Joint profiling of chromatin accessibility and gene expression in thousands of single cells

Cao, Junyue, Cusanovich, Darren A., Ramani, Vijay, Aghamirzaie, Delasa, Pliner, Hannah A., Hill, Andrew J., Daza, Riza M., McFaline-Figueroa, Jose L. +6 more·2018·Science

DOI 10.1126/science.aau0730

Cited by (949)

Items 101–200 of 949

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Johann S. Hawe, Fabian Joachim Theis, Matthias Heinig · 2019 · Frontiers in Genetics
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Matthew J. Regner, Kamila Wiśniewska, Susana García‐Recio, Aatish Thennavan, Raúl Méndez-Giráldez, Venkat S. Malladi, Gabrielle M. Hawkins, Joel S. Parker, Charles M. Perou, Victoria Lin Bae-Jump et al. · 2021 · Molecular Cell
Morphology and gene expression profiling provide complementary information for mapping cell state
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Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data
Chunman Zuo, Luonan Chen · 2020 · Briefings in Bioinformatics
Optimized single-nucleus transcriptional profiling by combinatorial indexing
Beth Martin, Chengxiang Qiu, Eva K. Nichols, M. Hoang Phung, Rula Green Gladden, Sanjay R Srivatsan, Ronnie Blecher‐Gonen, Brian J. Beliveau, Cole Trapnell, Junyue Cao et al. · 2022 · Nature Protocols
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Xiaojuan He, Sebastian Memczak, Jing Tao Qu, Juan Carlos Izpisúa Belmonte, Guang‐Hui Liu · 2020 · Nature Metabolism
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Guanwen Liu, Kangquan Yin, Qianwei Zhang, Caixia Gao, Jin‐Long Qiu · 2019 · Genome biology
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Yoon Ha Choi, Jong Kyoung Kim · 2019 · Europe PMC (PubMed Central)
Statistical mechanics meets single-cell biology
Andrew Erich Teschendorff, Andrew P. Feinberg · 2021 · Nature Reviews Genetics
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Nicole R. Stone, Casey A. Gifford, Reuben Thomas, Karishma J. B. Pratt, Kaitlen M Samse, Tamer Mohamed, Ethan M. Radzinsky, Amelia Schricker, Lin Ye, Pengzhi Yu et al. · 2019 · Cell stem cell
Single-cell technologies: From research to application
Lu Wen, Guoqiang Li, Tao Huang, Wei Geng, Hao Pei, Jialiang Yang, Miao Zhu, Pengfei Zhang, Rui Hou, Geng Tian et al. · 2022 · The Innovation
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Wallace, Sebastian J., Tacke, Frank, Schwabe, Robert F., Henderson, Neil C. · 2022 · JHEP Reports
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Yue Julia Wang, Klaus H. Kaestner · 2018 · Cell Metabolism
A Comparative Overview of Epigenomic Profiling Methods
Mahya Mehrmohamadi, Mohammad Hossein Sepehri, Naghme Nazer, Mohammad Reza Norouzi · 2021 · Frontiers in Cell and Developmental Biology
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Wei Qing Xu, Weilong Yang, Yunlong Zhang, Ya‐Wen Chen, Ni Hong, Qian Zhang, Xuefei Julie Wang, Yukun Hu, Kun Song, Wenfei Jin et al. · 2022 · Nature Methods
EPISCORE: cell type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data
Andrew Erich Teschendorff, Tianyu Zhu, Charles E. Breeze, Stephan Beck · 2020 · Genome biology
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Nigatu A. Adossa, Sofia Khan, Kalle T. Rytkönen, Laura L. Elo · 2021 · Computational and Structural Biotechnology Journal
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Yueh-An Lu, Chia‐Te Liao, Rachel Raybould, Bnar Talabani, Irina Grigorieva, Barbara Szomolay, Timothy Bowen, Robert Andrews, Philip R. Taylor, Donald J. Fraser · 2021 · Journal of the American Society of Nephrology
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Multifactorial profiling of epigenetic landscapes at single-cell resolution using MulTI-Tag
Michael P. Meers, Geneva Llagas, Derek H. Janssens, Christine A. Codomo, Steven Henikoff · 2022 · Nature Biotechnology
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Gaoyang Li, Shaliu Fu, Shuguang Wang, Chenyu Zhu, Bin Duan, Chen Tang, Xiaohan Chen, Guohui Chuai, Ping Q. Wang, Qi Liu · 2022 · Genome biology
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Sophia Heinrich, Amanda J. Craig, Lichun Ma, Bernd Heinrich, Tim F. Greten, Xin Wei Wang · 2020 · Journal of Hepatology
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Alex S. Nord, Anne E. West · 2019 · Nature Neuroscience
Fibrosis: cross-organ biology and pathways to development of innovative drugs
Florian Rieder, Laura E. Nagy, Toby M. Maher, Jörg H. W. Distler, Rafael Kramann, Boris Hinz, Marco Prunotto · 2025 · Nature Reviews Drug Discovery
A generalization of t-SNE and UMAP to single-cell multimodal omics
Van Hoan Do, Stefan Canzar · 2021 · Genome biology
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Yunjin Li, Lu Ma, Duojiao Wu, Geng Chen · 2021 · Briefings in Bioinformatics
Single-cell multi-omics in cancer immunotherapy: from tumor heterogeneity to personalized precision treatment
Jiayuan Le, Yating Dian, Deze Zhao, Ziyu Guo, Zehao Luo, Xiang Chen, Furong Zeng, Guangtong Deng · 2025 · Molecular Cancer
Single-cell joint detection of chromatin occupancy and transcriptome enables higher-dimensional epigenomic reconstructions
Xiong, Haiqing, Luo, Yingjie, Wang, Qianhao, Yu, Xianhong, He, Aibin · 2021 · Nature Methods
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Haikuo Li, Dian Li, Nicolas Ledru, Qiao Xuanyuan, Hao Wu, Amish Asthana, Lori Nicole Byers, Stefan G. Tullius, Giuseppe Orlando, Sushrut S. Waikar et al. · 2024 · Cell Metabolism
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Eirene Markenscoff-Papadimitriou, Sean Whalen, Pawel F. Przytycki, Reuben Thomas, Fadya Binyameen, Tomasz Jan Nowakowski, Arnold R. Kriegstein, Stephan Sanders, Matthew W. State, Katherine S. Pollard et al. · 2020 · Cell
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Tasbiraha Athaya, Rony Chowdhury Ripan, Xiaoman Li, Haiyan Hu · 2023 · Briefings in Bioinformatics
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Sziraki, Andras, Lu, Ziyu, Lee, Jasper, Banyai, Gabor, Anderson, Sonya, Abdulraouf, Abdulraouf, Metzner, Eli, Liao, Andrew, Banfelder, Jason, Epstein, Alexander et al. · 2023 · Nature Genetics
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CellTagging: combinatorial indexing to simultaneously map lineage and identity at single-cell resolution
Wenjun Kong, Brent A. Biddy, Kenji Kamimoto, Junedh Amrute, Emily G. Butka, Samantha A. Morris · 2020 · Nature Protocols
Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps
Camden S. Jansen, Ricardo N. Ramírez, Nicole C. El-Ali, David Gómez-Cabrero, Jesper N. Tegner, Matthias Merkenschlager, Ana Conesa, Ali Mortazavi · 2019 · PLoS Computational Biology
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J. Ordovas-Montañes, Semir Beyaz, S. Rakoff-Nahoum, A. Shalek · 2020 · Nature reviews. Immunology
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Arnav Moudgil, Michael Wilkinson, Xuhua Chen, June He, Alexander J. Cammack, Michael J. Vasek, Tomás Lagunas, Zongtai Qi, Matthew A. Lalli, Chuner Guo et al. · 2020 · Cell
Identification of genomic enhancers through spatial integration of single‐cell transcriptomics and epigenomics
Bravo González‐Blas, Carmen, Quan, Xiao‐Jiang, Duran‐Romaña, Ramon, Taskiran, Ibrahim Ihsan, Koldere, Duygu, Davie, Kristofer, Christiaens, Valerie, Makhzami, Samira, Hulselmans, Gert, de Waegeneer, Maxime et al. · 2020 · Molecular Systems Biology
Profiling chromatin regulatory landscape: insights into the development of ChIP-seq and ATAC-seq
Shaoqian Ma, Yongyou Zhang · 2020 · Molecular Biomedicine
Single-cell lineage capture across genomic modalities with CellTag-multi reveals fate-specific gene regulatory changes
Jindal, Kunal, Adil, Mohd Tayyab, Yamaguchi, Naoto, Yang, Xue, Wang, Helen C., Kamimoto, Kenji, Rivera-Gonzalez, Guillermo C., Morris, Samantha A. · 2024 · Nature Biotechnology
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Casey A. Thornton, Ryan M. Mulqueen, Kristof A. Torkenczy, Andrew Nishida, Eve G. Lowenstein, Andrew J. Fields, Frank J. Steemers, Wenri H. Zhang, Heather L. McConnell, Randy L Woltjer et al. · 2021 · Nature Communications
SIMBA: single-cell embedding along with features
Huidong Chen, Jayoung Ryu, Michael E. Vinyard, Adam K. Lerer, Luca Pinello · 2023 · Nature Methods
MIRA: joint regulatory modeling of multimodal expression and chromatin accessibility in single cells
Lynch, Allen W., Theodoris, Christina V., Long, Henry W., Brown, Myles, Liu, X. Shirley, Meyer, Clifford A. · 2022 · Nature Methods
Brain-region-specific changes in neurons and glia and dysregulation of dopamine signaling in Grin2a mutant mice
Zohreh Farsi, Ally A. Nicolella, Sean Simmons, Sameer Aryal, Nate Shepard, Kira S. Brenner, Sherry Lin, Linnea E. Herzog, Sean P. Moran, Katherine J. Stalnaker et al. · 2023 · Neuron
Organ-Specific Endothelial Cell Differentiation and Impact of Microenvironmental Cues on Endothelial Heterogeneity
Laia Gifre-Renom, Margo Daems, Aernout Luttun, Elizabeth A. V. Jones · 2022 · International Journal of Molecular Sciences
Into the multiverse: advances in single-cell multiomic profiling
Ogbeide, Silvia, Giannese, Francesca, Mincarelli, Laura, Macaulay, Iain C. · 2022 · Trends in Genetics
scDART: integrating unmatched scRNA-seq and scATAC-seq data and learning cross-modality relationship simultaneously
Ziqi Zhang, Chengkai Yang, Xiuwei Zhang · 2022 · Genome biology
Deep learning in single-cell and spatial transcriptomics data analysis: advances and challenges from a data science perspective
Shuang Ge, Shuqing Sun, Huan Xu, Qiang Shawn Cheng, Zhixiang Ren · 2025 · Briefings in Bioinformatics
Single-cell omics: experimental workflow, data analyses and applications
Fengying Sun, Haoyan Li, Dongqing Sun, Shaliu Fu, Lei Gu, Xin Shao, Qinqin Wang, Xin Dong, Bin Duan, Feiyang Xing et al. · 2024 · Science China Life Sciences
Immunology in the Era of Single-Cell Technologies
Mirjana Efremova, Roser Vento‐Tormo, Jong-Eun Park, Sarah Amalia Teichmann, Kylie Renee James · 2020 · Annual Review of Immunology
Big data: Historic advances and emerging trends in biomedical research
Conor J. Cremin, Sabyasachi Dash, Xiaofeng Huang · 2022 · Current Research in Biotechnology
Graph Neural Networks for Multimodal Single-Cell Data Integration
Wen, Hongzhi, Ding, Jiayuan, Jin, Wei, Wang, Yiqi, Xie, Yuying, Tang, Jiliang · 2022 · Proceedings of the 28th ACM SIGKDD Conference on Knowledge Discovery and Data Mining
scONE-seq: A single-cell multi-omics method enables simultaneous dissection of phenotype and genotype heterogeneity from frozen tumors
Lei Yu, Xinlei Wang, Quanhua Mu, Sindy Sing Ting Tam, Danson Shek Chun Loi, Aden Ka‐Yin Chan, Wai Sang Poon, Ho‐Keung Ng, Danny Tat Ming Chan, Jiguang Wang et al. · 2023 · Science Advances
Interpreting non-coding disease-associated human variants using single-cell epigenomics
Kyle J. Gaulton, Sebastian Preißl, Bing Ren · 2023 · Nature Reviews Genetics
Single-cell chromatin accessibility maps reveal regulatory programs driving early mouse organogenesis
Blanca Pijuan-Sala, Nicola K. Wilson, Jun Xia, Xiaomeng Hou, Rebecca Hannah, Sarah Kinston, Fernando J. Calero‐Nieto, Olivier Poirion, Sebastian Preißl, Feng Liu et al. · 2020 · Nature Cell Biology
Computational methods for single-cell multi-omics integration and alignment
Stanojevic, Stefan, Li, Yijun, Ristivojevic, Aleksandar, Garmire, Lana X. · 2022 · Genomics, Proteomics & Bioinformatics
DIRECT-NET: An efficient method to discover cis-regulatory elements and construct regulatory networks from single-cell multiomics data
Lihua Zhang, Jing Zhang, Qing Hua Nie · 2022 · Science Advances
Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility
Qiao Rui Xing, Chadi A. El Farran, Ying Ying Zeng, Yao Yi, Tushar Warrier, Pradeep Gautam, James J. Collins, Jian Xu, Peter Dröge, Cheng-Gee Koh et al. · 2020 · Genome Research
Time-resolved single-cell RNA-seq using metabolic RNA labelling
Erhard, Florian, Saliba, Antoine-Emmanuel, Lusser, Alexandra, Toussaint, Christophe, Hennig, Thomas, Prusty, Bhupesh K., Kirschenbaum, Daniel, Abadie, Kathleen, Miska, Eric A., Friedel, Caroline C. et al. · 2022 · Nature Reviews Methods Primers
Primate optogenetics: Progress and prognosis
Yasmine El-Shamayleh, G. Horwitz · 2019 · Proceedings of the National Academy of Sciences of the United States of America
Jointly embedding multiple single-cell omics measurements
Jie Liu, Yuanhao Huang, Ritambhara Singh, Jean‐Philippe Vert, William Stafford Noble · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
Perspectives on defining cell types in the brain
Mukamel, Eran A, Ngai, John · 2019 · Current Opinion in Neurobiology
GAGE-seq concurrently profiles multiscale 3D genome organization and gene expression in single cells
Tianming Zhou, Ruochi Zhang, Deyong Jia, Raymond T. Doty, Adam D. Munday, Daniel Gao, Li Xin, Janis L. Abkowitz, Zhijun Duan, Jian Ma · 2024 · Nature Genetics
Multiplexed spatial mapping of chromatin features, transcriptome and proteins in tissues
Pengfei Guo, Liran Mao, Yu‐Fan Chen, Chin Nien Lee, Angelysia Cardilla, Mingyao Li, Marek Bartošovič, Yanxiang Deng · 2025 · Nature Methods
DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data
Wan-Wen Zeng, Xi Chen, Z. Duren, Yong Wang, Rui Jiang, Wing H Wong · 2019 · Nature Communications
Droplet-based single-cell joint profiling of histone modifications and transcriptomes
Xie, Yang, Zhu, Chenxu, Wang, Zhaoning, Tastemel, Melodi, Chang, Lei, Li, Yang Eric, Ren, Bing · 2023 · Nature Structural & Molecular Biology
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Merve Kayhan, Judith Vouillamoz, Daymé González Rodríguez, Milica Bugarski, Yasutaka Mitamura, Julia Gschwend, Christoph Schneider, Andrew M. Hall, David Legouis, Cezmi A. Akdiş et al. · 2023 · Nature Communications
Jointly Embedding Multiple Single-Cell Omics Measurements
Liu, Jie, Yuanhao Huang, Ritambhara Singh, Jean‐Philippe Vert, William Stafford Noble · 2019 · PubMed
Bi-order multimodal integration of single-cell data
Jinzhuang Dou, Shaoheng Liang, Vakul Mohanty, Qi Miao, Yuefan Huang, Qingnan Liang, Xuesen Cheng, Sangbae Kim, Jongsu Choi, Yumei Li et al. · 2022 · Genome biology
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Zidong Zhang, Michel Zamojski, Gregory R. Smith, Thea L. Willis, Val Yianni, Natalia Mendelev, Hanna Pinças, Nitish Seenarine, Mary Anne S. Amper, Mital Vasoya et al. · 2022 · Cell Reports
Single-cell profiling of transcriptome and histone modifications with EpiDamID
Franka J. Rang, Kim L. de Luca, Sandra S. de Vries, Christian Valdes‐Quezada, Ellen Boele, Phong D. Nguyen, Isabel Misteli Guerreiro, Yuko Sato, Hiroshi Kimurâ, Jeroen Bakkers et al. · 2022 · Molecular Cell
Advances and applications in single-cell and spatial genomics
Jingjing Wang, Fang Ye, Haoxi Chai, Yujia Jiang, Teng Wang, Xia Ran, Qimin Xia, Ziye Xu, Yuting Fu, Guodong Zhang et al. · 2024 · Science China Life Sciences
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
Gene regulatory network inference in single-cell biology
Kyle Akers, T. M. Murali · 2021 · Current Opinion in Systems Biology
SCITO-seq: single-cell combinatorial indexed cytometry sequencing
Byungjin Hwang, David S. Lee, Whitney Tamaki, Yang Sun, Anton Ogorodnikov, George C. Hartoularos, Aidan F. Winters, Bertrand Z. Yeung, Kristopher L. Nazor, Yun S. Song et al. · 2021 · Nature Methods
scButterfly: a versatile single-cell cross-modality translation method via dual-aligned variational autoencoders
Yichuan Cao, Xiamiao Zhao, Songming Tang, Qun Jiang, Sijie Li, Siyu Li, Shengquan Chen · 2024 · Nature Communications
An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types
Yao, Zizhen, Liu, Hanqing, Xie, Fangming, Fischer, Stephan, Booeshaghi, A. Sina, Adkins, Ricky S, Aldridge, Andrew I., Ament, Seth A., Pinto-Duarte, Antonio, Bartlett, Anna et al. · 2020
A guide to changing paradigms of glucocorticoid receptor function—a model system for genome regulation and physiology
Sabine Vettorazzi, Denis Nalbantoglu, J. Christof M. Gebhardt, Jan Peter Tuckermann · 2021 · FEBS Journal
Single-cell genomics in plants: current state, future directions, and hurdles to overcome
Josh T. Cuperus · 2021 · PLANT PHYSIOLOGY
Single‐Cell Sequencing Methodologies: From Transcriptome to Multi‐Dimensional Measurement
Yingwen Chen, Jia Tao Song, Qingyu Ruan, Xi Zeng, Lingling Wu, Linfeng Cai, Xuanqun Wang, Chaoyong James Yang · 2021 · Small Methods
SMILE: mutual information learning for integration of single-cell omics data
Yang Xu, Priyojit Das, Rachel Patton McCord · 2021 · Bioinformatics
Paired single-cell multi-omics data integration with Mowgli
Geert-Jan Huizing, Ina Maria Deutschmann, Gabriel Peyré A, Laura Cantini · 2023 · Nature Communications
Using single-cell technologies to map the human immune system — implications for nephrology
Benjamin J. Stewart, John R. Ferdinand, Menna Ruth Clatworthy · 2019 · Nature Reviews Nephrology
Single-cell biology: beyond the sum of its parts
Alexander F. Schier · 2020 · Nature Methods
Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies
Natasja L. De Vries, Ahmed Essam Mahfouz, Frits Koning, Noel F.C.C. de Miranda · 2020 · Frontiers in Oncology
scHiClassifier: a deep learning framework for cell type prediction by fusing multiple feature sets from single-cell Hi-C data
Xiangfei Zhou, Hao Wu · 2024 · Briefings in Bioinformatics
Single-cell analysis of cell identity in the Arabidopsis root apical meristem: insights and opportunities
Rachel Shahan, Trevor M. Nolan, Philip N. Benfey · 2021 · Journal of Experimental Botany
Targeted T cell receptor gene editing provides predictable T cell product function for immunotherapy
Thomas R Müller, Sebastian Jarosch, Monika Hammel, Justin Leube, Simon A. Grassmann, Bettina E. Bernard, Manuel J. P. Effenberger, Immanuel Andrä, M. Zeeshan Chaudhry, Theresa Kaeuferle et al. · 2021 · Cell Reports Medicine
Single cell transcriptomics: moving towards multi-omics
Yanling Song, Xing Xu, Wei Wang, Tian Tian, Zhi Zhu, Chaoyong James Yang · 2019 · The Analyst
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Anne-Marie Galow, Shahaf Peleg · 2022 · Cells
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Jackson A. Hoffman, Brian N. Papas, Kevin W. Trotter, Trevor Archer · 2020 · Communications Biology
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Ankita Thawani, Andrew K. Groves · 2020 · Frontiers in Physiology
Single-cell manifold-preserving feature selection for detecting rare cell populations
Shaoheng Liang, Vakul Mohanty, Jinzhuang Dou, Qi Miao, Yuefan Huang, Muharrem Müftüoğlu, Li Ding, Weiyi Peng, Ken Chen · 2021 · Nature Computational Science
Understanding the kidney one cell at a time
Jihwan Park, Chang Liu, Junhyong Kim, Katalin Suszták · 2019 · Kidney International