UCell: Robust and scalable single-cell gene signature scoring

Cited by (999)

Items 101–200 of 999

1. Effects of Univariate Stiffness and Degradation of DNA Hydrogels on the Transcriptomics of Neural Progenitor Cells
   Bini Zhou, Bo Yang, Qian Liu, Lu Jin, Yu Shao, Taoyang Yuan, Yanan Zhang, Chao Wang, Ziwei Shi, Xin Li et al. · 2023 · Journal of the American Chemical Society
2. PAX3-FOXO1 dictates myogenic reprogramming and rhabdomyosarcoma identity in endothelial progenitors
   Madeline B Searcy, Randolph K. Larsen, Bradley T. Stevens, Yang Zhang, Hongjian Jin, Catherine J. Drummond, Casey G. Langdon, Katherine E. Gadek, Kyna Vuong, Kristin B. Reed et al. · 2023 · Nature Communications
3. A single-cell atlas characterizes dysregulation of the bone marrow immune microenvironment associated with outcomes in multiple myeloma
   William Pilcher, Lijun Yao, Edgar Gonzalez‐Kozlova, Yered H. Pita-Juárez, Dimitra Karagkouni, Chaitanya R. Acharya, Marina E. Michaud, Mark Hamilton, Shivani Nanda, Yizhe Song et al. · 2026 · Nature Cancer
4. Functional analysis of structural variants in single cells using Strand-seq
   Hyobin Jeong, Karen Grimes, Kerstin Katharina Rauwolf, Peter‐Martin Bruch, Tobias Rausch, Patrick Hasenfeld, Eva Benito, Tobias Roider, Radhakrishnan Sabarinathan, David Porubskỳ et al. · 2022 · Nature Biotechnology
5. Combining single-cell sequencing and spatial transcriptome sequencing to identify exosome-related features of glioblastoma and constructing a prognostic model to identify BARD1 as a potential therapeutic target for GBM patients
   Songyun Zhao, Qi Wang, Kaixiang Ni, Pengpeng Zhang, Yuan Liu, Jiaheng Xie, Wei Ji, Chao Cheng, Qiang Zhou · 2023 · Frontiers in Immunology
6. Decoding Aging Hallmarks at the Single-Cell Level
   Shuai Ma, Xu Chi, Yusheng Cai, Zhejun Ji, Si Wang, Jie Ren, Guang‐Hui Liu · 2023 · Annual Review of Biomedical Data Science
7. Mammary intraepithelial lymphocytes promote lactogenesis and offspring fitness
   Dan Corral, Eduard Ansaldo, Jeremie Delaleu, Andrea Pichler, Juraj Kabát, Cihan Oguz, Ana Teijeiro, Daniel Yong, Mahnoor Abid, Claudia A. Rivera et al. · 2025 · Cell
8. Single-cell spatial transcriptomics of tertiary lymphoid organ-like structures in human atherosclerotic plaques
   Zhichao Lai, Deqiang Kong, Q L Li, Yue Wang, Kang V. Li, Xiaohan Duan, Jiang Shao, Yiyun Xie, Junye Chen, Tianjing Zhang et al. · 2025 · Nature Cardiovascular Research
9. Spatial and Molecular Anatomy of Germ Layers in the Gastrulating Cynomolgus Monkey Embryo
   Guizhong Cui, Su Feng, Yaping Yan, Li Wang, Xiechao He, Xi Li, Yanchao Duan, Jun Chen, Ke Tang, Ping Zheng et al. · 2022 · Cell Reports
10. TREM2+ and interstitial-like macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques
    Amit A. Upadhyay, Elise G. Viox, Timothy N. Hoang, Arun Kumar Boddapati, María Pino, Michelle Y.-H. Lee, Jacqueline Corry, Zachary Strongin, David A. Cowan, Elizabeth N. Beagle et al. · 2023 · Nature Communications
11. Multi-omic human pancreatic islet endoplasmic reticulum and cytokine stress response mapping provides type 2 diabetes genetic insights
    Eishani Kumar Sokolowski, Romy Kursawe, Vijay Selvam, Redwan M. Bhuiyan, Asa Thibodeau, Chi George Zhao, Cassandra Nichole Spracklen, Duygu Ucar, Michael L. Stitzel · 2024 · Cell Metabolism
12. CAR T cells, CAR NK cells, and CAR macrophages exhibit distinct traits in glioma models but are similarly enhanced when combined with cytokines
    Thomas Look, Roman Sankowski, Manon Bouzereau, Serena Fazio, Miaomiao Sun, Alicia Buck, Niklas Binder, Max Mastall, Francesco Prisco, Frauke Seehusen et al. · 2025 · Cell Reports Medicine
13. Integration of single-cell and bulk RNA sequencing data using machine learning identifies oxidative stress-related genes LUM and PCOLCE2 as potential biomarkers for heart failure
    Chaofang Li, Ruyi Hao, Chuanfu Li, Li Liu, Zhengnian Ding · 2025 · International Journal of Biological Macromolecules
14. Bioinformatics roadmap for therapy selection in cancer genomics
    María José Jiménez‐Santos, Santiago García‐Martín, Coral Fustero Torre, Tomás Di Domenico, Gonzalo Goméz-López, Fátima Al‐Shahrour · 2022 · Molecular Oncology
15. Development and experimental validation of a machine learning-based disulfidptosis-related ferroptosis score for hepatocellular carcinoma
    Cong Zhang, Tiantian Xu, Kun Ji, Shoujin Cao, Jing Ai, Junhan Pan, Yunbo Cao, Yuning Yang, Jing Li, Junhui Sun · 2023 · APOPTOSIS
16. NFE2-driven neutrophil polarization promotes pancreatic cancer liver metastasis progression
    Wenchao Xu, Jianzhou Liu, Qiaofei Liu, Jia Xu, Yanan Li, Zhiyong Liang, Haoran Huang, Bowen Huang, Gary Guishan Xiao, Junchao Guo · 2025 · Cell Reports
17. Mast cells regulate the brain-dura interface and CSF dynamics
    Tornike Mamuladze, Tiago H. Zaninelli, Leon C. D. Smyth, Yue Wu, Daviti Abramishvili, Rúben D. M. Silva, Brian Imbiakha, Daan Verhaege, Siling Du, Zachary Papadopoulos et al. · 2025 · Cell
18. Comparative Analysis of Single-cell and Single-nucleus RNA-sequencing in a Rabbit Model of Retinal Detachment-related Proliferative Vitreoretinopathy
    Clayton P. Santiago, Megan Y. Gimmen, Yuchen Lu, Minda M. McNally, Leighton H. Duncan, Tyler J. Creamer, Linda D. Orzolek, Seth Blackshaw, Mandeep S. Singh · 2023 · Ophthalmology Science
19. Age-Related Alterations in Peripheral Immune Landscape with Magnified Impact on Post-Stroke Brain
    Jianan Lü, Huaming Li, Guoqiang Zhang, Fan Yang, Xiaotao Zhang, An Ping, Zhouhan Xu, Yichen Gu, Rui Wang, Dan Ying et al. · 2023 · Research
20. Machine learning algorithms integrate bulk and single-cell RNA data to unveil oxidative stress following intracerebral hemorrhage
    Chaonan Du, Cong Wang, Zhiwei Liu, Wenxuan Xin, Qizhe Zhang, Alleyar Ali, Xinrui Zeng, Zhenxing Li, Chiyuan Ma · 2024 · International Immunopharmacology
21. Pan-cancer drivers of metastasis
    Ryan Lusby, Engin Demirdizen, Mohammed Inayatullah, Paramita Kundu, Óscar Maiques, Ziyi Zhang, Mikkel G. Terp, Victoria Sanz‐Moreno, Vijay Kumar Tiwari · 2025 · Molecular Cancer
22. Atypical B cells and impaired SARS-CoV-2 neutralization following heterologous vaccination in the elderly
    Isabella A.T.M. Ferreira, Colin Y.C. Lee, William S. Foster, Adam Abdullahi, Lisa M. Dratva, Zewen Kelvin Tuong, Benjamin J. Stewart, John R. Ferdinand, Stéphane M. Guillaume, Martin Potts et al. · 2023 · Cell Reports
23. Wounding triggers invasive progression in human basal cell carcinoma
    Laura Yerly, Massimo Andreatta, Josep Garnica, Charlée Nardin, Jérémy Di Domizio, François Aubin, Michel F. Gilliet, Santiago J. Carmona, François Kuonen · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
24. Single-cell RNA sequencing reveals tumor immune microenvironment in human hypopharygeal squamous cell carcinoma and lymphatic metastasis
    Ce Li, Rui Guan, Wenming Li, Dongmin Wei, Shengda Cao, Chenyang Xu, Fen Chang, Pin Wang, Long Chen, Dapeng Lei · 2023 · Frontiers in Immunology
25. Single-cell RNA sequencing reveals special basal cells and fibroblasts in idiopathic pulmonary fibrosis
    Chengji Jin, Yahong Chen, Yujie Wang, Jia Li, Jin Liang, Shaomao Zheng, Lipeng Zhang, Qiaoyu Li, Yongchao Wang, Fayu Ling et al. · 2024 · Scientific Reports
26. Tumor-Associated Microglia Secrete Extracellular ATP to Support Glioblastoma Progression
    Caren Yu-Ju Wu, Yiyun Chen, Ya-Jui Lin, Kuo‐Chen Wei, Kwang‐Yu Chang, Li-Ying Feng, Ko‐Ting Chen, Gordon Li, Alexander Liang Ren, Ryan Takeo Nitta et al. · 2024 · Cancer Research
27. Durable response to CAR T is associated with elevated activation and clonotypic expansion of the cytotoxic native T cell repertoire
    Giulia Cheloni, Dimitra Karagkouni, Yered H. Pita-Juárez, Daniela Torres, Eleni Kanata, Jessica J. Liegel, Zachary M. Avigan, Isabella Saldarriaga, Georges Chedid, Kathrine S Rallis et al. · 2025 · Nature Communications
28. Brain-engrafted monocyte-derived macrophages from blood and skull-bone marrow exhibit distinct properties
    Siling Du, Feiya Ou, Antoine Drieu, Eric Z. Xu, Yumeng Cheng, Steffen E. Storck, Tornike Mamuladze, Jay Cao, Nora Abduljawad, Bishan Bhattarai et al. · 2026 · Neuron
29. Iron Chelation Therapy Elicits Innate Immune Control of Metastatic Ovarian Cancer
    Tito Alejandro Sandoval, Camilla Salvagno, Chang-Suk Chae, Deepika Awasthi, Paolo Giovanelli, Matías Marín Falco, Sung‐Min Hwang, Elí Terán-Cabanillas, Lasse Suominen, Takahiro Yamazaki et al. · 2024 · Cancer Discovery
30. Convergent alterations in the tumor microenvironment of MYC-driven human and murine prostate cancer
    Mindy Kim Graham, Rulin Wang, Roshan V. Chikarmane, Bulouere Abel, Ajay M. Vaghasia, Anuj Gupta, Qizhi Zheng, Jessica L Hicks, Polina Sysa‐Shah, Xin Pan et al. · 2024 · Nature Communications
31. Deconvoluting clonal and cellular architecture in IDH-mutant acute myeloid leukemia
    Sirenko, Maria, Lee, Soobeom, Sun, Zhengxi, Chaligne, Ronan, Loghavi, Sanam, Asimomitis, Georgios, Brierley, Charlotte K., Bernard, Elsa, Cai, Sheng F., Myers, Robert M. et al. · 2025 · Cell Stem Cell
32. Network-based prioritization and validation of regulators of vascular smooth muscle cell proliferation in disease
    Jordi Lambert, Sebnem Oc, Matthew D. Worssam, Daniel Häußler, Charles Ugochukwu Solomon, Nichola L. Figg, Ruby M. Baxter, Maria Imaz, James C K Taylor, Kirsty Foote et al. · 2024 · Nature Cardiovascular Research
33. HMGA1 orchestrates chromatin compartmentalization and sequesters genes into 3D networks coordinating senescence heterogeneity
    Ioana Olan, Masami Ando‐Kuri, Aled Parry, Tetsuya Handa, Stefan Schoenfelder, Peter Fraser, Yasuyuki Ohkawa, Hiroshi Kimurâ, Masako Narita, Masashi Narita · 2024 · Nature Communications
34. NBAtlas: A harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors
    Noah Bonine, Vittorio Zanzani, Annelies Van Hemelryk, Bavo Vanneste, C. Zwicker, Tinne Thoné, Sofie Roelandt, Sarah-Lee Bekaert, Jan Köster, Isabelle Janoueix‐Lerosey et al. · 2024 · Cell Reports
35. Young fibroblast-derived migrasomes alleviate keratinocyte senescence and enhance wound healing in aged skin
    Hanlin Tu, Yingliang Shi, Yi Guo, Zhongyang Zou, Yan He, Jing Zhou, Sangang He, Guoliang Sa · 2025 · Journal of Nanobiotechnology
36. Combination radiation and αPD-L1 enhance tumor control by stimulating CD8+ PD-1+ TCF-1+ T cells in the tumor-draining lymph node
    Yang Shen, Erin C. Connolly, Meili Aiello, Chengjing Zhou, Prasanthi Chappa, Haorui Song, Patan Tippitak, Tarralyn Y. Clark, Maria Andrea Cardenas, Nataliya Prokhnevska et al. · 2025 · Nature Communications
37. OH2 oncolytic virus: A novel approach to glioblastoma intervention through direct targeting of tumor cells and augmentation of anti-tumor immune responses
    Yi Zheng, Xiaomin Wang, Qiang Ji, Aizhong Fang, Lairong Song, Xiaoying Xu, Yi Lin, Yichen Peng, Jianyu Yu, Lei Xie et al. · 2024 · Cancer Letters
38. Aging and senescent fates of oligodendrocyte precursor cells in the mouse brain
    Paul Timothy Gomez, Chase Matthew Carver, Sonia L. Rodriguez, Liguo Wang, Xu Zhang, Marissa J. Schafer · 2024 · npj Aging
39. Peritoneal resident macrophages constitute an immunosuppressive environment in peritoneal metastasized colorectal cancer
    Job Saris, Andrew Y. F. Li Yim, Sanne Bootsma, Kristiaan Lenos, Rosalia Franco Fernandez, H. N. Khan, Jan Verhoeff, Dennis Poel, N M Mrzlikar, L. Xiong et al. · 2025 · Nature Communications
40. B cells modulate lung antiviral inflammatory responses via the neurotransmitter acetylcholine
    Antonio Cembellin Prieto, Zheng Li Luo, Heather M. Kulaga, Nicole Baumgarth · 2025 · Nature Immunology
41. Transcriptomic and spatial organization of telencephalic GABAergic neurons
    Cindy T. J. van Velthoven, Yuan Gao, Michael Kunst, Changkyu Lee, Delissa McMillen, Anish Bhaswanth Chakka, Tamara Casper, Michael Clark, Rushil Chakrabarty, Scott F. Daniel et al. · 2025 · Nature
42. The Transcriptional Landscape of Pericytes in Acute Ischemic Stroke
    Carolina Buizza, Andreas Enström, R. Carlsson, Gesine Paul · 2023 · Translational Stroke Research
43. FixNCut: single-cell genomics through reversible tissue fixation and dissociation
    Laura Jiménez-Gracia, Doménica Marchese, Juan Camilo Nieto, Ginevra Caratù, Elisa Melón-Ardanaz, Victòria Gudiño, Sara Roth, Kellie Wise, Natalie K. Ryan, Kirk B. Jensen et al. · 2024 · Genome biology
44. CD8+ T-cell exhaustion: Impediment to triple-negative breast cancer (TNBC) immunotherapy
    Dandan Feng, Dongqing Pu, Jinlu Ren, Ming Liu, Zhen Zhang, Zhiyong Liu, Jingwei Li · 2024 · Biochimica et Biophysica Acta (BBA) - Reviews on Cancer
45. Single‐cell atlas of epithelial and stromal cell heterogeneity by lobe and strain in the mouse prostate
    Mindy Kim Graham, Roshan V. Chikarmane, Rulin Wang, Ajay M. Vaghasia, Anuj Kumar Gupta, Qizhi Zheng, Bulouere Princess Wodu, Xin Hui Pan, Nicole Castagna, Jianyong Liu et al. · 2022 · The Prostate
46. Single-cell RNA sequencing reveals that an imbalance in monocyte subsets rather than changes in gene expression patterns is a feature of postmenopausal osteoporosis
    Lin Tao, Wen Jiang, Hao Li, Xiaochuan Wang, Zixuan Tian, Keda Yang, Yue Zhu · 2024 · Journal of Bone and Mineral Research
47. Nanomaterial‐Mediated Reprogramming of Macrophages to Inhibit Refractory Muscle Fibrosis
    Xu Cheng, Hao Sui, Fangman Chen, Chenghao Li, Meijun Du, Shiming Zhang, Jiali Chen, Jinfeng Dou, Yixuan Huang, Xiaochun Xie et al. · 2024 · Advanced Materials
48. Fusobacterium nucleatum interacts with cancer-associated fibroblasts to promote colorectal cancer
    Jessica Karta, Marianne Meyers, Fabien Rodriguez, Eric Koncina, Cedric Gilson, Eliane Klein, Monica Gabola, Mohaned Benzarti, Pau Pérez Escriva, José Alberto Molina‐Tijeras et al. · 2025 · The EMBO Journal
49. A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer
    Alessia Centonze, Adrià-Jaume Roura, Meritxell Novillo-Font, Cristina Giordano, Xavier Hernando‐Momblona, Montserrat Llanses, Paula Prats, Marta Sevillano, Débora Cabot, Mireia Novell et al. · 2025 · Cancer Discovery
50. A longitudinal single-cell atlas to predict outcome and toxicity after BCMA-directed CAR T cell therapy in multiple myeloma
    Michael Rade, David Fandrei, Markus Kreuz, Sabine Seiffert, Anja Grahnert, Maik Friedrich, Thomas C. Wiemers, Patrick Born, Luise Fischer, Heike Weidner et al. · 2025 · Cancer Cell
51. Cytoskeleton remodeling induced by SMYD2 methyltransferase drives breast cancer metastasis
    Alexandre G. Casanova, Gaël S. Roth, Simone Hausmann, Xiaoyin Lu, Ludivine J. M. Bischoff, Emilie M. Froeliger, Lucid Belmudes, Ekaterina Bourova-Flin, Natasha Mahealani Flores, Ana Morales Benitez et al. · 2024 · Cell Discovery
52. Tracing back primed resistance in cancer via sister cells
    Jun Dai, Shuyu Zheng, Matías Marín Falco, Jie Bao, Johanna Eriksson, Sanna Pikkusaari, Sofia Forstén, Jing Jiang, Wenyu Wang, Luping Gao et al. · 2024 · Nature Communications
53. The glioblastoma multiforme tumor site promotes the commitment of tumor-infiltrating lymphocytes to the T H 17 lineage in humans
    Meike Mitsdoerffer, Lilian Aly, Melanie Barz, Thomas Engleitner, Christopher Sie, Claire Delbridge, Gildas Lepennetier, Rupert Öllinger, Monika Pfaller, Benedikt Wiestler et al. · 2022 · Proceedings of the National Academy of Sciences
54. Intravenous BCG vaccination reduces SARS-CoV-2 severity and promotes extensive reprogramming of lung immune cells
    Alok Kumar Singh, Rulin Wang, Kara A. Lombardo, Monali Praharaj, C. Korin Bullen, Peter K. Um, Manish Gupta, Geetha Srikrishna, S. Lindsey Davis, Oliver D. Komm et al. · 2023 · iScience
55. Architecting the metabolic reprogramming survival risk framework in LUAD through single-cell landscape analysis: three-stage ensemble learning with genetic algorithm optimization
    Xinti Sun, Min-Yu Nong, Fei Meng, Sun Xiaojuan, Lihe Jiang, Zihao Li, Peng Zhang · 2024 · Journal of Translational Medicine
56. Cellular heterogeneity and key subsets of tissue-resident memory T cells in cervical cancer
    Fuhao Wang, Shengqin Yue, Qingyu Huang, Tianyu Lei, Xiaohui Li, Cong Wang, Jinbo Yue, Chao Liu · 2024 · npj Precision Oncology
57. Prognostic heterogeneity of Ki67 in non‐small cell lung cancer: A comprehensive reappraisal on immunohistochemistry and transcriptional data
    Yujing Yang, Xinye Shao, Zhi Li, Lingyun Zhang, Bowen Yang, Bo Jin, Xuejun Hu, Xiujuan Qu, Xiaofang Che, Yunpeng Liu · 2024 · Journal of Cellular and Molecular Medicine
58. Antigen specificity shapes distinct aging trajectories of memory CD8⁺ T cells
    Ines Sturmlechner, Abhinav K. Jain, Bin Hu, Rohit R. Jadhav, Wenqiang Cao, Hirohisa Okuyama, Lü Tian, Cornelia M. Weyand, Jörg J. Goronzy · 2025 · Nature Communications
59. Targeting amyloid-β pathology by chimeric antigen receptor astrocyte (CAR-A) therapy
    Yun Chen, Yizhou A. Liu, Khai M. Nguyen, Junjie Wu, Sihui Song, Kent Lin, Patrick Fernandes Rodrigues, Siling Du, Charles Zhou, Kyle Xiong et al. · 2026 · Science
60. Luminal epithelial cells integrate variable responses to aging into stereotypical changes that underlie breast cancer susceptibility
    Rosalyn W. Sayaman, Masaru Miyano, Eric G Carlson, Parijat Senapati, Arrianna Zirbes, Sundus Shalabi, Michael E. Todhunter, Victoria E Seewaldt, Susan L. Neuhausen, Martha R. Stampfer et al. · 2024 · eLife
61. High-dose intravenous BCG vaccination induces enhanced immune signaling in the airways
    Joshua M. Peters, Edward B. Irvine, Mohau S. Makatsa, Jacob M. Rosenberg, Marc H. Wadsworth, Travis K. Hughes, Matthew S. Sutton, Sarah K. Nyquist, Joshua D. Bromley, Rajib Mondal et al. · 2025 · Science Advances
62. Spatial Profiling Identifies Regionally Distinct Microenvironments and Targetable Immunosuppressive Mechanisms in Pediatric Osteosarcoma Pulmonary Metastases
    Jason Eigenbrood, Nathan W. Wong, Paul W. Mallory, Janice S. Pereira, Demond Williams, Douglass W. Morris-II, Jessica A. Beck, James C. Cronk, Carly M. Sayers, Monica Mendez et al. · 2025 · Cancer Research
63. Cell-intrinsic metabolic phenotypes identified in patients with glioblastoma, using mass spectrometry imaging of 13C-labelled glucose metabolism
    Anastasia Tsyben, Andreas Dannhorn, Gregory R. Hamm, Matthaios Pitoulias, Dominique‐Laurent Couturier, Ashley Sawle, Mayen Briggs, Alan J. Wright, Cara R. Brodie, Lee Mendil et al. · 2025 · Nature Metabolism
64. Intrathymic dendritic cell-biased precursors promote human T cell lineage specification through IRF8-driven transmembrane TNF
    Kai Ling Liang, Juliette Roels, Marieke Lavaert, Tom Putteman, Lena Boehme, Laurentijn Tilleman, Imke Velghe, Valentina Pegoretti, Inge Van de Walle, Stephanie Sontag et al. · 2023 · Nature Immunology
65. Role of glycosylation-related gene MGAT1 in pancreatic ductal adenocarcinoma
    Lai Jiang, Jie Liu, Shengke Zhang, Cheng‐Lu Jiang, Jinbang Huang, Haiqing Chen, Xuancheng Zhou, Yiping Fu, Zhongqiu Yang, Rui Wang et al. · 2024 · Frontiers in Immunology
66. Relapse to cocaine seeking is regulated by medial habenula NR4A2/NURR1 in mice
    Jessica E. Childs, Samuel Morabito, Sudeshna Das, Caterina Santelli, Victoria Pham, Kelly M. Kusche, Vanessa Alizo Vera, Fairlie Reese, Rianne R. Campbell, Dina P. Matheos et al. · 2024 · Cell Reports
67. Unveiling the role of ABI3 and hub senescence-related genes in macrophage senescence for atherosclerotic plaque progression
    Yajuan Fu, Juan Zhang, Qiujun Liu, Lan Yang, Qianqian Wu, Xiaomin Yang, Lexin Wang, Ning Ding, Jiantuan Xiong, Yujing Gao et al. · 2023 · Inflammation Research
68. A novel subpopulation of monocytes with a strong interferon signature indicated by SIGLEC-1 is present in patients with in recent-onset type 1 diabetes
    Mengqi Guo, Han Guo, Jingjing Zhu, Fei Wang, Jianni Chen, Chuan Wan, Yujie Deng, Fang Wang, Lili Xu, Ying Chen et al. · 2024 · Diabetologia
69. Predicting mitophagy-related genes and unveiling liver endothelial cell heterogeneity in hepatic ischemia-reperfusion injury
    Bochen Pan, Xuan Ma, Shihuan Zhou, Xiaoling Cheng, Jianwei Fang, Qiuyun Yi, Yuke Li, Song Li, Jiawei Yang · 2024 · Frontiers in Immunology
70. Landscape of the Peripheral Immune Response Induced by Intraoperative Radiotherapy Combined with Surgery in Early Breast Cancer Patients
    Danian Dai, Xue-Rui Li, Hong-Kai Zhuang, Yun Ling, Le-Zi Chen, Cheng Long, Jinhui Zhang, Yun-Jie Wang, Yue-Hua Li, Hailin Tang et al. · 2024 · Advancement of science
71. Single-Nucleus RNA Sequencing Reveals the Spatiotemporal Dynamics of Disease-Associated Microglia in Amyotrophic Lateral Sclerosis
    Lu-Xi Chen, Mei-Di Zhang, Haifeng Xu, Hai-Qin Ye, Dian-Fu Chen, Pei‐Shan Wang, Zhi-Wei Bao, Sheng-Mei Zou, Yong-Ting Lv, Zhi‐Ying Wu et al. · 2024 · Research
72. Comparative analysis of single-cell pathway scoring methods and a novel approach
    Ruoqiao Huiyi Wang, Juilee Thakar · 2024 · NAR Genomics and Bioinformatics
73. Single-cell multi-omics analysis reveals candidate therapeutic drugs and key transcription factor specifically for the mesenchymal subtype of glioblastoma
    Yufan Yang, Ziyuan Liu, Yerong Wei, Shuai He, Ancheng Gu, Zhiyong Li, Jianlong Li, Zhongyuan Xu, Bohong Cen · 2024 · Cell & Bioscience
74. Interleukin-35 impairs human NK cell effector functions and induces their ILC1-like conversion with tissue residency features
    Valentin Picant, Lara Revol-Bauz, Laurie Tonon, Tullia Casini, Aurélien Voissière, Dominique Poujol, Emilie Picard, Céline Rodriguez, Cyril Dégletagne, Emily Sible et al. · 2025 · Nature Communications
75. NSD2 inhibitors rewire chromatin to treat lung and pancreatic cancers
    Jinho Jeong, Simone Hausmann, Hanyang Dong, Kacper Szczepski, Natasha Mahealani Flores, Andy Garcia Gonzalez, Liyang Shi, Xiaoyin Lu, Joanna K. Lempiäinen, Moritz Jakab et al. · 2025 · Nature
76. Nerve-associated macrophages control adipose homeostasis across lifespan and restrain age-related inflammation
    Elsie Gonzalez-Hurtado, Claire Leveau, Keyi Li, Manish Mishra, Rihao Qu, Emily L. Goldberg, Sviatoslav Sidorov, Payal Damani‐Yokota, Stephen T. Yeung, Camille F Khairallah et al. · 2025 · Nature Aging
77. UCell and pyUCell: single-cell gene signature scoring for R and Python
    Massimo Andreatta, Santiago J. Carmona · 2026 · Bioinformatics
78. Transcriptional dynamics and epigenetic regulation of E and ID protein encoding genes during human T cell development
    Juliette Roels, Jolien Van Hulle, Marieke Lavaert, Anna A. Kuchmiy, Steven Strubbe, Tom Putteman, Bart Vandekerckhove, Georges Leclercq, Filip Van Nieuwerburgh, Lena Boehme et al. · 2022 · Frontiers in Immunology
79. Chronic changes in oligodendrocyte sub‐populations after middle cerebral artery occlusion in neonatal mice
    Alexandra P. Frazier, Danae N. Mitchell, Katherine S. Given, Genevieve Hunn, Amelia M. Burch, Christine R. Childs, Myriam Moreno‐Garcia, Michael R. Corigilano, Nidia Quillinan, Wendy B. Macklin et al. · 2023 · Glia
80. A CSF-1R-blocking antibody/IL-10 fusion protein increases anti-tumor immunity by effectuating tumor-resident CD8+ T cells
    Yao-Wen Chang, Huey-Wen Hsiao, Ju-Pei Chen, Sheue‐Fen Tzeng, Chin‐Hsien Tsai, Chun-Yi Wu, Hsin‐Hua Hsieh, Santiago J. Carmona, Massimo Andreatta, Giusy Di Conza et al. · 2023 · Cell Reports Medicine
81. Single-cell RNA sequencing reveals myeloid and T cell co-stimulation mediated by IL-7 anti-cancer immunotherapy
    Hye Hyeon Eum, Dasom Jeong, Nayoung Kim, Areum Jo, Minsu Na, Huiram Kang, Yourae Hong, Jin‐Sun Kong, Gi Heon Jeong, Seung‐Ah Yoo et al. · 2024 · British Journal of Cancer
82. Decoding gene regulatory circuitry underlying TNBC chemoresistance reveals biomarkers for therapy response and therapeutic targets
    Ryan Lusby, Ziyi Zhang, Arun Mahesh, Vijay Kumar Tiwari · 2024 · npj Precision Oncology
83. Exploring the interaction between immune cells in the prostate cancer microenvironment combining weighted correlation gene network analysis and single-cell sequencing: An integrated bioinformatics analysis
    Danial Hashemi Karoii, Sobhan Bavandi, Melika Djamali, Ali Shakeri Abroudi · 2024 · Discover Oncology
84. A Prime-Boost Vaccination Approach Induces Lung Resident Memory CD8+ T Cells Derived from Central Memory T Cells That Prevent Tumor Lung Metastasis
    Haoran Xu, Ming Yue, Runhong Zhou, Pui Wang, Michael Yik-Chun Wong, Jinlin Wang, Huarong Huang, Bohao Chen, Yufei Mo, Rachel Chun-Yee Tam et al. · 2024 · Cancer Research
85. Single-nucleus transcriptome atlas of orbitofrontal cortex in ALS with a deep learning-based decoding of alternative polyadenylation mechanisms
    Paul M. McKeever, Aiden M. Sababi, Raghav Sharma, Zhiyu Xu, Shangxi Xiao, Philip McGoldrick, Troy Ketela, Christine Sato, Danielle Moreno, Naomi P. Visanji et al. · 2025 · Cell Genomics
86. Unveiling the crucial role of glycosylation modification in lung adenocarcinoma metastasis through artificial neural network-based spatial multi-omics single-cell analysis and Mendelian randomization
    Penngcheng Zhang, Lexin Wang, Hanwen Liu, Shengyou Lin, Dechao Guo · 2025 · BMC Cancer
87. Transitional CXCL14+ cancer‐associated fibroblasts enhance tumour metastasis and confer resistance to EGFR‐TKIs, revealing therapeutic vulnerability to filgotinib in lung adenocarcinoma
    Weijiao Xu, Haitang Yang, Ke Xu, Anshun Zhu, Sean R. R. Hall, Yunxuan Jia, Baicheng Zhao, Enshuo Zhang, Gang Liu, Jianlin Xu et al. · 2025 · Clinical and Translational Medicine
88. Bile acids produced by gut microbiota activate TGR5 to promote colorectal liver metastasis progression by inducing MDSCs infiltration in liver
    Chenghui Li, Xiao Xing, Mingzhi Li, Yonglei Liu, Sinian Huang, Ting Zhu, Jianxin Gu, Bin Yan · 2025 · International Immunopharmacology
89. The microbial metabolite desaminotyrosine protects against graft-versus-host disease via mTORC1 and STING-dependent intestinal regeneration
    Sascha Göttert, Erik Thiele Orberg, Kaiji Fan, Paul Heinrich, Diana M. Matthe, Omer Khalid, Lena Klostermeier, Chiara Suriano, Nicholas Strieder, Claudia Gebhard et al. · 2025 · Nature Communications
90. Active aldehydes accelerate CD8+ T cell exhaustion by metabolic alteration in the tumor microenvironment
    Yasuharu Haku, Koji Kitaoka, Koki Ichimaru, T Hirano, Jun Wang, Kazuhiro Sonomura, Asuka Maruo, Shuhei Hirose, Yu Wang, Katsuhiro Ito et al. · 2026 · Nature Immunology
91. EXOSC8 promotes colorectal cancer tumorigenesis via regulating ribosome biogenesis-related processes
    Kaisa Cui, Liang Gong, Han Zhang, Ying Chen, Bingxin Liu, Zhicheng Gong, Jiuming Li, Yuanben Wang, Shengbai Sun, Yajun Li et al. · 2022 · Oncogene
92. Positional influence on cellular transcriptional identity revealed through spatially segmented single-cell transcriptomics
    David B. Morse, Aleksandra M. Michalowski, Michele Ceribelli, Joachim De Jonghe, Maria Vias, Deanna Riley, Theresa M. DAVIES-HILL, Ty C. Voss, Stefania Pittaluga, Christoph Muus et al. · 2023 · Cell Systems
93. Chromatin accessibility dynamics in colorectal cancer liver metastasis: Uncovering the liver tropism at single cell resolution
    Shasha Li, Ming Jen Yang, Shuaishuai Teng, Kequan Lin, Yumei Wang, Yanmei Zhang, Wei Guo, Dong Wang · 2023 · Pharmacological Research
94. BRAFV600E-mutated serrated colorectal neoplasia drives transcriptional activation of cholesterol metabolism
    Paulina Rzasa, Sarah Whelan, Pooyeh Farahmand, Hong Cai, Inna Guterman, Raquel Palacios-Gallego, Shanthi Sri Undru, Lauren Sandford, Caleb Green, Catherine Andreadi et al. · 2023 · Communications Biology
95. PANoptosis, an indicator of COVID-19 severity and outcomes
    Qingyuan Yang, Wan-mei Song, Hanizaier Reheman, Dan Wang, Jieming Qu, Yanan Li · 2024 · Briefings in Bioinformatics
96. Immunoreactive Microenvironment Modulator GBP5 Suppresses Ovarian Cancer Progression by Inducing Canonical Pyroptosis
    Chang Zou, Jiacheng Shen, Fangfang Xu, Yingjun Ye, Yuanyuan Wu, Shaohua Xu · 2024 · Journal of Cancer
97. Gene expression landscape of cutaneous squamous cell carcinoma progression
    Tomas Bencomo, Carolyn S. Lee · 2024 · British Journal of Dermatology
98. Circulating tumor-reactive KIR+CD8+ T cells suppress anti-tumor immunity in patients with melanoma
    Benjamin Y. Lu, Liliana E. Lucca, Wesley Lewis, Jiping Wang, Catarina V. Nogueira, Sebastian Heer, Violeta Rayon-Estrada, Pierre‐Paul Axisa, Sarah Reeves, Nicholas Buitrago-Pocasangre et al. · 2024 · Nature Immunology
99. A Phase I Study of FHD-286, a Dual BRG1/BRM (SMARCA4/SMARCA2) Inhibitor, in Patients with Advanced Myeloid Malignancies
    Courtney Denton Dinardo, Amir Tahmasb Fathi, Ashwin Kishtagari, Kapil N. Bhalla, Alfonso Quintás‐Cardama, Sarah A. Reilly, Caroline Almon, Caitlin Patriquin, Salah Nabhan, Kathleen Healy et al. · 2025 · Clinical Cancer Research
100. Matrix stiffness regulates profibrotic fibroblast differentiation and fibrotic niche activation in systemic sclerosis
     Ludwig Ueberall, Hashem Mohammadian, Richard Demmler, Yuko Ariza, Philipp Tripal, Charles Gwellem Anchang, Stefanie Weber, Mario Raphael Angeli, Maria Gabriella Raimondo, Jiyang Chang et al. · 2025 · Annals of the Rheumatic Diseases