Chromatin Potential Identified by Shared Single-Cell Profiling of RNA and Chromatin

Ma, Sai, Zhang, Bing, LaFave, Lindsay M., Earl, Andrew S., Chiang, Zachary, Hu, Yan, Ding, Jiarui, Brack, Alison, Kartha, Vinay K., Tay, Tristan, Law, Travis, Lareau, Caleb, Hsu, Ya-Chieh, Regev, Aviv, Buenrostro, Jason D.·2020·Cell
DOI 10.1016/j.cell.2020.09.056

Cited by (1,003)

Items 801–900 of 1,003

  1. Epigenomic and transcriptomic analyses reveal cnidocyte specialization in a sea anemone
    Itamar Kozlovski, Adrian Jaimes‐Becerra, Daria Aleshkina, Matan Levy, Yehu Moran · 2026 · Open Biology
  2. IceQream: Quantitative chromosome accessibility analysis using physical TF models
    Abraham Bercovich, Aviezer Lifshitz, Michal Eldar, Saifeng Cheng, Roni Stok Ranen, Yonatan Stelzer, Amos Tanay · 2025 · Nature Communications
  3. Cross-modal contrastive learning decodes developmental regulatory features through chromatin potential analysis
    Yueyuxiao Yang, Chenxi Xie, Qiushun He, Meng Yang · 2025 · GigaScience
  4. Dissecting Normal and Abnormal Human Kidney Development Using Multiomics
    Luna S. Klomp, Lampros Mavrommatis, Fanny Oliveira Arcolino, Hildo C. Lantermans, Elena N. Levtchenko, Christoph Kuppe, Rik Westland · 2025 · Journal of the American Society of Nephrology
  5. A Single-Cell Omics Technical Guide for Advancing Neuropsychiatric Research
    Kayleigh Casmey, Maria Zimmermann, Yuxin Xie, Sierra A. Codeluppi-Arrowsmith, Gustavo Turecki · 2025 · Genes
  6. Chromatin accessibility shapes development-specific lineage plasticity in hematopoiesis
    Sara Palo, Keiki Nagaharu, Mikael N.E. Sommarin, Rasmus Olofzon, Virginia A. Turati, Shamit Soneji, Göran Karlsson, Charlotta Böiers · 2026 · Blood Advances
  7. Recent progress in microfluidic cell manipulation techniques and their applications in single-cell mass spectrometry
    Siyuan Tan, Huiping Qiao, Xuping Shentu, Zehu Xie, Yu Wang, Qionglin Liang, Xiaoyun Gong, Xinhua Dai · 2025 · TrAC Trends in Analytical Chemistry
  8. Multi-omic relay velocity modeling uncovers dynamic chromatin-transcription regulation across cell states
    Ari Hong, Sangseon Lee, Kwangsoo Kim · 2025 · Nature Communications
  9. Chromatin accessibility of circulating CD8⁺ T cells differentiates disease severity in IgA nephropathy
    Gwanghun Kim, Soojin Lee, Soojin Lee, Suk-Kyung Shin, Sehoon Park, Jung Hun Koh, Semin Cho, Yaerim Kim, Ik Soo Kim, Seung Jae Lee et al. · 2025 · Scientific Reports
  10. A latent activated olfactory stem cell state revealed by single-cell transcriptomic and epigenomic profiling
    K. Van Den Berge, Dana Bakalar, Hsin-Jung Chou, Divya Kunda, Davide S. Risso, Kelly Street, Elizabeth A. Purdom, Sandrine Dudoit, John Ngai, Whitney E. Heavner · 2026 · Stem Cell Reports
  11. scMFE: A multi-view fusion enhanced graph contrastive learning method for scRNA-seq data clustering
    Yun Bai, Zhenqiu Shu, Kaiwen Tan, Yongbing Zhang, Zhengtao Yu · 2026 · Neurocomputing
  12. scII: Dual-Threshold Adaptive Integration of Single-Cell Multiomics Data Driven by Imputation
    Yi Zhang, Yuru Li, Zhicheng Jin, Ye Tian, Chen Su · 2026 · Journal of Chemical Information and Modeling
  13. SCITO-seq2: ultra-high-throughput single-cell transcriptome and epitope sequencing
    Su-Hyeon Lee, Bo-Yeong Jin, Cho-Rong Lee, Doo Ri Kim, Areum Shin, Sung‐Gyoo Park, Yae-Jean Kim, Seong Heon Kim, Murim Choi, Byungjin Hwang · 2026 · Genome biology
  14. Bridging unpaired single-cell multimodal data for integrative analyses with SuperMap
    Chao Bing Deng, Xinyi Ma, Hui Lü, Hongyu Zhao, Jingsi Ming, Tao Wang · 2026 · Proceedings of the National Academy of Sciences
  15. Heterochronic transcription factor expression drives cone-dominant retina development in 13-lined ground squirrels
    Kurt Weir, Pin Lyu, Sangeetha Kandoi, Roujin An, Nicole A. Pannullo, Isabella Palazzo, Jared A. Tangeman, Jun Shi, Steven H. DeVries, Dana K. Merriman et al. · 2026 · eLife
  16. Single-nucleus multi-omics delineates distinct epigenetic programs associated with tumor progression in lung adenocarcinoma
    Yeji Kim, Huiram Kang, Yongki Hwang, Kyung Soo Kim, Seok Whan Moon, Jeonghan Kim, Seung Joon Kim, Hae‐Ock Lee · 2026 · Clinical Epigenetics
  17. Single-cell RNA and ATAC sequencing reveals cell subsets characteristics in adipose-derived stem cells
    Qingxi Long, Yi Yuan, Zhenjiang Liu, Pingshu Zhang, Xiaodong Yuan · 2026 · Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids
  18. Single-cell ultra-high-throughput multiplexed chromatin accessibility and gene expression sequencing (SUM-seq)
    Umut Yildiz, Sara Lobato-Moreno, Annique Claringbould, Hanke Gwendolyn Bauersachs, Nila H. Servaas, Evi P. Vlachou, C. Arnold, Víctor Campos-Fornés, Karin D. Prummel, Judith B. Zaugg et al. · 2026 · Nature Protocols
  19. Interactive analysis of single-cell trajectories in 3D space with Cell Journey
    Damian Panas, Marcin Tabaka · 2026 · GigaScience
  20. Precision Oncology: Multimodal and Multiscale Methods to Promote Mechanistic Understanding
    Kıvılcım Öztürk, Adam Klie, Hannah K. Carter · 2026 · Annual Review of Biomedical Data Science
  21. A deep adversarial network model for multi-task analysis of single-cell omics data
    Junlin Xu, Cheng Guo, Yajie Meng, Shuting Jin, Changcheng Lu, Zilong Zhang, Feifei Cui, Xiangzheng Fu, Quan Zou, Tian Tian et al. · 2026 · Briefings in Bioinformatics
  22. Dissecting histological transformation
    Ethan M. Earlie, Eric E. Gardner, HAROLD E. VARMUS, Ashley Marie Laughney · 2026 · Trends in cancer
  23. Boolean logic links chromatin accessibility states to gene expression variability across cell types
    Seyed Amir Malekpour, Mohieddin Jafari, Mehdi Sadeghi · 2026 · Nucleic Acids Research
  24. Multi-Omics Graph Attention Network for Key Gene Prediction in Triple-Negative Breast Cancer
    Zixi Jiang, Kexin Cao, Fang Ge, Zhusheng Huang · 2026 · IEEE Transactions on Computational Biology and Bioinformatics
  25. Benchmarking component choices for unpaired single cell RNA and epigenomic integration
    Fnu Naqing, Qiuyue Yuan, Zhana Duren · 2026 · Genome biology
  26. scKAN: Integration of multi-modal single-cell data via adaptive Kolmogorov–Arnold networks
    Li Zheng, Yu Zhang, Siqi Tian, Bo Ding, S Wang, Xiaoyu Wang, Anxin Gu, Liang Yang, Mengzhu Wang, Haitao Zhang · 2026 · Pattern Recognition
  27. Geometry-aware graph attention networks to explain single-cell chromatin states and gene expression with SEAGALL
    Gabriele Malagoli, Patrick Hanel, Anna Danese, Guy Wolf, Maria Colomé‐Tatché · 2026 · Genome biology
  28. Three-dimensional chromatin architecture in crustaceans: Emerging evidence, structural principles, and future directions: A review
    Gunasekara Chathura Wikumpriya · 2026 · International Journal of Biological Macromolecules
  29. Cis-regulatory strategies in developmental patterning
    Jack PC Williams, M. Joaquina Delàs · 2026 · Current Opinion in Genetics & Development
  30. From the brain cell atlas to precision neurology: a review of the application of AI-driven multi-omics in brain science
    Youzhe He, Yanrong Wei, Jingxi Zhi, C J Huang, Lei Han, Shiping Liu, Lifang Wang · 2026 · GigaScience
  31. Microfluidic rare cell analysis beyond counting: workflow design from enrichment to multi-omics
    Zongjie Wang · 2026 · Lab on a Chip
  32. Optimal transport for label transfer in single-cell multi-omics integration
    Junjun Ren, Zhengqian Zhang, Jiayu Wang, Lingyun Xie, Jialiang Wang, Meng Wang, Yongzhuang Liu · 2026 · Briefings in Bioinformatics
  33. Simultaneous measurements of translation rate and transcriptome uncovers linked regulation within an active bacterial cell population
    Christopher T. Baumann, Molly A. Hydorn, Samuel F. Cooke, Jonathan E. Dworkin, Adam Z. Rosenthal · 2026 · Science Advances
  34. A single-nucleus multiomic study of preoptic area cells in prepubertal control vs prenatally androgenized female mice
    Laura L. Burger, Rujuta M Chikodikar, Suzanne M. Moenter · 2026 · Endocrinology
  35. Single-cell multi-omics sequencing and its applications in studying the nervous system
    Wang Chaoyang, Fan Xiaoying · 2021 · Biophysics Reports
  36. States and Fates of Skin Fibroblasts Revealed through Chromatin Accessibility
    Donovan Correa‐Gallegos, Hans‐Günther Machens, Yuval Rinkevich · 2022 · Journal of Investigative Dermatology
  37. Mechanisms of enhancer function in neuronal systems in health and disease
    Luna Zea-Redondo, Ana Pombo · 2022 · Current Opinion in Systems Biology
  38. Profiling the Epigenetic Landscape of the Tumor Microenvironment Using Chromatin Immunoprecipitation Sequencing
    Marina Fukano, Gabriel Alzial, Raphaëlle Lambert, Geneviève Deblois · 2023 · Methods in molecular biology
  39. Advancing Cancer Immunotherapy Through Integrating Molecular and Computational Approaches
    Reem A. Elghaish, Zina Alaswad, Sondos H. Abdelhafeez, Omar Salem, Menattallah Elserafy · 2023 · Springer eBooks
  40. Role of histone acylation and related technical developments
    Haoyi Yan, Hongquan Zhang · 2023 · Scientia Sinica Vitae
  41. Single-cell multiomics to advance cell therapy
    Kyndal L. Goss, Edwin M. Horwitz · 2024 · Cytotherapy
  42. TriTan: an efficient triple nonnegative matrix factorization method for integrative analysis of single-cell multiomics data
    Xin Ma, Lijing Lin A, Qian Zhao, Mudassar Iqbal · 2024 · Briefings in Bioinformatics
  43. IDclust: Iterative clustering for unsupervised identification of cell types with single cell transcriptomics and epigenomics
    Pacôme Prompsy, Mélissa Saichi, Félix Raimundo, Céline Vallot · 2024 · NAR Genomics and Bioinformatics
  44. Single-Cell RNA Sequencing (sc-RNAseq) in the Development of Biomedical Therapeutics
    Phei Er Saw, Erwei Song · 2025 · Springer eBooks
  45. scUCAF: An uncertainty-aware cross-omics alignment and fusion network for single-cell multi-omics data clustering
    Yue Ying, Nan Wu, Jinhao Huo, Yutao Wang, Wei Jin · 2025 · Computational Biology and Chemistry
  46. SemiLT: A Multianchor Transfer Learning Method for Cross‐Modality Cell Label Annotation from scRNA‐seq to scATAC‐seq
    Zhitong Chen, Maoteng Duan, Xiaoying Wang, Bingqiang Liu · 2025 · Advanced Science
  47. PETScan: score-based genome-wide association analysis of RNA-Seq and ATAC-Seq data
    Yajing B. Hao, Tal Kafri, Fei Zou · 2026 · Bioinformatics
  48. ATAC-seq and psychiatric disorders
    John F. Fullard, Jaroslav M. Bendl, Panos Roussos · 2021 · Elsevier eBooks
  49. CRAK-Velo: chromatin accessibility kinetics integration improves RNA velocity estimation
    Nour El Kazwini, Mingze Gao, Idris Kouadri Boudjelthia, Fangxin Cai, Yuanhua Huang, Guido Sanguinetti · 2026 · Genome biology
  50. Multiomics analysis reveals extensive epigenome remodeling during cortical development
    Florian Noack, Silvia Vangelisti, Madalena Carido, Faye Chong, Boyan Bonev · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  51. Tracking single cell evolution via clock-like chromatin accessibility
    Yu Xiao, Wan Jin, Lingao Ju, Jie Fu, Gang Wang, Mengxue Yu, Fangjin Chen, Kaiyu Qian, Xinghuan Wang, Yi Zhang · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  52. Quantifying common and distinct information in single-cell multimodal data with Tilted-CCA
    Kevin Lin, Nancy Ruonan Zhang · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  53. Single-cell multi-omics decodes regulatory programs during development of mouse secondary palate
    Fangfang Yan, Akiko Suzuki, Chihiro Iwaya, Guangsheng Pei, Xian Chen, Hiroki Yoshioka, Meifang Yu, Lukas Mikolaj Simon, Junichi Iwata, Zhongming Zhao · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  54. MIDAS: a deep generative model for mosaic integration and knowledge transfer of single-cell multimodal data
    Zhen He, Yaowen Chen, Shuofeng Hu, Sijing An, Junfeng Shi, Runyan Liu, Jiahao Zhou, Guohua Dong, Jinhui Shi, Jiaxin Zhao et al. · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  55. scGREAT: Graph-based regulatory element analysis tool for single-cell multi-omics data
    Chaozhong Liu, Linhua Wang, Zhandong Liu · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  56. Lineage Commitment of Dermal Fibroblast Progenitors is Mediated by Chromatin De-repression
    Quan M Phan, Lucia Salz, Sam S Kindl, Jayden S Lopez, Sean M Thompson, Jasson Makkar, Iwona M. Driskell, Ryan R. Driskell · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  57. Massively parallel single-cell profiling of transcriptome and multiple epigenetic proteins in cell fate regulation
    Haiqing Xiong, Qianhao Wang, Chen C. Li, Aibin He · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  58. MASIv2 enables standardization and integration of multi-modal single-cell and spatial omics data with one general framework
    Yang Xu, Sikander Hayat · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  59. ShinyMultiome.UiO: An interactive open-source framework utilizing Seurat Objects for visualizing single-cell Multiomes
    Akshay Akshay, Ankush Sharma, Ragnhild Eskeland · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  60. Partitioning heritability using single-cell multi-omics identifies a novel macrophage subpopulation conveying genetic risks of coronary artery disease
    Jiahao Jiang, Thomas K. Hiron, Thomas A. Agbaedeng, Yashaswat Malhotra, Edward Drydale, James M. Bancroft, Esther Ng, Michael E. Reschen, Lucy J. Davison, Christopher A. O’Callaghan · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  61. HIPSD&R-seq enables scalable genomic copy number and transcriptome profiling
    Olga Lazareva, Jan‐Philipp Mallm, Milena Simovic-Lorenz, George Philippos, Pooja Sant, Urja Parekh, Linda Hammann, Albert Li, Umut Yildiz, Mikael Marttinen et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  62. Quantitative analysis of cis-regulatory elements in transcription with KAS-ATAC-seq
    Ruitu Lyu, Yun Gao, Tong Wu, Chang Ye, Pingluan Wang, Chuan He · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  63. Inferring extrinsic factor-dependent single-cell transcriptome dynamics using a deep generative model
    Yasuhiro Kojima, Yuko Arioka, Haruka Hirose, Shuto Hayashi, Yusuke Mizuno, Keiki Nagaharu, Hiroki Okumura, Masato Ishikawa, Kohshi Ohishi, Yutaka Suzuki et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  64. Pharmacologic inhibition of BAF chromatin remodeling complexes as a therapeutic approach to transcription factor-dependent cancers
    Richard C. Centore, Luis Miguel Mendes Soares, Salih Topal, Rishi G. Vaswani, Kana Ichikawa, Zhifang Li, Hong Bo Fan, Jeremy W. Setser, David L. Lahr, Laura E. Zawadzke et al. · 2024 · eLife
  65. Pharmacologic inhibition of BAF chromatin remodeling complexes as a therapeutic approach to transcription factor-dependent cancers
    Richard C. Centore, Luis Miguel Mendes Soares, Salih Topal, Rishi G. Vaswani, Kana Ichikawa, Zhifang Li, Hong Bo Fan, Jeremy W. Setser, David L. Lahr, Laura E. Zawadzke et al. · 2024 · eLife
  66. Signac: Analysis of Single-Cell Chromatin Data
    Tim Stuart, Avi Srivastava · 2020
  67. The Regulatory Logic of Planarian Stem Cell Differentiation
    Alberto Pérez-Posada, Helena García-Castro, Elena Emili, Virginia Vanni, Cirenia Arias-Baldrich, Siebren Frölich, Simon J. van Heeringen, Nathan J. Kenny, Jordi Solana · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  68. Infants display reduced NK cell responses in RSV and increased inflammatory responses in SARS-CoV-2 infections
    Duygu Ucar, Asa Thibodeau, Asunción Mejías, Djamel Nehar-Belaid, Radu Marcheş, Zhaohui Xu, Giray Naim Eryilmaz, Steven Zvi Josefowicz, Silke Paust, Virginia Pascual et al. · 2025 · Research Square
  69. Simultaneous single-cell CRISPR, RNA, and ATAC-seq enables multiomic CRISPR screens to identify gene regulatory relationships
    Kaivalya Shevade, Yeqing Angela Yang, Kevin Feng, Karl Mader, Volkan Sevi̇m, Jacob Parsons, Gunisha Arora, Hasnaa A. Elfawy, Rachel Mace, Scot Federman et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  70. Fundamental Limits of Inferring Dynamical Gene Regulatory Models from Single-Cell Data
    Ali Balubaid, Juan P. Bernal-Tamayo, Rohit Kumar, Hafeez Agboola, David Gómez-Cabrero, Narsis A. Kiani, Jesper N. Tegner · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  71. Single-cell multi-omics reveals archetypal regulatory programs shared across T cell subsets
    Sarah K. Walker, Joris van der Veeken, Alexander Yu Rudensky, Yuri Pritykin · 2026 · Cell Reports
  72. scPhoenix: A Contrastive Learning-based Framework with Aux–Core Feature Disentanglement Enhances Sparse Cellular Multi-omics Translation
    Chaoyu Yan, Zijian He, Lihang Ye, Shikang Zheng, Nan Lin, Guanbin Li, Weizhong Li · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  73. Pharmacologic inhibition of BAF chromatin remodeling complexes as a therapeutic approach to transcription factor-dependent cancers
    Richard C. Centore, Luis Miguel Mendes Soares, Salih Topal, Rishi G. Vaswani, Kana Ichikawa, Zhifang Li, Hong Bo Fan, Jeremy W. Setser, David L. Lahr, Laura E. Zawadzke et al. · 2025 · eLife
  74. Neocortical temporal patterning by a two-layered regulatory network
    Guohua Yuan, Zhe Zhao, Xiaoxiang Dong, Wang Xu-wen, Qiangqiang Zhang, Xiaojuan Yu, Ming Zhu, Jiawei Yu, Di Zhang, Nantao Zhang et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  75. Epigenetic Coalitions Couple Tissue Growth to Generate Periodic Colour Patterns in Birds
    Yu Zhou, Wei Zhao, Chih-Kuan Chen, Wen-Chien Jea, Ya-Chen Liang, Hans I‐Chen Harn, Noah K. Brady, Tsz Yau Law, Tsz Yau Law, Masafumi Inaba et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  76. State-dependent geometric constraints reveal a regulatory gate in hematopoietic progenitors
    Roberto Navarro Quiroz, Elkin Navarro Quiroz · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  77. CLM-X: A multimodal single-cell foundation model with flexible multi-way Transformer for unified scRNA-seq and scATAC-seq analysis
    Bowen Li, Ziqiang Liu, Zhen Wang, Zhenyu Xu, Yantao Li, Chulin Sha, Xiaodong Li · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  78. Integration of single-cell multi-omic data with graph-based topic modelling
    Gabriele Malagoli, Filippo Valle, Andreina Tirabassi, Annalisa Marsico, Loredana Martignetti, Michele Caselle, Maria Colomé‐Tatché · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  79. Massively multiplex multimodal chemical screens at single-cell resolution
    Kelvin Y. Chen, Romain Lopez, Basak Eraslan, Mayu Hata, Yusuke Takeshima, Kenichi Makino, Tatsuya Kibayashi, Kenji Ichiyama, Anne Biton, Jan-Christian Huetter et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  80. HoloCell: A Generative Foundation Model for Holistic Cellular Modeling
    Qun Jiang, Zhen Li, Bowen Hu, Yunlong Bie, Keyi Li, Qiuyi Li, Peiran Jin, Yuan He, Pan Deng, Wang Zhenyi et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  81. Global genome decompaction leads to stochastic activation of gene expression as a first step toward fate commitment in human hematopoietic stem cells
    Parmentier Romuald, Alice Moussy, Chantalat Sophie, Laëtitia Racine, Sudharshan Ravi, Nan Papili Gao, Daniel Stockholm, Corre Guillaume, Geneviève Fourel, Jean‐François Deleuze et al. · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  82. Integration of Unpaired Single-cell Chromatin Accessibility and Gene Expression Data via Adversarial Learning
    Yang Xu, Andrew Jeremiah Strick · 2021 · arXiv (Cornell University)
  83. Nonparametric Interrogation of Transcriptional Regulation in Single-Cell RNA and Chromatin Accessibility Multiomic Data
    Yuriko Harigaya, Zhaojun Zhang, Hongpan Zhang, Chongzhi Zang, Nancy Ruonan Zhang, Yuchao Jiang · 2021 · Research Square
  84. Handbuch der politischen Ikonographie von Uwe Fleckner, Martin Warnke und Hendrik Ziegler (Hg.) München: C.H. Beck Verlag, 2011
    Eveline G. Bouwers · 2011 · PUB – Publications at Bielefeld University (Bielefeld University)
  85. Las grandes reformas al derecho de familia en el proyecto de Código Civil y Comercial argentino 2012
    Graciela Medina · 2013 · Anuario Uruguayo Crítico de Derecho de Familia y Sucesiones
  86. A comparative study of cell type annotation methods for immune cells using single-cell sequencing technology
    Tianai Zhang · 2021 · International Conference on Bioinformatics and Biomedical Science (ICBBS)
  87. Reusable Single Cell for Iterative Epigenomic Analyses
    Hidetaka Ohnuki, David J. Venzon, Alexei V. Lobanov, Giovanna Tosato · 2022 · Journal of Visualized Experiments
  88. AGEAS: Automated Machine Learning based Genetic Regulatory Element Extraction System
    Masayoshi Nakamoto, Jiawang Tao, Jack Chung-Kai Yu · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  89. Bayesian Non-Parametric Mixture Models Reveal Modes of Regulation in Chromatin Accessibility and Identifies Genes That Define Cell Identity
    Malindrie Dharmaratne, Atefeh Taherian Fard, Jessica C. Mar · 2022 · SSRN Electronic Journal
  90. Integrated single-cell chromatin and transcriptomic analyses of human scalp reveal etiological insights into genetic risk for hair and skin disease
    Benjamin Ober-Reynolds, Chen Wang, J. Ko, Eon J. Rios, S. Aasi, Mark M. Davis, A. Oro, W. Greenleaf · 2022 · bioRxiv
  91. Simultaneous Establishing Single-cell Transcriptome Atlas and Chromatin Accessibility Landscapes in Allotetraploid Leguminous Plant
    Hao Liu, Quanqing Deng, Puxuan Du, Qing Lu, Sunil S. Gangurde, Yuan Xiao, Dongxiu Hu, Wenyi Wang, Haifen Li, Shaoxiong Li et al. · 2022 · Research Square
  92. Mathematical modeling of epigenetic gene regulation during cell differentiation
    2022 · Nature Biotechnology
  93. ImAge: an imaging approach to quantitate aging and rejuvenation
    Martin Alvarez-Kuglen, Delany Rodriguez, Haodong Qin, Kenta Ninomiya, Lorenzo Fiengo, Chen Farhy, Wei-Mien Hsu, Aaron P. Havas, Gen‐Sheng Feng, Amanda J. Roberts et al. · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  94. Liam tackles complex multimodal single-cell data integration challenges
    Pia Rautenstrauch, Uwe Ohler · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
  95. Model-Based Clustering of Single-Cell Omics Data
    Xinjun Wang, Haoran Hu, Wei Chen · 2022 · Springer handbooks of computational statistics
  96. Integrative Analyses of Single-Cell Multi-Omics Data: A Review from a Statistical Perspective
    Zhixiang Lin · 2022 · Springer handbooks of computational statistics
  97. The regulatory network analysis of single-cell RNA-seq and single-cell ATAC-seq data using differential equation models with perturbations
    Ming Cao, Hang Mi, Qinke Peng · 2022 · IEEE International Conference on Bioinformatics and Biomedicine (BIBM)
  98. Simultaneous Analysis of Single-nucleus Transcriptome and Chromatin Accessibility Unveils the Mechanisms of Leaf Cell Development in Arachis hypogaea L.
    Hao Liu, Quanqing Deng, Puxuan Du, Qing Lu, Sunil S. Gangurde, Yuan Xiao, Dongxiu Hu, Wenyi Wang, Haifen Li, Shaoxiong Li et al. · 2023 · Research Square
  99. Data from Computational Identification of Preneoplastic Cells Displaying High Stemness and Risk of Cancer Progression
    Tianyuan Liu, Xuan Zhao, Yuan Lin, Qi Luo, Shaosen Zhang, Yiyi Xi, Yamei Chen, Lin Lin, Wenyi Fan, Jie Yang et al. · 2023
  100. Data from Computational Identification of Preneoplastic Cells Displaying High Stemness and Risk of Cancer Progression
    Tianyuan Liu, Xuan Zhao, Yuan Lin, Qi Luo, Shaosen Zhang, Yiyi Xi, Yamei Chen, Lin Lin, Wenyi Fan, Jie Yang et al. · 2023