Polony gels enable amplifiable DNA stamping and spatial transcriptomics of chronic pain
Fu, Xiaonan, Sun, Li, Dong, Runze, Chen, Jane Y., Silakit, Runglawan, Condon, Logan F., Lin, Yiing, Lin, Shin +2 more·2022·Cell
Cited by (161)
Items 101–161 of 161
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- Construction of multiplexed transcriptome NGS libraries of microdissected tissue samples based on combinational DNA barcode microbeadsKaitong Dang, Yue Zhao, Kaiqiang Ye, Yunxia Guo, Wenjia Wang, Qinyu Ge, Xiangwei Zhao · 2023 · Biotechnology Journal
- Single-Cell Transcriptomics: Technical Advances, Applications and Challenges in Cancer Drug DiscoveryYueying Yang, Lingyu Meng, Teng Zhang, Jianjun Tan · 2025 · Current Cancer Drug Targets
- Decoding spatial transcriptomics: Current trends and future prospects in data analysis methodologiesRunze Li, Xu Chen, Xuerui Yang · 2024 · Chinese Science Bulletin (Chinese Version)
- The Tabulae Paralytica: Multimodal single-cell and spatial atlases of spinal cord injuryMichael A. Skinnider, Matthieu Gautier, Alan Yue Yang Teo, Claudia Kathe, Thomas Haynes Hutson, Achilleas Laskaratos, Alexandra de Coucy, Nicola Regazzi, Viviana Aureli, Nicholas D. James et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- Sequencing-based Spatial Transcriptomics with scRNA-seq SensitivityRenjie Liao, Defeng Fu, Zaoxu Xu, Han Liang, Xiaoran Zhou, Yiling Elaine Chen, Xue‐Qi Liu, Ji Cheng, Ruidong Guo, Li Chen et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Advances in spatial multi-omics technologiesWenyi Zhang, Xingye Huang, Liyong He, Xiangwei Zhao · 2025 · Chinese Science Bulletin (Chinese Version)
- Spatially Resolved Profiling of Compartmentalized Muscle and Brain InflammationThorge Dobbertin, L. Schirmer · 2025 · European Journal of Immunology
- Beyond the Cell AtlasYiming Li, Tingkun Ma, Hao Lu, Yiping Yan, Yucheng Xue, Jinmeng Suo, Yusheng Chen, Zhiyong Peng · 2026 · Journal of the American Society of Nephrology
- The Evolution of Spatial Omics Technologies Introduces A Novel Avenue for Lung Cancer ResearchYue He (何越), Zifan Li, Wenxiang Wang (王文香), Xu Liu, Shanshan Lu, Jing Bai (白晶), Lin Weng, Qingna Zhang, Jun Wang, Kezhong Chen · 2026 · Genomics Proteomics & Bioinformatics
- Optics-free spatial genomics for mapping mammalian brain aging by IRISeqAbdulraouf Abdulraouf, Weirong Jiang, Zehao Zhang, Zihan Xu, Ziyu Lu, Tiffany R. Merlinsky, Andrew Liao, Ahmet Doymaz, Samuel Isakov, Tanvir Raihan et al. · 2026 · Nature Neuroscience
- 3D multi-omics tumour atlases: from technology to biology and clinical translationMiao Liu, Jorge I. Villazon, André Forjaz, Xiaolong Tian, Rong Fan, Siyuan Wang, Lingyan Shi, Denis Wirtz, Ashley L. Kiemen · 2026 · Nature reviews. Cancer
- Integrating cytological images and spatial transcriptomics for cell segmentation with DISSECTYufeng He, Y ZHAO, Rui Zhang, Heli Yang, Zongxu Zhang, Pengfei Ren, Ce Luo, Peng Zhang, Z K Zhang, Sen Hou et al. · 2026 · Nature Computational Science
- Large field of view and spatial region of interest transcriptomics in fixed tissueXiaonan Cui, Dong Xue, Mengzhu Hu, Wenjian Zhou, Weiyang Shi · 2024 · Communications Biology
- Well-ST-seq: cost-effective spatial transcriptomics at cellular level and high RNA capture efficiencyNianzuo Yu, Zhengyang Jin, Chongyang Liang, Junhu Zhang, Bai Yang · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- Spatially tuneable multi-omics sequencing using light-driven combinatorial barcoding of molecules in tissuesGiorgia Battistoni, Sito Torres-Garcia, Chee Ying Sia, Silvia Corriero, Carla Boquetale, Elena Williams, Martina Alini, Nicole Hemmer, Shankar Balasubramanian, Benjamin Czech et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
- OpenFISH enables integrated high-resolution spatial transcriptomics and metabolomics on a single tissue sectionXinyang Li, Yuan Huang, Shuo Wang, Ya Li, Fengting Jiang, Jiawei Gao, Yaran Yang, Qingfeng Wu, Woo‐Ping Ge, Lihui Duan · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Decoder-FFPE-seq enables sensitive, genome-wide spatial transcriptomics of archival tissues at single-cell resolutionJiao Cao, Jun Zeng, Yiwei Meng, Shanqing Huang, Jing Zhang, Xing Fang, Yang Guo, Weixiong Shi, Yutong Liu, Zhong Zheng et al. · 2026 · Science Advances
- Graph-based contrastive learning enables unified integration and niche transfer across single-cell and spatial multi-omicsWeige Zhou, Xueying Fan, Lanxiang Li, Jianrong Zheng, Xiaodong Liu, Wenfei Jin, Luyi Tian · 2026 · Briefings in Bioinformatics
- Advancing Cardiovascular Medicine: Innovative Therapeutic Pathways with Single-Cell TechnologiesJiahui Ji, Eric L. Lindberg, Daniel Reichart · 2025 · Current Treatment Options in Cardiovascular Medicine
- A Single-Cell Omics Technical Guide for Advancing Neuropsychiatric ResearchKayleigh Casmey, Maria Zimmermann, Yuxin Xie, Sierra A. Codeluppi-Arrowsmith, Gustavo Turecki · 2025 · Genes
- Deep Learning‐Based Quality Control Using Subcellular RNA Spatial Distribution Patterns for Cell Segmentation in Spatial Transcriptomics DataRenpeng Ding, Kerem Celikay, Ming Ni, Yong Hou, Yan Zhou, Karl Rohr · 2025 · Small Methods
- DANST enables cell-type deconvolution in spatial transcriptomics using deep domain adversarial neural networksXueqin Zhang, Zhichao Wu, Tianqi Wang, Yunlan Zhou, Weihong Ding, Huitong Zhu, Qing Zhang · 2026 · Communications Biology
- Dissecting human organ development using spatial technologiesXiaoshan Zhang, J. Jeya Vandana, Benjamin C. Greenspun, Shuibing Chen · 2026 · Developmental Cell
- Amplification bias in sequencing-based spatial transcriptomics: sources, mechanisms, impacts, and mitigation strategiesYuting Shan, Yanyan Piao, Qinyu Ge · 2026 · Briefings in Bioinformatics
- Dendrimeric DNA Coordinate Barcoding Design for Spatial RNA SequencingJiao Cao, Zhong Zheng, Di Sun, Xin Chen, Rui Cheng, Tianpeng Lv, Yu An, Junhua Zheng, Jia Tao Song, Lingling Wu et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- scResolve: Recovering single cell expression profiles from multi-cellular spatial transcriptomicsHao Chen, Young Je Lee, Jose A. Ovando, Lorena Rosas, Mauricio Rojas, Ana Lucia Mora, Ziv Bar‐Joseph, Jose Lugo-Martinez · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- scBSP: A fast and accurate tool for identifying spatially variable genes from spatial transcriptomic dataJinpu Li, Yiqing Wang, Mauminah Raina, Chunhui Xu, Li Su, Qi Guo, Qin Ma, Juexin Wang, Dong He Xu · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
- Optics-free reconstruction of shapes, images and volumes with DNA barcode proximity graphsHanna Liao, Sanjay V. Kottapalli, Yuqi Huang, Matthew Chaw, Jase Gehring, Olivia Waltner, Melissa Phung-Rojas, Riza M. Daza, Frederick A. Matsen IV, Cole Trapnell et al. · 2026 · eLife
- Optics-free reconstruction of shapes, images and volumes with DNA barcode proximity graphsHanna Liao, Sanjay V. Kottapalli, Yuqi Huang, Matthew Chaw, Jase Gehring, Olivia Waltner, Melissa Phung-Rojas, Riza M. Daza, Frederick A. Matsen IV, Cole Trapnell et al. · 2026 · eLife
- Embryo-scale Visual Cell Sorting reveals a conserved transcriptomic signature of nucleolar size linked to proteostasisHyeon-Jin Kim, Sriram Pendyala, Josephine Lin, Tony Cooke, Gang Li, William Stafford Noble, Xinxian Deng, Christine M. Distèche, Cole Trapnell, Douglas M. Fowler · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Development of spatial transcriptomics and its application in tumor studyFulin Liu, Wenqi Duan, Guohui Zhang · 2024 · Elsevier eBooks
- Learning Phenotype Associated Signature in Spatial Transcriptomics with PASSAGEChen‐Kai Guo, Chen‐Rui Xia, Guangdun Peng, Zhi‐Jie Cao, Ge Gao · 2025 · Small Methods
- Advances in single-cell RNA-seq for nascent transcriptome and epitranscriptomeMinsong Gao, Jianzhao Liu · 2025 · Scientia Sinica Vitae
- Sequencing-based Spatial Transcriptomics with scRNA-seq SensitivityGufeng Wang, Renjie Liao, Defeng Fu, Zaoxu Xu, Han Liang, Xiaoran Zhou, Chen Yiling, Xue‐Qi Liu, Ji Cheng, Ruidong Guo et al. · 2025 · Research Square
- Advances and breakthroughs in single-cell nucleic acid omicsZhongxing Sun, Zhuoning Li, Yin Tang, Fang Dong · 2025 · Scientia Sinica Vitae
- DNA-barcoded microneedle array patch enabling the profiling of in vivo spatiotemporal transcriptomicsYuanbin Guo, Yile Zhang, Xinyin Li, Jingwen Kuang, Ke Cao, Feng Chen, Chunhai Fan, Yongxi Zhao · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Spatial mapping of RNA turnover kinetics and regulatory landscapes of mRNA stability in the mammalian brainQi Qiu, Hongjie Zhang, Zijie Xia, William N. D. Gao, Julie Leu, Dongming Liang, Ying Li, Yijing Su, Emily R. Feierman, Van Horn et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Molecular regulation of spermatogenesis: Insights from spatial transcriptomicsFei-Chen Wang, Zhen He, Hai-Ping Tao, Qi-en Yang · 2026 · Current topics in developmental biology/Current Topics in Developmental Biology
- Central targets for itchDi Mu, Yan-Gang Sun · 2026 · Elsevier eBooks
- Ein halbes Jahrhundert GenexpressionsanalyseTorben Redmer, Josefine Radke, Helena Radbruch · 2026 · Die Pathologie
- Mosaic: Single-Cell Atlas of StressEdward Siler Monk, Bianca M. Shieu, Dhruvita Kumbhani, Liang Fu, Albert Lin, Josephine Amalia Taverna, Carrie Jo Braden, C. Jeff Uribe-Lacy, Wensheng Zhang, Casey M. Sabbag et al. · 2026 · Cells
- Towards digital biology: Recent advances in spatial biology for organogenesis and regenerationHandong Wang, Wang Wenjia, Liuxi Chu, Kaiqiang Ye, Liyong He, Wenyi Zhang, Jiahao Shen, Peidong Qi, Yan Huang, Xiangwei Zhao · 2026 · TrAC Trends in Analytical Chemistry
- Cell Type-informed Characterization of Spatial Niches from Spatial Multimodal and Multi-omics DataGaoyuan Du, Jialuo Xu, Xinrong Wei, Chang Liu, Dongmin Zhao, Xiangting Jia, Xingyi Li, Xuequn Shang · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Spatially tunable multiomic sequencing using light-driven combinatorial barcoding of molecules in tissuesGiorgia Battistoni, Sito Torres-Garcia, Chee Ying Sia, Silvia Corriero, Carla Boquetale, Elena Williams, Anna Cregeen, Karolina Wasilewska, Martina Alini, Nicole Hemmer et al. · 2026 · Proceedings of the National Academy of Sciences
- An Integrated and Robust Deep Learning Framework for Denoising and Analyzing Single‐Cell Spatial TranscriptomicsYaxuan Cui, Yang Cui, Ruheng Wang, Xin Zeng, Zheyong Zhu, Ding Yi, Ruihua Guo, Tetsuya Sakurai, Kenta Nakai, Xiucai Ye et al. · 2026 · Advanced Intelligent Systems
- Methods toward Single-Cell Total-AnalysisQi Zhang, Wenjun Liao, Ling Lin, XiuJun James Li, Jiaxu Lin, Yang Song, Ying Hou, Jin‐Ming Lin · 2026 · Chemical Reviews
- Well-ST-seq: Cost-Effective and Near-Cellular Spatial Transcriptomics Using Deterministic Barcoded Bead ArraysNianzuo Yu, Zhengyang Jin, Shoujun Zhu, Zhiying Hu, Xiaoduo Tang, Chongyang Liang, Junhu Zhang, Bai Yang · 2026 · Analytical Chemistry
- Correcting spatial transcriptomics data affected by a prevalent transcript leakage problem across platforms, species, and tissuesChristina Huan Shi, Yibo Zhai, Savio Ho-Chit Chow, Li Li, Chase Matthew Carver, Marcos G. Teneche, Jesus Flores, Colin Kern, Peter D. Adams, Bing Ren et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Spatial omics illuminates tumor heterogeneityNeha Srinivas, Serap Erdogmus, Gürkan Mollaoglu · 2026 · Cell Reports Methods
- Spatial omics in the AI era: Technologies, algorithmic ecosystems, biological applications, and large model perspectiveshaoxiu wang, Xinwang Yang, Siheng Wang, Zhe Yang, Xiuhui Yang, Yi Yang, Zirong Li, Yuqi Ren, Qi Zhang, Bowen Zhao et al. · 2026 · iMeta
- dbverse scales spatial omics analysis with embedded analytical databasesEdward C. Ruiz, Veronica Jarzabek, Jiaji George Chen, Timur Rizvanov, Iqra Amin, Ruben Dries · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Spatial transcriptomic and proteomic approaches for profiling prognostic cell communities in solid tumorsXia Lei, Xuan Cui, Yuanli Ni, Yihan Ding, Yadi Miao, Cheng Qian, Juanjuan Shan · 2026 · Journal of Advanced Research
- Spatial chromatin architecture and accessibility co-profiling of mammalian tissuesPing Wang, Juan Wang, Qi-Xuan Wang, Mark W. Youngblood, Yang Cheng, Bo Tao, J. Wong, Yu Luan, Shao-Jun Yu, Alok Swaroop et al. · 2026 · Nature Methods
- Spatial multiomics in biomedical research: advances beyond transcriptomicsXinchen Mao, Zhuo Chen, Emily J. Hwang, Jun Liu, Junrou Huang, Haikuo Li · 2026 · JCI Insight
- Linking hydration capacity to network topology and viscoelasticity in HEMA-based hydrogelsMatías Ezequeil Villares, Marcus Müller, Marcelo R. Ceolín · 2026 · Polymer
- Resolving cell–cell interaction networks and their molecular logic in complex tissuesLei Tang, Kang Tian, Xiaolei Fu, Yingjia Xu, Jincheng Wu, Jinsong Zhang, Xi-Wen Wang, Chunxiang Ye, Qiong Wu, Wei Wu et al. · 2026 · Nature Methods
- Navigating the rapidly evolving landscape of sequencing-based spatial transcriptomics technologies: a comprehensive multi-platform benchmarkJulien Mortier, Isabelle Scheyltjens, Elina Kuznecova, Kelly Lemeire, F Parmentier, Arne Defauw, Frank Vernaillen, Freya Persyn, Jolien De Block, Niels Vandamme et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Artificial intelligence in spatial transcriptomics: a review of methods, datasets, and directionsNeelam Sharma, Rabia Şen, Cemal Erdem · 2026 · Briefings in Bioinformatics