In situ sequencing for RNA analysis in preserved tissue and cells
Ke, Rongqin, Mignardi, Marco, Pacureanu, Alexandra, Svedlund, Jessica, Botling, Johan, Wählby, Carolina, Nilsson, Mats·2013·Nature Methods
Cited by (951)
Items 901–951 of 951
- InSituPy: a framework for histology-guided, multi-sample analysis of single-cell spatial omics dataJohannes Wirth, Anna Chernysheva, Birthe Lemke, Isabel Giray, Katja Steiger · 2026 · Bioinformatics
- Emerging oligo-based imaging methods to study chromatin organization in cells and tissueBritta A. M. Bouwman, Linxuan Zhao, Kim L. de Luca, Magda Bienko · 2026 · Current Opinion in Genetics & Development
- Overview of RNA-sequencing and applications to neuro-oncologyHardikkumar M. Patel, Arjun Chaudhary, Chitra Venugopal, Sheila Kumari Singh, Laura Escudero · 2026 · Elsevier eBooks
- Genomics and proteomics in neurooncologyMahmoud M. Elguindy, Manish K. Aghi · 2026 · Elsevier eBooks
- Highly Sensitive and Multiplexed Imaging of Short RNA Sequences in Formalin‐Fixed Paraffin‐Embedded TissueS H Liyanage, Yu‐Sheng Wang, Jia Guo · 2026 · Analysis & Sensing
- Integrated analysis and clinical impact of immune and stromal microenvironments in solid tumorsFlorent Petitprez · 2018 · theses.fr (ABES)
- Lung responses to radiation injury at the single cell levelSandra Curras-Alonso · 2021
- Advanced microscopies for the study of motility behavior in predating Myxococcus xanthusSara Rombouts · 2021 · theses.fr (ABES)
- Coxsackievirus infection in the pathogenesis of type 1 diabetes : linking environmental triggers and autoimmune mechanismsFederica Vecchio · 2023 · theses.fr (ABES)
- A framework for characterisation of intra-tumour heterogeneity of lung cancersLara Jerman · 2024
- Nouvelles approches de biologie intégrative et spatiale dans la découverte de biomarqueurs prédictifs de récidive métastatique dans le cancer du sein triple négatifMyriam Kossaï · 2024 · theses.fr (ABES)
- Spatially organized developmental cell states link paraganglioma and neuroblastoma through chromaffin-neuroblast plasticityJiacheng Zhu, Wenyu Li, Valeriy Paramonov, Peng Cui, Valentin A. Poltorachenko, Jorrit Stada, Maria Arceo, Petra Bullova, Monika Plescher, Karolina Solhusløkk Höse et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Navigating the Landscape of Cancer GenomicsAsha Raghav, Mohit Agarwal, Ahsas Goyal, Neetu Agrawal, Nalini Kanta Sahoo, Sunil Kumar · 2026 · BENTHAM SCIENCE PUBLISHERS eBooks
- Spatially resolved T cell receptor diversity mapping uncovers variability of the cancer immune microenvironmentAnastasia Magoulopoulou, Maria Paraskevi Chatzinikolaou, Andreas Metousis, Taobo Hu, Hui Yu, Ioannis Zerdes, Kang Wang, Theodoros Foukakis, Mengping Long, Karin Leandersson et al. · 2026 · EBioMedicine
- Advances and Challenges in Cell Type Annotation for Spatial TranscriptomicsYuanhao Sun, Feifei Cui, J H Xu, Yajie Meng, Leyi Wei, Quan Zou, Z D Zhang · 2026 · Archives of Computational Methods in Engineering
- 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
- InSituPREP enables 3D single-cell mapping of interaction-associated gene programs in the breast cancer tumor microenvironmentTal Goldberg, Michal Danino-Levi, Modi Safra, Yedaaya Copeland, Efrat Weizman, Noa Konforti, Tal Ishon, Noga Ben-Ari, Yael Brand, Bareket Kruger et al. · 2026 · Nucleic Acids Research
- GEAR Genomics: a user-friendly, open-source web platform enabling interactive genomic analysis for molecular biologistsAndreas Untergasser, Markus Hsi-Yang Fritz, Vladimı́r Beneš, Tobias Rausch · 2026 · Nucleic Acids Research
- Emerging Technologies and InnovationsDonatella Lucchetti, Filomena Colella, Federica Toma, Beatrice Cellini, Alessandro Sgambato · 2026 · Current clinical pathology
- 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
- A ligase-based toolbox for research and diagnostics in molecular medicineUlf D. Landegren · 2026 · Nucleic Acids Research
- From Molecular Visualization to Spatial Landscapes: Engineering the Next Generation of In Situ HybridizationZejia Li, Miaomiao Luo, Minshuai Zhu, Yun Bai · 2026 · Genes
- CIPHER: An end-to-end framework for designing optimized aggregated spatial transcriptomics experimentsZachary Hemminger, Haley De Ocampo, Fangming Xie, Zhiqian Zhai, Jingyi Jessica Li, Roy Wollman · 2026 · PLoS Computational Biology
- Cardiac immunity and heart repair: Mechanism, challenge, and future directionYuan Liu, Qiyu Ren, H T Wang, Xinou Jiang, M H Zhao, Qincheng Min, Yifan Xie, Dongcheng Cai, Yu Nie · 2026 · Chinese Medical Journal
- ModelistsGCN: a multimodal graph convolutional network framework for single-cell spatial transcriptomic cell typingNoa Konforti, Tal Goldberg, Michal Danino-Levi, Yael Ilan, Shahar Alon · 2026 · Briefings in Bioinformatics
- Plant Regulatory Networks Uncovered by Spatial and Multiple Omics ToolsVarucha Misra, A.K. Mall · 2026 · CABI biotechnology series.
- Multiomics integration with artificial intelligence: From bench to bedside in breast cancerSuraya Shabir, P.A. Sofi, Ishtiyak Ahmad Peerzada, Arfa Ji, Hina Qayoom, M Farooq Mir · 2026 · Elsevier eBooks
- Integrative single-cell and spatial transcriptomic approaches to decipher the tumor microenvironment and therapeutic resistance in pancreatic cancerMengting Luo, Feng Shen, Wanli Xu, Christopher Peter Corpe, Jin Wang · 2026 · Cancer Biology & Therapy
- SPATIAL TRANSCRIPTOMICS FOR MOLECULAR DISSECTING OF THE TUMOR IMMUNE MICROENVIRONMENT: COMPARISON OF COMMERCIALLY AVAILABLE PLATFORMSI. V. Larionova, E. O. Shmakova, П.С. Ямщиков, С. А. Ямщикова, Н. В. Чердынцева, Julia G. Kzhyshkowska · 2026 · Molecular Biology
- State-of-the-art approaches for infectious disease diagnostics: single-cell, spatial and next-generation sequencing enhanced by artificial intelligenceDerek S. Angulo-Valdez, Maria Eugenia Garcia-Thomas, Maria V. Guijarro, Glyn D. Palmer, Alberto Paniz‐Mondolfi, Carlos Cordon‐Cardo, Leandro Balzano‐Nogueira · 2026 · Diagnostic histopathology
- Spatial multi-omics analyses of the tumor immune microenvironment: advances and novel therapeutic avenuesHaoyu Wang, Y L Zhu, Maoqian Fang, Xiaoli Zhang, SL Peng, Hongyuan Liang, Dan Dong, Li Li, Kefeng Wang · 2026 · Molecular Cancer
- An integrated protocol for multiplexed DNA FISH and protein detection in large tissue sectionsEleanor M. O'Roberts, Pranauti Panshikar, Xiaoze Li Wang, Christophe Avenel, Quentin Verron, Elena Coulier, Magda Bienko, Charlotte Stadler · 2026 · Journal of Histotechnology
- The Single-Cell Atlas Revolution: Integrating Lineage, Space, and Evolution to Decode Animal BiologyShahab Ur Rehman, Rahmat Ali, Hosameldeen Mohamed Husien, Mengzhi Wang · 2026 · DNA and Cell Biology
- Mitochondrial DNA in Tumor Evolution and Heterogeneity: Characteristics, Technological Advances, Applications and ChallengesZifeng Ruan, Zihao Chen, Weicheng Yu, Maolei Zhang, Xingguo Liu · 2026 · MedComm – Oncology
- Applications and development of in situ nucleic acid visualization techniquesSishuo Chen, D.G. Wei · 2026 · Frontiers in Bioengineering and Biotechnology
- Padlock Probe-Initiated Hybridization Chain Reaction for In Situ RNA ImagingXueqian Xia, Zhaoxiang Xie, Yanxiu Liu, Weiyan Ma, Meng Jiang, Qiuting Xie, Yafang Shi, Lingyu Zhu, Wenhua Li, Chen Lin et al. · 2026 · Analytical Chemistry
- Cell-type-specific alkaloid and terpenoid biosynthesis in glandular trichomes: single-cell and spatial transcriptomic perspectivesHao Wei, Hengyu Zhang, Jinrong Wang, Jingyi Wei, Mengxin Zhu, Abinaya Manivannan · 2026 · Frontiers in Plant Science
- Spatial omics of neuroinflammation: insights across brain diseasesMingming Li, Qianying Wang, Jian Li, Yanjun Liu, Lixia Chen, Pei Liu, Jia Guo · 2026 · Frontiers in Immunology
- Insights Into Spatial Transcriptomics: Exploring Recent Technical Developments and Their Diverse ApplicationsXianghui Li, Zewei Yang, Jingjing Li, Huiru Cao, Ke Xu, Jiawen Shen, Yange Wang, Salwa E. Gomaa, Ge Cheng, Tieshan Teng et al. · 2026 · The FASEB Journal
- Deep Learning-Assisted Prioritization of Candidate Drug Targets in Tumors Using Spatial Multi-OmicsYu-Xian Liu, Xueyan Zhou, Junyuan Zhang, Guochao Liu, Yanni Cao · 2026 · Biology
- Comprehensive performance evaluation of spatial transcriptomics deconvolution methods across diverse computational scenariosZilin Li, Yan Li, Chenguang Zhao, Liang Yu · 2026 · Neurocomputing
- Halo: a pretrained model for whole-cell segmentation from nuclei images in spatial transcriptomicsXingyuan Zhang, Haotian Zhuang, Zhicheng Ji · 2026 · Briefings in Bioinformatics
- OpenFISH enables same-section spatial transcriptomics and MALDI-MSI integrationXinyang Li, Yuan Huang, Shuo Wang, Ya Li, Fengting Jiang, Jiawei Gao, Yaran Yang, Qing-Feng Wu, Woo‐Ping Ge, Lihui Duan · 2026 · Neuron
- Spathology: The Birth of Spatial Pathology as a DisciplineMengping Long, Mats Nilsson, Taobo Hu · 2026 · Life
- Nanoimaging, Spectroscopy, and Biosensor Assays for Alternatively Spliced RNA Isoforms in Disease DiagnosticsUlhas Sopanrao Kadam, Zhongwu Zhou, Joseph Irudayaraj, Il‐Hoon Cho, Jong Chan Hong · 2026 · ACS Omega
- Spatial Transcriptomics Analysis of Ewing SarcomaHeng Luo, Thomas G. P. Grünewald, Moritz Gerstung · 2026 · Methods in molecular biology
- Artificial intelligence in spatial transcriptomics: a review of methods, datasets, and directionsNeelam Sharma, Rabia Şen, Cemal Erdem · 2026 · Briefings in Bioinformatics
- scSpatial: an atlas for single-cell spatial omicsHuaicheng Sun, Yun Bei, Zijie Zhu, Jiannan Deng, Yuan Zhou, Minjie Mou, Tao-Feng Wei, Hengbin Cao, Qingxia Yang, Chong Yao et al. · 2026 · Nucleic Acids Research
- Use of animal models to understand CNS neuroimmunology — guidance from the International Society for Neuroimmunology White Paper Task ForceJennifer L. Gommerman, Katerina Akassoglou, Sergio E. Baranzini, Burkhard Becher, Fabienne Brilot, Gonçalo Castelo‐Branco, Shannon E. Dunn, Maryam Faiz, Alexander Flügel, Nader Ghasemlou et al. · 2026 · Nature Reviews Neurology
- DNA-Assisted Immunoassays for High-Performance Protein AnalysesJunhong Yan · 2014 · KTH Publication Database DiVA (KTH Royal Institute of Technology)
- In situ Sequencing : Methods for spatially-resolved transcriptome analysisMarco Mignardi · 2014 · DiVA (Stockholm University)