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Inference and analysis of cell-cell communication using CellChat

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  1. Byungwook Kim & Luke Child Dabin & Mason Douglas Tate & Hande Karahan & Ahmad Daniel Sharify & Dominic J. Acri & Md Mamun Al-Amin & Stéphanie Philtjens & Daniel Curtis Smith & H. R. Sagara Wijeratne &, 2024. "Effects of SPI1-mediated transcriptome remodeling on Alzheimer’s disease-related phenotypes in mouse models of Aβ amyloidosis," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  2. Na Chen & Na Du & Ruichen Shen & Tianpei He & Jing Xi & Jie Tan & Guangkai Bian & Yanbing Yang & Tiangang Liu & Weihong Tan & Lilei Yu & Quan Yuan, 2023. "Redox signaling-driven modulation of microbial biosynthesis and biocatalysis," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
  3. Jingyang Qian & Hudong Bao & Xin Shao & Yin Fang & Jie Liao & Zhuo Chen & Chengyu Li & Wenbo Guo & Yining Hu & Anyao Li & Yue Yao & Xiaohui Fan & Yiyu Cheng, 2024. "Simulating multiple variability in spatially resolved transcriptomics with scCube," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
  4. Yanmei Zhang & Qifan Hu & Yuquan Pei & Hao Luo & Zixuan Wang & Xinxin Xu & Qing Zhang & Jianli Dai & Qianqian Wang & Zilian Fan & Yongcong Fang & Min Ye & Binhan Li & Mailin Chen & Qi Xue & Qingfeng Z, 2024. "A patient-specific lung cancer assembloid model with heterogeneous tumor microenvironments," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  5. Anjun Ma & Xiaoying Wang & Jingxian Li & Cankun Wang & Tong Xiao & Yuntao Liu & Hao Cheng & Juexin Wang & Yang Li & Yuzhou Chang & Jinpu Li & Duolin Wang & Yuexu Jiang & Li Su & Gang Xin & Shaopeng Gu, 2023. "Single-cell biological network inference using a heterogeneous graph transformer," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  6. Luc Francis & Daniel McCluskey & Clarisse Ganier & Treasa Jiang & Xinyi Du-Harpur & Jeyrroy Gabriel & Pawan Dhami & Yogesh Kamra & Sudha Visvanathan & Jonathan N. Barker & Catherine H. Smith & Frances, 2024. "Single-cell analysis of psoriasis resolution demonstrates an inflammatory fibroblast state targeted by IL-23 blockade," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
  7. Jeff DeMartino & Michael T. Meister & Lindy L. Visser & Mariël Brok & Marian J. A. Groot Koerkamp & Amber K. L. Wezenaar & Laura S. Hiemcke-Jiwa & Terezinha Souza & Johannes H. M. Merks & Anne C. Rios, 2023. "Single-cell transcriptomics reveals immune suppression and cell states predictive of patient outcomes in rhabdomyosarcoma," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
  8. Bofei Wang & Patrick K. Reville & Mhd Yousuf Yassouf & Fatima Z. Jelloul & Christopher Ly & Poonam N. Desai & Zhe Wang & Pamella Borges & Ivo Veletic & Enes Dasdemir & Jared K. Burks & Guilin Tang & S, 2024. "Comprehensive characterization of IFNγ signaling in acute myeloid leukemia reveals prognostic and therapeutic strategies," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  9. Xavier Santamaria & Beatriz Roson & Raul Perez-Moraga & Nandakumar Venkatesan & Maria Pardo-Figuerez & Javier Gonzalez-Fernandez & Jaime Llera-Oyola & Estefania Fernández & Inmaculada Moreno & Andres , 2023. "Decoding the endometrial niche of Asherman’s Syndrome at single-cell resolution," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
  10. Yanchuan Li & Huamei Li & Cheng Peng & Ge Meng & Yijun Lu & Honglin Liu & Li Cui & Huan Zhou & Zhu Xu & Lingyun Sun & Lihong Liu & Qing Xiong & Beicheng Sun & Shiping Jiao, 2024. "Unraveling the spatial organization and development of human thymocytes through integration of spatial transcriptomics and single-cell multi-omics profiling," Nature Communications, Nature, vol. 15(1), pages 1-25, December.
  11. Lin Wei Tung & Elena Groppa & Hesham Soliman & Bruce Lin & Chihkai Chang & Chun Wai Cheung & Morten Ritso & David Guo & Lucas Rempel & Sarthak Sinha & Christine Eisner & Julyanne Brassard & Kelly McNa, 2023. "Spatiotemporal signaling underlies progressive vascular rarefaction in myocardial infarction," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  12. Ha-Linh Nguyen & Tatjana Geukens & Marion Maetens & Samuel Aparicio & Ayse Bassez & Ake Borg & Jane Brock & Annegien Broeks & Carlos Caldas & Fatima Cardoso & Maxim Schepper & Mauro Delorenzi & Caroli, 2023. "Obesity-associated changes in molecular biology of primary breast cancer," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
  13. D’Juan T. Farmer & Jennifer E. Dukov & Hung-Jhen Chen & Claire Arata & Jose Hernandez-Trejo & Pengfei Xu & Camilla S. Teng & Robert E. Maxson & J. Gage Crump, 2024. "Cellular transitions during cranial suture establishment in zebrafish," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  14. Tim Flerlage & Jeremy Chase Crawford & E. Kaitlynn Allen & Danielle Severns & Shaoyuan Tan & Sherri Surman & Granger Ridout & Tanya Novak & Adrienne Randolph & Alina N. West & Paul G. Thomas, 2023. "Single cell transcriptomics identifies distinct profiles in pediatric acute respiratory distress syndrome," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  15. Gregory Farber & Yanhan Dong & Qiaozi Wang & Mitesh Rathod & Haofei Wang & Michelle Dixit & Benjamin Keepers & Yifang Xie & Kendall Butz & William J. Polacheck & Jiandong Liu & Li Qian, 2024. "Direct conversion of cardiac fibroblasts into endothelial-like cells using Sox17 and Erg," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  16. Shirong Cao & Yu Pan & Andrew S. Terker & Juan Pablo Arroyo Ornelas & Yinqiu Wang & Jiaqi Tang & Aolei Niu & Sarah Abu Kar & Mengdi Jiang & Wentian Luo & Xinyu Dong & Xiaofeng Fan & Suwan Wang & Matth, 2023. "Epidermal growth factor receptor activation is essential for kidney fibrosis development," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
  17. David E. Lee & Lauren K. McKay & Akshay Bareja & Yongwu Li & Alastair Khodabukus & Nenad Bursac & Gregory A. Taylor & Gurpreet S. Baht & James P. White, 2022. "Meteorin-like is an injectable peptide that can enhance regeneration in aged muscle through immune-driven fibro/adipogenic progenitor signaling," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
  18. Alek G. Erickson & Alessia Motta & Maria Eleni Kastriti & Steven Edwards & Fanny Coulpier & Emy Théoulle & Aliia Murtazina & Irina Poverennaya & Daniel Wies & Jeremy Ganofsky & Giovanni Canu & Francoi, 2024. "Motor innervation directs the correct development of the mouse sympathetic nervous system," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  19. Shicheng Sun & Ali Motazedian & Jacky Y. Li & Kevin Wijanarko & Joe Jiang Zhu & Kothila Tharmarajah & Kathleen A. Strumila & Anton Shkaruta & L. Rayburn Nigos & Jacqueline V. Schiesser & Yi Yu & Paul , 2024. "Efficient generation of human NOTCH ligand-expressing haemogenic endothelial cells as infrastructure for in vitro haematopoiesis and lymphopoiesis," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
  20. Yanming Ren & Zongyao Huang & Lingling Zhou & Peng Xiao & Junwei Song & Ping He & Chuanxing Xie & Ran Zhou & Menghan Li & Xiangqun Dong & Qing Mao & Chao You & Jianguo Xu & Yanhui Liu & Zhigang Lan & , 2023. "Spatial transcriptomics reveals niche-specific enrichment and vulnerabilities of radial glial stem-like cells in malignant gliomas," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
  21. Isabel Reinisch & Helene Michenthaler & Alba Sulaj & Elisabeth Moyschewitz & Jelena Krstic & Markus Galhuber & Ruonan Xu & Zina Riahi & Tongtong Wang & Nemanja Vujic & Melina Amor & Riccardo Zenezini , 2024. "Adipocyte p53 coordinates the response to intermittent fasting by regulating adipose tissue immune cell landscape," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
  22. Umji Lee & Yadong Zhang & Yonglin Zhu & Allen Chilun Luo & Liyan Gong & Daniel M. Tremmel & Yunhye Kim & Victoria Sofia Villarreal & Xi Wang & Ruei-Zeng Lin & Miao Cui & Minglin Ma & Ke Yuan & Kai Wan, 2024. "Robust differentiation of human pluripotent stem cells into mural progenitor cells via transient activation of NKX3.1," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  23. Yuki Matsushita & Angel Ka Yan Chu & Chiaki Tsutsumi-Arai & Shion Orikasa & Mizuki Nagata & Sunny Y. Wong & Joshua D. Welch & Wanida Ono & Noriaki Ono, 2022. "The fate of early perichondrial cells in developing bones," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
  24. Samantha Henry & Steven Macauley Lewis & Samantha Leeanne Cyrill & Mackenzie Kate Callaway & Deeptiman Chatterjee & Amritha Varshini Hanasoge Somasundara & Gina Jones & Xue-Yan He & Giuseppina Caligiu, 2024. "Host response during unresolved urinary tract infection alters female mammary tissue homeostasis through collagen deposition and TIMP1," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
  25. Yasunori Enomoto & Hiroaki Katsura & Takashi Fujimura & Akira Ogata & Saori Baba & Akira Yamaoka & Miho Kihara & Takaya Abe & Osamu Nishimura & Mitsutaka Kadota & Daisuke Hazama & Yugo Tanaka & Yoshim, 2023. "Autocrine TGF-β-positive feedback in profibrotic AT2-lineage cells plays a crucial role in non-inflammatory lung fibrogenesis," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
  26. Christopher Bono & Yang Liu & Alexander Ferrena & Aneesa Valentine & Deyou Zheng & Bernice E. Morrow, 2023. "Single-cell transcriptomics uncovers a non-autonomous Tbx1-dependent genetic program controlling cardiac neural crest cell development," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
  27. Zi-Xun Yan & Yan Dong & Niu Qiao & Yi-Lun Zhang & Wen Wu & Yue Zhu & Li Wang & Shu Cheng & Peng-Peng Xu & Zi-Song Zhou & Ling-Shuang Sheng & Wei-Li Zhao, 2024. "Cholesterol efflux from C1QB-expressing macrophages is associated with resistance to chimeric antigen receptor T cell therapy in primary refractory diffuse large B cell lymphoma," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  28. Erping Long & Jinhu Yin & Ju Hye Shin & Yuyan Li & Bolun Li & Alexander Kane & Harsh Patel & Xinti Sun & Cong Wang & Thong Luong & Jun Xia & Younghun Han & Jinyoung Byun & Tongwu Zhang & Wei Zhao & Ma, 2024. "Context-aware single-cell multiomics approach identifies cell-type-specific lung cancer susceptibility genes," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  29. Sergei Butenko & Raji R. Nagalla & Christian F. Guerrero-Juarez & Francesco Palomba & Li-Mor David & Ronald Q. Nguyen & Denise Gay & Axel A. Almet & Michelle A. Digman & Qing Nie & Philip O. Scumpia &, 2024. "Hydrogel crosslinking modulates macrophages, fibroblasts, and their communication, during wound healing," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  30. Malosree Maitra & Haruka Mitsuhashi & Reza Rahimian & Anjali Chawla & Jennie Yang & Laura M. Fiori & Maria Antonietta Davoli & Kelly Perlman & Zahia Aouabed & Deborah C. Mash & Matthew Suderman & Nagu, 2023. "Cell type specific transcriptomic differences in depression show similar patterns between males and females but implicate distinct cell types and genes," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  31. Ting Zhong & Xinyu Li & Kang Lei & Rong Tang & Qiaolin Deng & Paul E Love & Zhiguang Zhou & Bin Zhao & Xia Li, 2024. "TGF-β-mediated crosstalk between TIGIT+ Tregs and CD226+CD8+ T cells in the progression and remission of type 1 diabetes," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
  32. Qing, Lingli & Li, Peng & Mehmood, Usman & Dagestani, Abd Alwahed, 2024. "Uncovering the potential impacts of financial inclusion and human development on ecological sustainability in the presence of natural resources and government stability: Evidence from G-20 nations," Resources Policy, Elsevier, vol. 88(C).
  33. Zhenzhen Xun & Xinyu Ding & Yao Zhang & Benyan Zhang & Shujing Lai & Duowu Zou & Junke Zheng & Guoqiang Chen & Bing Su & Leng Han & Youqiong Ye, 2023. "Reconstruction of the tumor spatial microenvironment along the malignant-boundary-nonmalignant axis," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
  34. Rohit Arora & Christian Cao & Mehul Kumar & Sarthak Sinha & Ayan Chanda & Reid McNeil & Divya Samuel & Rahul K. Arora & T. Wayne Matthews & Shamir Chandarana & Robert Hart & Joseph C. Dort & Jeff Bier, 2023. "Spatial transcriptomics reveals distinct and conserved tumor core and edge architectures that predict survival and targeted therapy response," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
  35. Isaac Dean & Colin Y. C. Lee & Zewen K. Tuong & Zhi Li & Christopher A. Tibbitt & Claire Willis & Fabrina Gaspal & Bethany C. Kennedy & Veronika Matei-Rascu & Rémi Fiancette & Caroline Nordenvall & Ul, 2024. "Rapid functional impairment of natural killer cells following tumor entry limits anti-tumor immunity," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
  36. T. Hautz & S. Salcher & M. Fodor & G. Sturm & S. Ebner & A. Mair & M. Trebo & G. Untergasser & S. Sopper & B. Cardini & A. Martowicz & J. Hofmann & S. Daum & M. Kalb & T. Resch & F. Krendl & A. Weisse, 2023. "Immune cell dynamics deconvoluted by single-cell RNA sequencing in normothermic machine perfusion of the liver," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  37. William H. Tomaszewski & Jessica Waibl-Polania & Molly Chakraborty & Jonathan Perera & Jeremy Ratiu & Alexandra Miggelbrink & Donald P. McDonnell & Mustafa Khasraw & David M. Ashley & Peter E. Fecci &, 2022. "Neuronal CaMKK2 promotes immunosuppression and checkpoint blockade resistance in glioblastoma," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
  38. Szymon J. Szymura & Lin Wang & Tiantian Zhang & Soung-chul Cha & Joo Song & Zhenyuan Dong & Aaron Anderson & Elizabeth Oh & Vincent Lee & Zhe Wang & Sapna Parshottam & Sheetal Rao & Jasper B. Olsem & , 2024. "Personalized neoantigen vaccines as early intervention in untreated patients with lymphoplasmacytic lymphoma: a non-randomized phase 1 trial," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
  39. Caitriona M. McEvoy & Julia M. Murphy & Lin Zhang & Sergi Clotet-Freixas & Jessica A. Mathews & James An & Mehran Karimzadeh & Delaram Pouyabahar & Shenghui Su & Olga Zaslaver & Hannes Röst & Rangi Ar, 2022. "Single-cell profiling of healthy human kidney reveals features of sex-based transcriptional programs and tissue-specific immunity," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
  40. Junjun Jing & Jifan Feng & Yuan Yuan & Tingwei Guo & Jie Lei & Fei Pei & Thach-Vu Ho & Yang Chai, 2022. "Spatiotemporal single-cell regulatory atlas reveals neural crest lineage diversification and cellular function during tooth morphogenesis," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
  41. Lichun Ma & Sophia Heinrich & Limin Wang & Friederike L. Keggenhoff & Subreen Khatib & Marshonna Forgues & Michael Kelly & Stephen M. Hewitt & Areeba Saif & Jonathan M. Hernandez & Donna Mabry & Roman, 2022. "Multiregional single-cell dissection of tumor and immune cells reveals stable lock-and-key features in liver cancer," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
  42. Ruiye Bi & Qing Yin & Haohan Li & Xianni Yang & Yiru Wang & Qianli Li & Han Fang & Peiran Li & Ping Lyu & Yi Fan & Binbin Ying & Songsong Zhu, 2023. "A single-cell transcriptional atlas reveals resident progenitor cell niche functions in TMJ disc development and injury," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  43. Nicola A. Kearns & Artemis Iatrou & Daniel J. Flood & Sashini Tissera & Zachary M. Mullaney & Jishu Xu & Chris Gaiteri & David A. Bennett & Yanling Wang, 2023. "Dissecting the human leptomeninges at single-cell resolution," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
  44. Qingnan Liang & Yuefan Huang & Shan He & Ken Chen, 2023. "Pathway centric analysis for single-cell RNA-seq and spatial transcriptomics data with GSDensity," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
  45. Jia Li & Alan J. Simmons & Caroline V. Hawkins & Sophie Chiron & Marisol A. Ramirez-Solano & Naila Tasneem & Harsimran Kaur & Yanwen Xu & Frank Revetta & Paige N. Vega & Shunxing Bao & Can Cui & Regin, 2024. "Identification and multimodal characterization of a specialized epithelial cell type associated with Crohn’s disease," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  46. Mariana Shumliakivska & Guillermo Luxán & Inga Hemmerling & Marina Scheller & Xue Li & Carsten Müller-Tidow & Bianca Schuhmacher & Zhengwu Sun & Andreas Dendorfer & Alisa Debes & Simone-Franziska Glas, 2024. "DNMT3A clonal hematopoiesis-driver mutations induce cardiac fibrosis by paracrine activation of fibroblasts," Nature Communications, Nature, vol. 15(1), pages 1-20, December.
  47. Maxime Brunner & David Lopez-Rodriguez & Judith Estrada-Meza & Rafik Dali & Antoine Rohrbach & Tamara Deglise & Andrea Messina & Bernard Thorens & Federico Santoni & Fanny Langlet, 2024. "Fasting induces metabolic switches and spatial redistributions of lipid processing and neuronal interactions in tanycytes," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  48. Sabrina Schütz & Llorenç Solé-Boldo & Carlota Lucena-Porcel & Jochen Hoffmann & Alexander Brobeil & Anke S. Lonsdorf & Manuel Rodríguez-Paredes & Frank Lyko, 2023. "Functionally distinct cancer-associated fibroblast subpopulations establish a tumor promoting environment in squamous cell carcinoma," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
  49. Yumin Liu & Linjuan Shi & Yifan Chen & Sifan Luo & Yuehang Chen & Hongtian Chen & Wenlang Lan & Xun Lu & Zhan Cao & Zehua Ye & Jinping Li & Bo Yu & Elaine Dzierzak & Zhuan Li, 2024. "Autophagy regulates the maturation of hematopoietic precursors in the embryo," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  50. Leila R. Martins & Lina Sieverling & Michelle Michelhans & Chiara Schiller & Cihan Erkut & Thomas G. P. Grünewald & Sergio Triana & Stefan Fröhling & Lars Velten & Hanno Glimm & Claudia Scholl, 2024. "Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung," Nature Communications, Nature, vol. 15(1), pages 1-20, December.
  51. Maura Galimberti & Maria R. Nucera & Vittoria D. Bocchi & Paola Conforti & Elena Vezzoli & Matteo Cereda & Camilla Maffezzini & Raffaele Iennaco & Andrea Scolz & Andrea Falqui & Chiara Cordiglieri & M, 2024. "Huntington’s disease cellular phenotypes are rescued non-cell autonomously by healthy cells in mosaic telencephalic organoids," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  52. Thomas F. Barrett & Bhuvic Patel & Saad M. Khan & Riley D. Z. Mullins & Aldrin K. Y. Yim & Sangami Pugazenthi & Tatenda Mahlokozera & Gregory J. Zipfel & Jacques A. Herzog & Michael R. Chicoine & Came, 2024. "Single-cell multi-omic analysis of the vestibular schwannoma ecosystem uncovers a nerve injury-like state," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
  53. Hitomi Takada & Yohei Sasagawa & Mika Yoshimura & Kaori Tanaka & Yoshimi Iwayama & Tetsutaro Hayashi & Ayako Isomura-Matoba & Itoshi Nikaido & Akira Kurisaki, 2023. "Single-cell transcriptomics uncovers EGFR signaling-mediated gastric progenitor cell differentiation in stomach homeostasis," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
  54. Dongqing Li & Zhuang Liu & Letian Zhang & Xiaowei Bian & Jianmin Wu & Li Li & Yongjian Chen & Lihua Luo & Ling Pan & Lingzhuo Kong & Yunting Xiao & Jiating Wang & Xiya Zhang & Wang Wang & Maria Toma &, 2024. "The lncRNA SNHG26 drives the inflammatory-to-proliferative state transition of keratinocyte progenitor cells during wound healing," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  55. Lanqi Gong & Jie Luo & Yu Zhang & Yuma Yang & Shanshan Li & Xiaona Fang & Baifeng Zhang & Jiao Huang & Larry Ka-Yue Chow & Dittman Chung & Jinlin Huang & Cuicui Huang & Qin Liu & Lu Bai & Yuen Chak Ti, 2023. "Nasopharyngeal carcinoma cells promote regulatory T cell development and suppressive activity via CD70-CD27 interaction," Nature Communications, Nature, vol. 14(1), pages 1-24, December.
  56. Alexander H. Lee & Lu Sun & Aaron Y. Mochizuki & Jeremy G. Reynoso & Joey Orpilla & Frances Chow & Jenny C. Kienzler & Richard G. Everson & David A. Nathanson & Steven J. Bensinger & Linda M. Liau & T, 2021. "Neoadjuvant PD-1 blockade induces T cell and cDC1 activation but fails to overcome the immunosuppressive tumor associated macrophages in recurrent glioblastoma," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
  57. Faith H. Brennan & Yang Li & Cankun Wang & Anjun Ma & Qi Guo & Yi Li & Nicole Pukos & Warren A. Campbell & Kristina G. Witcher & Zhen Guan & Kristina A. Kigerl & Jodie C. E. Hall & Jonathan P. Godbout, 2022. "Microglia coordinate cellular interactions during spinal cord repair in mice," Nature Communications, Nature, vol. 13(1), pages 1-20, December.
  58. Nicole D. Schartz & Heidi Y. Liang & Klebea Carvalho & Shu-Hui Chu & Adrian Mendoza-Arvilla & Tiffany J. Petrisko & Angela Gomez-Arboledas & Ali Mortazavi & Andrea J. Tenner, 2024. "C5aR1 antagonism suppresses inflammatory glial responses and alters cellular signaling in an Alzheimer’s disease mouse model," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  59. Durba Pal & Subhadip Ghatak & Kanhaiya Singh & Ahmed Safwat Abouhashem & Manishekhar Kumar & Mohamed S El Masry & Sujit K. Mohanty & Ravichand Palakurti & Yashika Rustagi & Saba Tabasum & Dolly K. Kho, 2023. "Identification of a physiologic vasculogenic fibroblast state to achieve tissue repair," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
  60. Sandra Curras-Alonso & Juliette Soulier & Thomas Defard & Christian Weber & Sophie Heinrich & Hugo Laporte & Sophie Leboucher & Sonia Lameiras & Marie Dutreix & Vincent Favaudon & Florian Massip & Tho, 2023. "An interactive murine single-cell atlas of the lung responses to radiation injury," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
  61. Zu-Qiang Liu & Hao Dai & Lu Yao & Wei-Feng Chen & Yun Wang & Li-Yun Ma & Xiao-Qing Li & Sheng-Li Lin & Meng-Jiang He & Ping-Ting Gao & Xin-Yang Liu & Jia-Xin Xu & Xiao-Yue Xu & Ke-Hao Wang & Li Wang &, 2023. "A single-cell transcriptional landscape of immune cells shows disease-specific changes of T cell and macrophage populations in human achalasia," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
  62. Ciliang Jin & Penglei Jiang & Zhaoru Zhang & Yingli Han & Xue Wen & Lin Zheng & Wei Kuang & Jiangshan Lian & Guodong Yu & Xinyue Qian & Yue Ren & Miaomiao Lu & Lingling Xu & Weixin Chen & Jiyang Chen , 2024. "Single-cell RNA sequencing reveals the pro-inflammatory roles of liver-resident Th1-like cells in primary biliary cholangitis," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  63. Xin Shao & Chengyu Li & Haihong Yang & Xiaoyan Lu & Jie Liao & Jingyang Qian & Kai Wang & Junyun Cheng & Penghui Yang & Huajun Chen & Xiao Xu & Xiaohui Fan, 2022. "Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data with SpaTalk," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
  64. Nancy Yanzhe Li & Weiruo Zhang & Daniel Haensel & Anna R. Jussila & Cory Pan & Sadhana Gaddam & Sylvia K. Plevritis & Anthony E. Oro, 2024. "Basal-to-inflammatory transition and tumor resistance via crosstalk with a pro-inflammatory stromal niche," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
  65. Rachael G. Aubin & Emma C. Troisi & Javier Montelongo & Adam N. Alghalith & Maclean P. Nasrallah & Mariarita Santi & Pablo G. Camara, 2022. "Pro-inflammatory cytokines mediate the epithelial-to-mesenchymal-like transition of pediatric posterior fossa ependymoma," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
  66. Alexia Borelli & Jérémy C. Santamaria & Cloé Zamit & Cécile Apert & Jessica Chevallier & Philippe Pierre & Rafael J. Argüello & Lionel Spinelli & Magali Irla, 2024. "Lymphotoxin limits Foxp3+ regulatory T cell development from Foxp3lo precursors via IL-4 signaling," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
  67. Hugo Croizer & Rana Mhaidly & Yann Kieffer & Geraldine Gentric & Lounes Djerroudi & Renaud Leclere & Floriane Pelon & Catherine Robley & Mylene Bohec & Arnaud Meng & Didier Meseure & Emanuela Romano &, 2024. "Deciphering the spatial landscape and plasticity of immunosuppressive fibroblasts in breast cancer," Nature Communications, Nature, vol. 15(1), pages 1-28, December.
  68. Yang Liu & Shuang-Yan Ye & Shuai He & Dong-Mei Chi & Xiu-Zhi Wang & Yue-Feng Wen & Dong Ma & Run-Cong Nie & Pu Xiang & You Zhou & Zhao-Hui Ruan & Rou-Jun Peng & Chun-Ling Luo & Pan-Pan Wei & Guo-Wang , 2024. "Single-cell and spatial transcriptome analyses reveal tertiary lymphoid structures linked to tumour progression and immunotherapy response in nasopharyngeal carcinoma," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
  69. Chunman Zuo & Junjie Xia & Luonan Chen, 2024. "Dissecting tumor microenvironment from spatially resolved transcriptomics data by heterogeneous graph learning," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
  70. Z. L. Liu & X. Y. Meng & R. J. Bao & M. Y. Shen & J. J. Sun & W. D. Chen & F. Liu & Y. He, 2024. "Single cell deciphering of progression trajectories of the tumor ecosystem in head and neck cancer," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
  71. Chuanyuan Wei & Wei Sun & Kangjie Shen & Jingqin Zhong & Wanlin Liu & Zixu Gao & Yu Xu & Lu Wang & Tu Hu & Ming Ren & Yinlam Li & Yu Zhu & Shaoluan Zheng & Ming Zhu & Rongkui Luo & Yanwen Yang & Yingy, 2023. "Delineating the early dissemination mechanisms of acral melanoma by integrating single-cell and spatial transcriptomic analyses," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
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