22 (1) (2021)
Ruben Dries, Qian Zhu, Rui Dong, Chee-Huat Linus Eng, Huipeng Li, Kan Liu, Yuntian Fu, Tianxiao Zhao, Arpan Sarkar, Feng Bao, Rani E George, Nico Pierson, Long Cai, Guo-Cheng Yuan
Giotto: a toolbox for integrative analysis and visualization of spatial expression data. Genome biology 22 (1) (2021)
Yodai Takei, Shiwei Zheng, Jina Yun, Sheel Shah, Nico Pierson, Jonathan White, Simone Schindler, Carsten H Tischbirek, Guo-Cheng Yuan, Long Cai
Single-cell nuclear architecture across cell types in the mouse brain. Science (New York, N.Y.) 374 (6567) (2021)
Jiahuan Chen, Xiaodong Liang, Shasha Zhang, Shiyan Wang, Sara P Garcia, Pengyi Yan, Huijing Yu, Zixuan Li, Li Liu, Fang Zhang, Weiting Wei, Huangying Le, Yan Zhang, Guo-Cheng Yuan, Sun Chen, Yingwei Chen, Kun Sun, William T Pu, Bing Zhang
Two faces of bivalent domain regulate VEGFA responsiveness and angiogenesis. Cell death & disease 11 (1) (2020)
Daphne Tsoucas, Rui Dong, Haide Chen, Qian Zhu, Guoji Guo, Guo-Cheng Yuan
Accurate estimation of cell-type composition from gene expression data. Nature communications 10 (1) (2019)
Brynn N Akerberg, Fei Gu, Nathan J VanDusen, Xiaoran Zhang, Rui Dong, Kai Li, Bing Zhang, Bin Zhou, Isha Sethi, Qing Ma, Lauren K Wasson, Tong Wen, Jinhua Liu, Kunzhe Dong, Frank L Conlon, Jiliang Zhou, Guo-Cheng Yuan, Pingzhu Zhou, William T Pu
A reference map of murine cardiac transcription factor chromatin occupancy identifies dynamic and conserved enhancers. Nature communications 10 (1) (2019)
Qian Zhu, Nan Liu, Stuart H Orkin, Guo-Cheng Yuan
CUT&RUNTools: a flexible pipeline for CUT&RUN processing and footprint analysis. Genome biology 20 (1) (2019)
Huidong Chen, Luca Albergante, Jonathan Y Hsu, Caleb A Lareau, Giosue' Lo Bosco, Jihong Guan, Shuigeng Zhou, Alexander N Gorban, Daniel E Bauer, Martin J Aryee, David M Langenau, Andrei Zinovyev, Jason D Buenrostro, Guo-Cheng Yuan, Luca Pinello
Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM. Nature communications 10 (1) (2019)
Malgorzata Krajewska, Ruben Dries, Andrew V Grassetti, Sofia Dust, Yang Gao, Hao Huang, Bandana Sharma, Daniel S Day, Nicholas Kwiatkowski, Monica Pomaville, Oliver Dodd, Edmond Chipumuro, Tinghu Zhang, Arno L Greenleaf, Guo-Cheng Yuan, Nathanael S Gray, Richard A Young, Matthias Geyer, Scott A Gerber, Rani E George
CDK12 loss in cancer cells affects DNA damage response genes through premature cleavage and polyadenylation. Nature communications 10 (1) (2019)
Luca Pinello, Matthew C Canver, Megan D Hoban, Stuart H Orkin, Donald B Kohn, Daniel E Bauer, Guo-Cheng Yuan
Analyzing CRISPR genome-editing experiments with CRISPResso. Nature biotechnology 34 (7) (2018)
Kimberly Glass, Derek Thibault, Feng Guo, Jennifer A Mitchel, Betty Pham, Weiliang Qiu, Yan Li, Zhiqiang Jiang, Peter J Castaldi, Edwin K Silverman, Benjamin Raby, Jin-Ah Park, Guo-Cheng Yuan, Xiaobo Zhou
Integrative epigenomic analysis in differentiated human primary bronchial epithelial cells exposed to cigarette smoke. Scientific reports 8 (1) (2018)
Jialiang Huang, Kailong Li, Wenqing Cai, Xin Liu, Yuannyu Zhang, Stuart H Orkin, Jian Xu, Guo-Cheng Yuan
Dissecting super-enhancer hierarchy based on chromatin interactions. Nature communications 9 (1) (2018)
Yuxuan Guo, Blake D Jardin, Pingzhu Zhou, Isha Sethi, Brynn N Akerberg, Christopher N Toepfer, Yulan Ai, Yifei Li, Qing Ma, Silvia Guatimosim, Yongwu Hu, Grigor Varuzhanyan, Nathan J VanDusen, Donghui Zhang, David C Chan, Guo-Cheng Yuan, Christine E Seidman, Jonathan G Seidman, William T Pu
Hierarchical and stage-specific regulation of murine cardiomyocyte maturation by serum response factor. Nature communications 9 (1) (2018)
Qian Zhu, Sheel Shah, Ruben Dries, Long Cai, Guo-Cheng Yuan
Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data. Nature biotechnology (2018)
Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis, Guo-Cheng Yuan
Multi-scale chromatin state annotation using a hierarchical hidden Markov model. Nature communications 8 (2017)
Daosheng Huang, Guoji Guo, Ping Yuan, Amy Ralston, Lingang Sun, Mikael Huss, Tapan Mistri, Luca Pinello, Huck Hui Ng, Guo-Cheng Yuan, Junfeng Ji, Eszter Posfai, Paul Robson, Xiaoping Han
The role of Cdx2 as a lineage specific transcriptional repressor for pluripotent network during the first developmental cell lineage segregation. Scientific reports 7 (1) (2017)
Jing Ni, Shakti H Ramkissoon, Shaozhen Xie, Shom Goel, Daniel G Stover, Hanbing Guo, Victor Luu, Eugenio Marco, Lori A Ramkissoon, Yun Jee Kang, Marika Hayashi, Quang-De Nguyen, Azra H Ligon, Rose Du, Elizabeth B Claus, Brian M Alexander, Guo-Cheng Yuan, Zhigang C Wang, J Dirk Iglehart, Ian E Krop, Thomas M Roberts, Eric P Winer, Nancy U Lin, Keith L Ligon, Jean J Zhao
Combination inhibition of PI3K and mTORC1 yields durable remissions in mice bearing orthotopic patient-derived xenografts of HER2-positive breast cancer brain metastases. Nature medicine 22 (7) (2016)

Guo-Cheng Yuan.css-eqlu8i{font-size:small;padding-left:4px;} (Guocheng Yuan)

Publication Activity (10 Years)

Top Topics

Top Venues

Guo-Cheng Yuan (Guocheng Yuan)