Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

Giladi, Amir, Amit, Ido·2018·Cell

Cited by (167)

Items 101–167 of 167

  1. Single-Cell RNA Sequencing to Disentangle the Blood System
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  2. TET mediated epigenetic regulation of iNKT cell lineage fate choice and function
    Ageliki Tsagaratou · 2018 · Molecular Immunology
  3. Using single cell analysis for translational studies in immune mediated diseases: Opportunities and challenges
    Siddhartha M. Sharma, Louis Gioia, Brian T. Abe, Marie Holt, Anne E. Costanzo, Lisa Kain, Andrew I. Su, Luc Teyton · 2018 · Molecular Immunology
  4. SkewC: Identifying cells with skewed gene body coverage in single-cell RNA sequencing data
    Imad Abugessaisa, Akira Hasegawa, Shuhei Noguchi, Mélissa Cardon, Kazuhide Watanabe, Masataka Takahashi, Harukazu Suzuki, Shintaro Katayama, Juha Kere, Takeya Kasukawa · 2022 · iScience
  5. Single-Cell Sequencing Facilitates Elucidation of HIV Immunopathogenesis: A Review of Current Literature
    Silvère D. Zaongo, Vijay Harypursat, Yaokai Chen · 2022 · Frontiers in Immunology
  6. BSDE: barycenter single-cell differential expression for case–control studies
    Mengqi Zhang, F Richard Guo · 2022 · Bioinformatics
  7. Haematopoietic ageing through the lens of single-cell technologies
    Paulina M. Strzelecka, Frédérik Damm · 2021 · Disease Models & Mechanisms
  8. Tissue-specific therapy in immune-mediated kidney diseases: new ARGuments for targeting the IL-23/IL-17 axis
    Christian F. Krebs, Jan‐Eric Turner, Jan-Hendrik Riedel, Ulf Panzer · 2021 · Journal of Clinical Investigation
  9. The Promise of Single-cell Technology in Providing New Insights Into the Molecular Heterogeneity and Management of Acute Lymphoblastic Leukemia
    Holly C.L. Pearson, Kooper V Hunt, Toby N. Trahair, Richard B. Lock, Heather J Lee, Charles Edo de Bock · 2022 · HemaSphere
  10. Secretory GFP reconstitution labeling of neighboring cells interrogates cell–cell interactions in metastatic niches
    Misa Minegishi, Takahiro Kuchimaru, Kaori Nishikawa, Takayuki Isagawa, Satoshi Iwano, Kei Iida, Hiromasa Hara, Shizuka Miura, Marika Sato, Shigeaki Watanabe et al. · 2023 · Nature Communications
  11. Single-Cell Technologies to Decipher the Immune Microenvironment in Myeloid Neoplasms: Perspectives and Opportunities
    Chiara Caprioli, Iman Nazari, Sara Milovanovic, Pier Giuseppe Pelicci · 2022 · Frontiers in Oncology
  12. Immunophenotyping myelodysplastic neoplasms: the role of flow cytometry in the molecular classification era
    Evgenia Verigou, Theodora Chatzilygeroudi, Vasileios Lazaris, Anne-Lise de Lastic, Argiris S. Symeonidis · 2024 · Frontiers in Oncology
  13. Tracking the immune response with single-cell genomics
    Kathryn E. Yost, Howard Y. Chang, Ansuman T. Satpathy · 2019 · Vaccine
  14. Adverse effects of nicotine on cardiogenic differentiation from human embryonic stem cells detected by single-cell RNA sequencing
    Biaochuan He, Jing Chen, Miao Tian, Jimei Chen, Chengbin Zhou, Yanqiu Ou, Sheng Wang, Xiaohong Li, Jian Zhuang · 2020 · Biochemical and Biophysical Research Communications
  15. Single-Cell Analysis of CD4 T Cells in Type 1 Diabetes: From Mouse to Man, How to Perform Mechanistic Studies
    Siddhartha M. Sharma, Jeremy Pettus, Michael Everett Gottschalk, Brian T. Abe, Peter A. Gottlieb, Luc Teyton · 2019 · Diabetes
  16. Deep learning methods and applications in single-cell multimodal data integration
    Franklin Vinny Medina Nunes, Luiza Marques Prates Behrens, Rafael Diogo Weimer, Gabriela Flores Gonçalves, Guilherme da Silva Fernandes, Márcio Dorn · 2025 · Molecular Omics
  17. Inferring changes in histone modification during cell differentiation by ancestral state estimation based on phylogenetic trees of cell types: Human hematopoiesis as a model case
    Kanako O. Koyanagi · 2019 · Gene
  18. The network structural entropy for single-cell RNA sequencing data during skin aging
    Zhilong Liu, Hai Lin, Xiang Li, Hao Xue, Yuer Lu, Fei Xu, Jianwei Shuai · 2024 · Briefings in Bioinformatics
  19. In Silico Evaluation of HN-N07 Small Molecule as an Inhibitor of Angiogenesis and Lymphangiogenesis Oncogenic Signatures in Non-Small Cell Lung Cancer
    Lung-Ching Chen, Ntlotlang Mokgautsi, Yu‐Cheng Kuo, Alexander T.H. Wu, Hsu‐Shan Huang · 2023 · Biomedicines
  20. Multiplexed detection and isolation of viable low-frequency cytokine-secreting human B cells using cytokine secretion assay and flow cytometry (CSA-Flow)
    Ayman Rezk, Rui Li, Amit Bar‐Or · 2020 · Scientific Reports
  21. Single-cell RNA-seq and V(D)J profiling of immune cells in COVID-19 patients
    Xiaoying Fan, Xiangyang Chi, Wenji Ma, Suijuan Zhong, Yunzhu Dong, Wei Zhou, Wenyu Ding, H. Christina Fan, Chonghai Yin, Zhentao Zuo et al. · 2020 · medRxiv
  22. Prognostic and immunological value of LTB4R in pan-cancer
    Sidan Long, Shuangshuang Ji, Kunmin Xiao, Peng Xue, Shijie Zhu · 2021 · Mathematical Biosciences & Engineering
  23. Improved protocol for single-nucleus RNA-sequencing of frozen human bladder tumor biopsies
    Sofie S. Schmøkel, Iver Nordentoft, Sia V. Lindskrog, Philippe Lamy, Michael Knudsen, Jørgen Bjerggaard Jensen, Lars Dyrskjøt · 2023 · Nucleus
  24. Integrating single-cell RNA sequencing data to genome-wide association analysis data identifies significant cell types in influenza A virus infection and COVID-19
    Yixin Zou, Xifang Sun, Yifan Wang, Yidi Wang, Xiangyu Ye, Junlan Tu, Rongbin Yu, Peng Huang · 2023 · Briefings in Functional Genomics
  25. Leveraging Single-Cell RNA-seq Data to Uncover the Association Between Cell Type and Chronic Liver Diseases
    Xiangyu Ye, Julong Wei, Ming Yue, Yan Wang, Hongbo Chen, Yongfeng Zhang, Yifan Wang, Meiling Zhang, Peng Huang, Rongbin Yu · 2021 · Frontiers in Genetics
  26. Single cell and immunity: Better understanding immune cell heterogeneities with single cell sequencing
    Dongsheng Chen, Yonglun Luo, Genhong Cheng · 2022 · Clinical and Translational Medicine
  27. Quality assessment of single-cell RNA sequencing data by coverage skewness analysis
    Imad Abugessaisa, Shuhei Noguchi, Mélissa Cardon, Akira Hasegawa, Kazuhide Watanabe, Masataka Takahashi, Harukazu Suzuki, Shintaro Katayama, Juha Kere, Takeya Kasukawa · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
  28. Cross-species single-cell transcriptomic analysis of animal gastric antrum reveals intense porcine mucosal immunity
    Xiaodan Wang, Fan Hong, Haonan Li, Yalong Wang, Mengxian Zhang, Shibo Lin, Hui Liang, Hongwen Zhou, Yuan Liu, Ye‐Guang Chen · 2023 · Cell Regeneration
  29. MitoTracer facilitates the identification of informative mitochondrial mutations for precise lineage reconstruction
    Xuexin Yu, Jing Hu, Yuhao Tan, Mingyao Pan, Hongyi Zhang, Bo Li · 2025 · PLoS Computational Biology
  30. Single-Cell Transcriptomics
    Marta Prieto‐Vila, Yusuke Yamamoto, Ryou‐u Takahashi, Takahiro Ochiya · 2021 · Springer eBooks
  31. A novel variable neighborhood search approach for cell clustering for spatial transcriptomics
    Aleksandra Djordjevic, Junhua Li, Shuangsang Fang, Lei Cao, Marija Ivanovic · 2024 · Gigabyte
  32. Prognostic value and immunological role of Kruppel-like transcription factor 9 gene in pan-carcinoma
    Weichao Cai, Yecheng Li, Weihong Cao · 2022 · Medicine
  33. Single cell and immunity: Better understanding immune cell heterogeneities with single‐cell sequencing
    Dongsheng Chen, Yonglun Luo, Genhong Cheng · 2022 · Clinical and Translational Discovery
  34. Single-cell RNA Sequencing and Spatial Transcriptomic Technologies and Applications in Exploring Gastric Cancer: A Review
    Chunxiao Zhu, Jiang‐Jiang Qin · 2023 · Oncology Advances
  35. cytoKernel: robust kernel embeddings for assessing differential expression of single-cell data
    Tusharkanti Ghosh, Ryan Michael Baxter, Souvik Seal, Victor G Lui, Pratyaydipta Rudra, Thao Vu, Elena W.Y. Hsieh, Debashis Ghosh · 2025 · Bioinformatics
  36. Regulator of nonsense transcripts 3B is a prognostic biomarker and associated with immune cell infiltration in lung squamous cell and hepatocellular carcinoma
    Pengcheng Li, Mi Zhou, Xiaoli Gan, Chaoyi Yuan, Ganxun Li, Guan-nan Jin, Zeyang Ding · 2024 · Discover Oncology
  37. Unravelling immune cell complexity in atherosclerosis
    Marc Clément, Ziad Mallat · 2018 · Cardiovascular Research
  38. Pan-Cancer Analysis of the Prognostic and Immunological Role of Thymocyte-Expressed Positive Selection-Associated Protein 1 (TESPA1) in Human Tumors
    Lingyu Liu, Yufei Liu · 2022 · Research Square
  39. MARS-seq2.0: an experimental and analytical pipeline for indexed sorting combined with single-cell RNA sequencing v1
    Hadas Keren Shaul, Hadas Keren‐Shaul, Ephraim Kenigsberg, Diego Adhemar Jaitin, Eyal David, Franziska Paul, Amos Tanay, Ido Amit · 2019
  40. Advanced omics approaches in liver transplant settings: current applications and future prospectives
    Huijuan Wang, Yifeng Zhou, Lu Yu, Zhengtao Liu, Shusen Zheng · 2025 · Frontiers in Immunology
  41. 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
  42. Uncovering the role of integrated stress in Alzheimer’s disease through single-cell and transcriptomic analysis
    Ning Sheng, Hong-Yan Wang, Kun Song, Yong Zheng, Zi-Ying Zong, GE Jin-wen, Dahua Wu, Y Wang · 2026 · Scientific Reports
  43. Transcriptome-Wide Analysis of Neutrophil-Related Circ_22232 in Neuroinflammation from Ischemic Stroke Mice
    Zheng Sun, Youdong Zhou, Yanting Liu, Ran Luo, Chunlei Tian, Qianxue Chen · 2023 · Brain Sciences
  44. Evolution of Microglia
    Elena Guffart, Marco Prinz · 2024 · Advances in neurobiology
  45. Pathogenicity of acquired immunity in human diseases
    Kiyoshi Hirahara · 2019 · Seminars in Immunopathology
  46. Lineages and molecular heterogeneity in the developing nervous system
    Gioele La Manno · 2018 · Figshare
  47. Single-Cell Transcriptomics
    Marta Prieto‐Vila, Yusuke Yamamoto, Ryou‐u Takahashi, Takahiro Ochiya · 2018 · Springer eBooks
  48. Single-cell transcriptomic analysis identifies neocortical developmental differences between human and mouse
    Ziheng Zhou, Shuguang Wang, Dengwei Zhang, Xiaosen Jiang, Jie Li, Ying Gu, Hai‐Xi Sun · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  49. Microfluidic Applications in Single-cell Genomic, Transcriptomic and Proteomic Analysis
    Dalia M. Dhingra, Aik Teong Ooi, Pedro Méndez, Shu Wang, Saurabh Gulati, Adam Sciambi, David Ruff · 2020 · Royal Society of Chemistry eBooks
  50. scIVA: Single Cell Database and Tools for Interactive Visualisation and Analysis
    Liam Crowhurst, Onkar Mulay, Nathan J. Palpant, Quan Hoang Nguyen · 2021 · Springer eBooks
  51. Faculty Opinions recommendation of Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics.
    Siddharth Dey, Matt Smith · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
  52. 15th International Symposium on IgANephropathy – IIgANN 2018, Buenos Aires, September 27-29, 2018: Summaries
    2018 · Kidney Diseases
  53. General and Emerging Concepts of Immunity
    Salvador Iborra, Andrés Hidalgo · 2022 · Elsevier eBooks
  54. Towards Unraveling the Puzzle of KMT2A-rearranged Infant Acute Lymphoblastic Leukemia
    Pauline Schneider · 2023 · Utrecht University Repository (Utrecht University)
  55. Single-cell multimodal profiling of monocytes reveals diverse phenotypes and alterations linked to cardiovascular disease risks
    Alexander C. Bashore, Chenyi Xue, Eunyoung Kim, Hanying Yan, Lucie Y. Zhu, Huize Pan, Michael D. Kissner, Leila Saxby Ross, Hanrui Zhang, Mingyao Li et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  56. How Fish Responded to Dietary Methylmercury Exposure? A Single-Cell Transcriptomic Analysis
    Bingxin Yin, Junhao Fang, Yong Liu, Wen‐Xiong Wang, Xun Wang · 2024 · SSRN Electronic Journal
  57. Effects of hybridization and gene flow on gene co-expression networks
    Rogini Runghen, Daniel I. Bolnick · 2025 · Genetics
  58. Code to cure: computational genomics and proteomics in biomedical research and therapeutics
    Taru Singh, Sameer Singh, Uzma Iftekhar, Aleena Taufiq · 2025 · Elsevier eBooks
  59. Single-cell sequencing analysis focused on cancer immunotherapy
    Luciane Tsukamoto Kagohara, Joseph A. Tandurella · 2025 · Oxford University Press eBooks
  60. Targeting FAM83D triggers tumor cell senescence via cGAS-STING signaling activation and reprograms TAMs to combat glioma
    Hongwei Liu, Xuelei Lin, Luohuan Dai, Wen Zhang, Yihao Zhang, Na Liu, Yueshuo Li, Jens Jeshu Peters, Jia Gu, Kang Peng et al. · 2026 · Journal of Experimental & Clinical Cancer Research
  61. Decoding cellular communications and interactions between immune cells by using single-cell approaches
    Pierre Bost · 2020 · theses.fr (ABES)
  62. Application of Multivariate Gaussian Convolution and Mixture Models for Identifying Key Biomarkers Underlying Variability in Transcriptomic Profiles and the Diversity of Therapeutic Responses
    Bastien Chassagnol · 2023 · theses.fr (ABES)
  63. Identification and validation of neuroinflammation related lncRNA PVT1 with transcriptome-wide analysis in cerebral ischemia-reperfusion injury
    Xiaochan Xiao, Huodan Yu, Haichuan Zhou, Wenjian Lu, Yanping Zeng, Qianxue Chen · 2026 · Frontiers in Neurology
  64. From the invasive front to organotropic pre-metastatic niches: spatial immune regulatory networks governing cholangiocarcinoma dissemination and metastasis-intercepting immunotherapy
    Longhao Zhang, Kai Zhang, Zhihong Chen, Xin Lu · 2026 · Frontiers in Immunology
  65. Data-centric feedback loops for next-generation immunotherapy development
    Rotem Shalita, Ido Amit · 2026 · Nature Biomedical Engineering
  66. A Multidimensional Framework for Interpreting Macrophage Markers in the Era of Cellular Heterogeneity
    Alessandro Palma · 2026 · Immunology
  67. Single‐Cell Reference Mapping and Transcriptomic Analysis Identify Fibroblast‐Related ECM Remodeling During Electroacupuncture Treatment for Tendon Repair
    Yang Wu, Boyun Lu, Zitian Zheng, Yucheng Zhu, Xinrui Fu, Meng Yang, Zhenghui Qiu, Chong Zhang, Jin Cheng, Jianquan Wang et al. · 2026 · Advanced Healthcare Materials