Journal Article
. 2018 Jun; 24(7):978-985.
doi: 10.1038/s41591-018-0045-3.

Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing

Xinyi Guo 1 Yuanyuan Zhang 1 Liangtao Zheng 2 Chunhong Zheng 1 Jintao Song 3 Qiming Zhang 1 Boxi Kang 1 Zhouzerui Liu 1 Liang Jin 3 Rui Xing 4 Ranran Gao 1 Lei Zhang 2 Minghui Dong 1 Xueda Hu 1 Xianwen Ren 1 Dennis Kirchhoff 5 Helge Gottfried Roider 5 Tiansheng Yan 6 Zemin Zhang 7 
  • PMID: 29942094
  •     361 citations


Cancer immunotherapies have shown sustained clinical responses in treating non-small-cell lung cancer1-3, but efficacy varies and depends in part on the amount and properties of tumor infiltrating lymphocytes4-6. To depict the baseline landscape of the composition, lineage and functional states of tumor infiltrating lymphocytes, here we performed deep single-cell RNA sequencing for 12,346 T cells from 14 treatment-naïve non-small-cell lung cancer patients. Combined expression and T cell antigen receptor based lineage tracking revealed a significant proportion of inter-tissue effector T cells with a highly migratory nature. As well as tumor-infiltrating CD8+ T cells undergoing exhaustion, we observed two clusters of cells exhibiting states preceding exhaustion, and a high ratio of "pre-exhausted" to exhausted T cells was associated with better prognosis of lung adenocarcinoma. Additionally, we observed further heterogeneity within the tumor regulatory T cells (Tregs), characterized by the bimodal distribution of TNFRSF9, an activation marker for antigen-specific Tregs. The gene signature of those activated tumor Tregs, which included IL1R2, correlated with poor prognosis in lung adenocarcinoma. Our study provides a new approach for patient stratification and will help further understand the functional states and dynamics of T cells in lung cancer.

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CD103+CD8+ TRM Cells Accumulate in Tumors of Anti-PD-1-Responder Lung Cancer Patients and Are Tumor-Reactive Lymphocytes Enriched with Tc17.
Stéphanie Corgnac, Ines Malenica, +19 authors, Fathia Mami-Chouaib.
Cell Rep Med, 2020 Nov 19; 1(7). PMID: 33205076    Free PMC article.
New insights into the interaction of the immune system with non-small cell lung carcinomas.
Paul Hofman.
Transl Lung Cancer Res, 2020 Nov 20; 9(5). PMID: 33209644    Free PMC article.
I-Impute: a self-consistent method to impute single cell RNA sequencing data.
Xikang Feng, Lingxi Chen, Zishuai Wang, Shuai Cheng Li.
BMC Genomics, 2020 Nov 20; 21(Suppl 10). PMID: 33208097    Free PMC article.
Qualitative Analysis of Tumor-Infiltrating Lymphocytes across Human Tumor Types Reveals a Higher Proportion of Bystander CD8+ T Cells in Non-Melanoma Cancers Compared to Melanoma.
Aishwarya Gokuldass, Arianna Draghi, +17 authors, Marco Donia.
Cancers (Basel), 2020 Nov 18; 12(11). PMID: 33198174    Free PMC article.
Breathing fresh air into respiratory research with single-cell RNA sequencing.
Michael J Alexander, G R Scott Budinger, Paul A Reyfman.
Eur Respir Rev, 2020 Jul 06; 29(156). PMID: 32620586    Free PMC article.
Immune suppressive landscape in the human esophageal squamous cell carcinoma microenvironment.
Yingxia Zheng, Zheyi Chen, +16 authors, Lisong Shen.
Nat Commun, 2020 Dec 10; 11(1). PMID: 33293583    Free PMC article.
Global immune characterization of HBV/HCV-related hepatocellular carcinoma identifies macrophage and T-cell subsets associated with disease progression.
Guohe Song, Yang Shi, +20 authors, Qiang Gao.
Cell Discov, 2020 Dec 11; 6(1). PMID: 33298893    Free PMC article.
A dynamic CD2-rich compartment at the outer edge of the immunological synapse boosts and integrates signals.
Philippos Demetriou, Enas Abu-Shah, +20 authors, Michael L Dustin.
Nat Immunol, 2020 Sep 16; 21(10). PMID: 32929275    Free PMC article.
Memory CD8+ T cell responses to cancer.
Jichang Han, Nikhil Khatwani, +2 authors, Christina V Angeles.
Semin Immunol, 2020 Dec 05; 49. PMID: 33272898    Free PMC article.
Applications of Single-Cell Omics to Dissect Tumor Microenvironment.
Tingting Guo, Weimin Li, Xuyu Cai.
Front Genet, 2020 Dec 18; 11. PMID: 33329692    Free PMC article.
Characterizing heterogeneity of non-small cell lung tumour microenvironment to identify signature prognostic genes.
Kai Mi, Fuhui Chen, +8 authors, Desi Shang.
J Cell Mol Med, 2020 Nov 14; 24(24). PMID: 33184998    Free PMC article.
High-Plex and High-Throughput Digital Spatial Profiling of Non-Small-Cell Lung Cancer (NSCLC).
James Monkman, Touraj Taheri, +5 authors, Arutha Kulasinghe.
Cancers (Basel), 2020 Dec 03; 12(12). PMID: 33261133    Free PMC article.
Statistical and Bioinformatics Analysis of Data from Bulk and Single-Cell RNA Sequencing Experiments.
Xiaoqing Yu, Farnoosh Abbas-Aghababazadeh, Y Ann Chen, Brooke L Fridley.
Methods Mol Biol, 2020 Sep 15; 2194. PMID: 32926366    Free PMC article.
Single-cell analysis reveals transcriptomic remodellings in distinct cell types that contribute to human prostate cancer progression.
Sujun Chen, Guanghui Zhu, +30 authors, Shancheng Ren.
Nat Cell Biol, 2021 Jan 10; 23(1). PMID: 33420488
Neutrophils Driving Unconventional T Cells Mediate Resistance against Murine Sarcomas and Selected Human Tumors.
Andrea Ponzetta, Roberta Carriero, +20 authors, Sebastien Jaillon.
Cell, 2019 Jul 02; 178(2). PMID: 31257026    Free PMC article.
Highly Cited.
Epigenetic landscape analysis of lncRNAs in acute myeloid leukemia with DNMT3A mutations.
Yu-Jun Dai, Fang Hu, Si-Yuan He, Yue-Ying Wang.
Ann Transl Med, 2020 May 02; 8(6). PMID: 32355762    Free PMC article.
TCRdb: a comprehensive database for T-cell receptor sequences with powerful search function.
Si-Yi Chen, Tao Yue, Qian Lei, An-Yuan Guo.
Nucleic Acids Res, 2020 Sep 30; 49(D1). PMID: 32990749    Free PMC article.
TISCH: a comprehensive web resource enabling interactive single-cell transcriptome visualization of tumor microenvironment.
Dongqing Sun, Jin Wang, +13 authors, Chenfei Wang.
Nucleic Acids Res, 2020 Nov 13; 49(D1). PMID: 33179754    Free PMC article.
Single-cell RNA Sequencing in Immunology.
Yirui Cao, Yue Qiu, Guowei Tu, Cheng Yang.
Curr Genomics, 2021 Jan 09; 21(8). PMID: 33414678    Free PMC article.
Mapping the functional landscape of T cell receptor repertoires by single-T cell transcriptomics.
Ze Zhang, Danyi Xiong, +2 authors, Tao Wang.
Nat Methods, 2021 Jan 08; 18(1). PMID: 33408405    Free PMC article.
Peripheral T cell expansion predicts tumour infiltration and clinical response.
Thomas D Wu, Shravan Madireddi, +26 authors, Jane L Grogan.
Nature, 2020 Feb 28; 579(7798). PMID: 32103181
Single-cell RNA sequencing reveals heterogeneous tumor and immune cell populations in early-stage lung adenocarcinomas harboring EGFR mutations.
Di He, Di Wang, +5 authors, Guoping Fan.
Oncogene, 2020 Nov 05; 40(2). PMID: 33144684    Free PMC article.
Differences in TCR repertoire and T cell activation underlie the divergent outcomes of antitumor immune responses in tumor-eradicating versus tumor-progressing hosts.
Rachel A Woolaver, Xiaoguang Wang, +9 authors, Jing Hong Wang.
J Immunother Cancer, 2021 Jan 09; 9(1). PMID: 33414263    Free PMC article.
Predictive biomarkers for response to immune checkpoint inhibitors in lung cancer: PD-L1 and beyond.
Hironori Uruga, Mari Mino-Kenudson.
Virchows Arch, 2021 Jan 25; 478(1). PMID: 33486574
Mapping the immune environment in clear cell renal carcinoma by single-cell genomics.
Nicholas Borcherding, Ajaykumar Vishwakarma, +7 authors, Weizhou Zhang.
Commun Biol, 2021 Jan 29; 4(1). PMID: 33504936    Free PMC article.
A novel CD4+ CTL subtype characterized by chemotaxis and inflammation is involved in the pathogenesis of Graves' orbitopathy.
Yue Wang, Ziyi Chen, +8 authors, Bingyin Shi.
Cell Mol Immunol, 2021 Jan 31; 18(3). PMID: 33514849    Free PMC article.
PD-1 blockade-unresponsive human tumor-infiltrating CD8+ T cells are marked by loss of CD28 expression and rescued by IL-15.
Kyung Hwan Kim, Hong Kwan Kim, +12 authors, Eui-Cheol Shin.
Cell Mol Immunol, 2020 Apr 26; 18(2). PMID: 32332901    Free PMC article.
Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution.
Yang Liu, Shuai He, +18 authors, Jin-Xin Bei.
Nat Commun, 2021 Feb 04; 12(1). PMID: 33531485    Free PMC article.
Eomes Impedes Durable Response to Tumor Immunotherapy by Inhibiting Stemness, Tissue Residency, and Promoting the Dysfunctional State of Intratumoral CD8+ T Cells.
Runzi Sun, Yixian Wu, +6 authors, Yibei Zhu.
Front Cell Dev Biol, 2021 Feb 09; 9. PMID: 33553191    Free PMC article.
Single-cell transcriptomes of peripheral blood cells indicate and elucidate severity of COVID-19.
Xiaowei Xie, Xuelian Cheng, +8 authors, Tao Cheng.
Sci China Life Sci, 2021 Feb 11; 64(10). PMID: 33564978    Free PMC article.
Single-cell RNA-sequencing analyses identify heterogeneity of CD8+ T cell subpopulations and novel therapy targets in melanoma.
Weiwei Deng, Yubo Ma, +9 authors, Ruoyu Li.
Mol Ther Oncolytics, 2021 Feb 13; 20. PMID: 33575475    Free PMC article.
Decoding the multicellular ecosystem of lung adenocarcinoma manifested as pulmonary subsolid nodules by single-cell RNA sequencing.
Xudong Xing, Fan Yang, +5 authors, Jun Wang.
Sci Adv, 2021 Feb 12; 7(5). PMID: 33571124    Free PMC article.
Next Generation Imaging Techniques to Define Immune Topographies in Solid Tumors.
Violena Pietrobon, Alessandra Cesano, Francesco Marincola, Jakob Nikolas Kather.
Front Immunol, 2021 Feb 16; 11. PMID: 33584676    Free PMC article.
Single-Cell Analysis Reveals Characterization of Infiltrating T Cells in Moderately Differentiated Colorectal Cancer.
Xi Yang, Quan Qi, +6 authors, Shuwen Han.
Front Immunol, 2021 Feb 16; 11. PMID: 33584715    Free PMC article.
Systems biology analysis identifies TNFRSF9 as a functional marker of tumor-infiltrating regulatory T-cell enabling clinical outcome prediction in lung cancer.
Jae-Won Cho, Jimin Son, Sang-Jun Ha, Insuk Lee.
Comput Struct Biotechnol J, 2021 Feb 19; 19. PMID: 33598101    Free PMC article.
The current landscape of single-cell transcriptomics for cancer immunotherapy.
Puneeth Guruprasad, Yong Gu Lee, Ki Hyun Kim, Marco Ruella.
J Exp Med, 2021 Feb 19; 218(1). PMID: 33601414    Free PMC article.
Advancing Cancer Research and Medicine with Single-Cell Genomics.
Bora Lim, Yiyun Lin, Nicholas Navin.
Cancer Cell, 2020 Apr 15; 37(4). PMID: 32289270    Free PMC article.
Tissue-resident memory T cells in breast cancer control and immunotherapy responses.
Ann Byrne, Peter Savas, +7 authors, Sherene Loi.
Nat Rev Clin Oncol, 2020 Mar 01; 17(6). PMID: 32112054
Regulatory T Cells Inhibit T Cell Activity by Downregulating CD137 Ligand via CD137 Trogocytosis.
Khang Luu, Mugdha Vijay Patwardhan, +3 authors, Herbert Schwarz.
Cells, 2021 Feb 13; 10(2). PMID: 33572150    Free PMC article.
Bioinformatic Approaches to Validation and Functional Analysis of 3D Lung Cancer Models.
P Jonathan Li, Jeroen P Roose, David M Jablons, Johannes R Kratz.
Cancers (Basel), 2021 Feb 13; 13(4). PMID: 33572297    Free PMC article.
Blinatumomab-induced T cell activation at single cell transcriptome resolution.
Yi Huo, Zhen Sheng, +6 authors, Ruibao Ren.
BMC Genomics, 2021 Mar 03; 22(1). PMID: 33648458    Free PMC article.
T-cell CX3CR1 expression as a dynamic blood-based biomarker of response to immune checkpoint inhibitors.
Takayoshi Yamauchi, Toshifumi Hoki, +13 authors, Fumito Ito.
Nat Commun, 2021 Mar 05; 12(1). PMID: 33658501    Free PMC article.
Direct Tumor Killing and Immunotherapy through Anti-SerpinB9 Therapy.
Liwei Jiang, Yi-Jun Wang, +21 authors, Reza Abdi.
Cell, 2020 Nov 27; 183(5). PMID: 33242418    Free PMC article.
Inhibitory CD161 receptor identified in glioma-infiltrating T cells by single-cell analysis.
Nathan D Mathewson, Orr Ashenberg, +37 authors, Kai W Wucherpfennig.
Cell, 2021 Feb 17; 184(5). PMID: 33592174    Free PMC article.
A road map from single-cell transcriptome to patient classification for the immune response to trauma.
Tianmeng Chen, Matthew J Delano, +13 authors, Timothy R Billiar.
JCI Insight, 2020 Dec 16; 6(2). PMID: 33320841    Free PMC article.
Circulating clonally expanded T cells reflect functions of tumor-infiltrating T cells.
Liliana E Lucca, Pierre-Paul Axisa, +10 authors, David A Hafler.
J Exp Med, 2021 Mar 03; 218(4). PMID: 33651881    Free PMC article.
Single-cell analyses identify circulating anti-tumor CD8 T cells and markers for their enrichment.
Kristen E Pauken, Osmaan Shahid, +18 authors, Meromit Singer.
J Exp Med, 2021 Mar 03; 218(4). PMID: 33651880    Free PMC article.
Single-cell differential splicing analysis reveals high heterogeneity of liver tumor-infiltrating T cells.
Shang Liu, Biaofeng Zhou, +3 authors, Shiping Liu.
Sci Rep, 2021 Mar 07; 11(1). PMID: 33674641    Free PMC article.
APE1 may influence CD4+ naïve T cells on recurrence free survival in early stage NSCLC.
Yanping Li, Xiaolong Zhao, +8 authors, Dong Wang.
BMC Cancer, 2021 Mar 08; 21(1). PMID: 33676448    Free PMC article.
Circulating mucosal-associated invariant T cells identify patients responding to anti-PD-1 therapy.
Sara De Biasi, Lara Gibellini, +16 authors, Andrea Cossarizza.
Nat Commun, 2021 Mar 17; 12(1). PMID: 33723257    Free PMC article.
Leveraging Single-Cell Approaches in Cancer Precision Medicine.
Aritro Nath, Andrea H Bild.
Trends Cancer, 2021 Feb 11; 7(4). PMID: 33563578    Free PMC article.
[Immunotherapy for Lung Cancer: Mechanisms of Resistance and Response Strategy].
Yaning Yang, Lu Yang, Yan Wang.
Zhongguo Fei Ai Za Zhi, 2021 Feb 26; 24(2). PMID: 33626853    Free PMC article.
Global analysis of shared T cell specificities in human non-small cell lung cancer enables HLA inference and antigen discovery.
Shin-Heng Chiou, Diane Tseng, +37 authors, Mark M Davis.
Immunity, 2021 Mar 11; 54(3). PMID: 33691136    Free PMC article.
Tumor Immune Microenvironment Characteristics and Their Prognostic Value in Non-Small-Cell Lung Cancer.
Dan Su, Gao Wu, +4 authors, Xianning Wu.
Front Oncol, 2021 Mar 23; 11. PMID: 33747957    Free PMC article.
Single-Cell Sequencing, an Advanced Technology in Lung Cancer Research.
Hao Wang, Die Meng, +14 authors, Yayi He.
Onco Targets Ther, 2021 Mar 25; 14. PMID: 33758510    Free PMC article.
CXCR6 deficiency impairs cancer vaccine efficacy and CD8+ resident memory T-cell recruitment in head and neck and lung tumors.
Soumaya Karaki, Charlotte Blanc, +19 authors, Eric Tartour.
J Immunother Cancer, 2021 Mar 12; 9(3). PMID: 33692218    Free PMC article.
The architectural design of CD8+ T cell responses in acute and chronic infection: Parallel structures with divergent fates.
H Kay Chung, Bryan McDonald, Susan M Kaech.
J Exp Med, 2021 Mar 24; 218(4). PMID: 33755719    Free PMC article.
Radiotherapy as an immune checkpoint blockade combination strategy for hepatocellular carcinoma.
Byung Min Lee, Jinsil Seong.
World J Gastroenterol, 2021 Mar 30; 27(10). PMID: 33776363    Free PMC article.
Tumor-infiltrating lymphocytes in the immunotherapy era.
Sterre T Paijens, Annegé Vledder, Marco de Bruyn, Hans W Nijman.
Cell Mol Immunol, 2020 Nov 04; 18(4). PMID: 33139907    Free PMC article.
Landscape and dynamics of single tumor and immune cells in early and advanced-stage lung adenocarcinoma.
Zhencong Chen, Yiwei Huang, +12 authors, Lijie Tan.
Clin Transl Med, 2021 Mar 31; 11(3). PMID: 33783985    Free PMC article.
Identification of Biomarkers Related to CD8+ T Cell Infiltration With Gene Co-expression Network in Lung Squamous Cell Carcinoma.
Min Tang, Yukun Li, +7 authors, Jun Hu.
Front Cell Dev Biol, 2021 Apr 06; 9. PMID: 33816462    Free PMC article.
A Novel Immune-Related Prognostic Model for Response to Immunotherapy and Survival in Patients With Lung Adenocarcinoma.
Yujia Zheng, He Tian, +11 authors, Jie He.
Front Cell Dev Biol, 2021 Apr 06; 9. PMID: 33816503    Free PMC article.
Harnessing the IL-21-BATF Pathway in the CD8+ T Cell Anti-Tumor Response.
Paytsar Topchyan, Gang Xin, +7 authors, Weiguo Cui.
Cancers (Basel), 2021 Apr 04; 13(6). PMID: 33809259    Free PMC article.
Decoding Cancer Biology One Cell at a Time.
L Nicolas Gonzalez Castro, Itay Tirosh, Mario L Suvà.
Cancer Discov, 2021 Apr 04; 11(4). PMID: 33811126    Free PMC article.
Prognostic Implication of the Expression Level of PECAM-1 in Non-small Cell Lung Cancer.
Shuhui Cao, Yue Wang, +4 authors, Hua Zhong.
Front Oncol, 2021 Apr 09; 11. PMID: 33828969    Free PMC article.
Single-cell transcriptomics reveal the intratumoral landscape of infiltrated T-cell subpopulations in oral squamous cell carcinoma.
Jingtao Chen, Jiefeng Yang, +7 authors, Ming Song.
Mol Oncol, 2021 Jan 30; 15(4). PMID: 33513276    Free PMC article.
Role of kynurenine in promoting the generation of exhausted CD8+ T cells in colorectal cancer.
Dandan Wu, Yufeng Zhu.
Am J Transl Res, 2021 Apr 13; 13(3). PMID: 33841677    Free PMC article.
Atlas of breast cancer infiltrated B-lymphocytes revealed by paired single-cell RNA-sequencing and antigen receptor profiling.
Qingtao Hu, Yu Hong, +10 authors, Yu Zhang.
Nat Commun, 2021 Apr 14; 12(1). PMID: 33846305    Free PMC article.
Versatile workflow for cell type-resolved transcriptional and epigenetic profiles from cryopreserved human lung.
Maria Llamazares-Prada, Elisa Espinet, +24 authors, Renata Z Jurkowska.
JCI Insight, 2021 Feb 26; 6(6). PMID: 33630765    Free PMC article.
Identification of a targetable KRAS-mutant epithelial population in non-small cell lung cancer.
Giorgia Maroni, Mahmoud A Bassal, +37 authors, Elena Levantini.
Commun Biol, 2021 Apr 16; 4(1). PMID: 33854168    Free PMC article.
Predicting recognition between T cell receptors and epitopes with TCRGP.
Emmi Jokinen, Jani Huuhtanen, +2 authors, Harri Lähdesmäki.
PLoS Comput Biol, 2021 Mar 26; 17(3). PMID: 33764977    Free PMC article.
Single-Cell Sequencing Reveals the Transcriptome and TCR Characteristics of pTregs and in vitro Expanded iTregs.
Zhenzhen Hui, Jiali Zhang, +5 authors, Xiubao Ren.
Front Immunol, 2021 Apr 20; 12. PMID: 33868236    Free PMC article.
scSensitiveGeneDefine: sensitive gene detection in single-cell RNA sequencing data by Shannon entropy.
Zechuan Chen, Zeruo Yang, +2 authors, Pei Hao.
BMC Bioinformatics, 2021 Apr 24; 22(1). PMID: 33888056    Free PMC article.
Lineage-dependent gene expression programs influence the immune landscape of colorectal cancer.
Hae-Ock Lee, Yourae Hong, +34 authors, Woong-Yang Park.
Nat Genet, 2020 May 27; 52(6). PMID: 32451460
Computational modeling of malignant ascites reveals CCL5-SDC4 interaction in the immune microenvironment of ovarian cancer.
Soochi Kim, Youngjin Han, +8 authors, Yong Sang Song.
Mol Carcinog, 2021 Mar 16; 60(5). PMID: 33721368    Free PMC article.
Intratumoral CD103+ CD8+ T cells predict response to PD-L1 blockade.
Romain Banchereau, Avantika S Chitre, +27 authors, William E O'Gorman.
J Immunother Cancer, 2021 Apr 09; 9(4). PMID: 33827905    Free PMC article.
Single-cell sequencing techniques from individual to multiomics analyses.
Yukie Kashima, Yoshitaka Sakamoto, +3 authors, Ayako Suzuki.
Exp Mol Med, 2020 Sep 16; 52(9). PMID: 32929221    Free PMC article.
Single-cell transcriptomics in cancer: computational challenges and opportunities.
Jean Fan, Kamil Slowikowski, Fan Zhang.
Exp Mol Med, 2020 Sep 16; 52(9). PMID: 32929226    Free PMC article.
Immune Checkpoints in Pediatric Solid Tumors: Targetable Pathways for Advanced Therapeutic Purposes.
Claudia Cocco, Fabio Morandi, Irma Airoldi.
Cells, 2021 May 01; 10(4). PMID: 33920505    Free PMC article.
Recruitment and Expansion of Tregs Cells in the Tumor Environment-How to Target Them?
Justine Cinier, Margaux Hubert, +5 authors, Christine Ménétrier-Caux.
Cancers (Basel), 2021 May 01; 13(8). PMID: 33924428    Free PMC article.
Severely ill COVID-19 patients display impaired exhaustion features in SARS-CoV-2-reactive CD8+ T cells.
Anthony Kusnadi, Ciro Ramírez-Suástegui, +8 authors, Christian H Ottensmeier.
Sci Immunol, 2021 Jan 23; 6(55). PMID: 33478949    Free PMC article.
STARTRAC analyses of scRNAseq data from tumor models reveal T cell dynamics and therapeutic targets.
Dev Bhatt, Boxi Kang, +13 authors, Wenjun Ouyang.
J Exp Med, 2021 Apr 27; 218(6). PMID: 33900375    Free PMC article.
CD36-mediated ferroptosis dampens intratumoral CD8+ T cell effector function and impairs their antitumor ability.
Xingzhe Ma, Liuling Xiao, +7 authors, Qing Yi.
Cell Metab, 2021 Mar 11; 33(5). PMID: 33691090    Free PMC article.
Single-cell profiling of tumor heterogeneity and the microenvironment in advanced non-small cell lung cancer.
Fengying Wu, Jue Fan, +22 authors, Caicun Zhou.
Nat Commun, 2021 May 07; 12(1). PMID: 33953163    Free PMC article.
Biological bases of cancer immunotherapy.
Maryanne M Gonzales Carazas, Joseph A Pinto, Fanny L Casado.
Expert Rev Mol Med, 2021 Mar 26; 23. PMID: 33762030    Free PMC article.
Clonally expanded EOMES+ Tr1-like cells in primary and metastatic tumors are associated with disease progression.
Raoul J P Bonnal, Grazisa Rossetti, +43 authors, Massimiliano Pagani.
Nat Immunol, 2021 May 22; 22(6). PMID: 34017124
[Research Progress of Single Cell Sequencing in Lung Cancer].
Mengjun Yu, Jinjing Tan, Jinghui Wang.
Zhongguo Fei Ai Za Zhi, 2021 Apr 30; 24(4). PMID: 33910276    Free PMC article.
Multiomics characteristics of neurogenesis-related gene are dysregulated in tumor immune microenvironment.
Ben Wang, Hai Mou, +4 authors, Yunsheng Ou.
NPJ Genom Med, 2021 Jun 02; 6(1). PMID: 34059678    Free PMC article.
CD137 as an Attractive T Cell Co-Stimulatory Target in the TNFRSF for Immuno-Oncology Drug Development.
Kenji Hashimoto.
Cancers (Basel), 2021 Jun 03; 13(10). PMID: 34064598    Free PMC article.
Multi-Omics Perspective Reveals the Different Patterns of Tumor Immune Microenvironment Based on Programmed Death Ligand 1 (PD-L1) Expression and Predictor of Responses to Immune Checkpoint Blockade across Pan-Cancer.
Kaitang Huang, Meiling Hu, +4 authors, Hongli Du.
Int J Mol Sci, 2021 Jun 03; 22(10). PMID: 34068143    Free PMC article.
Applications of single-cell sequencing in cancer research: progress and perspectives.
Yalan Lei, Rong Tang, +5 authors, Si Shi.
J Hematol Oncol, 2021 Jun 11; 14(1). PMID: 34108022    Free PMC article.
Assessing single-cell transcriptomic variability through density-preserving data visualization.
Ashwin Narayan, Bonnie Berger, Hyunghoon Cho.
Nat Biotechnol, 2021 Jan 20; 39(6). PMID: 33462509    Free PMC article.
Not-so-opposite ends of the spectrum: CD8+ T cell dysfunction across chronic infection, cancer and autoimmunity.
Jenna L Collier, Sarah A Weiss, +2 authors, Arlene H Sharpe.
Nat Immunol, 2021 Jun 19; 22(7). PMID: 34140679
Single-Cell TCR and Transcriptome Analysis: An Indispensable Tool for Studying T-Cell Biology and Cancer Immunotherapy.
Anna Pasetto, Yong-Chen Lu.
Front Immunol, 2021 Jun 25; 12. PMID: 34163487    Free PMC article.
Intratumoral follicular regulatory T cells curtail anti-PD-1 treatment efficacy.
Simon Eschweiler, James Clarke, +14 authors, Pandurangan Vijayanand.
Nat Immunol, 2021 Jun 26; 22(8). PMID: 34168370    Free PMC article.
Follicular helper-T cells restore CD8+-dependent antitumor immunity and anti-PD-L1/PD-1 efficacy.
Julie Niogret, Hélène Berger, +15 authors, Fanny Chalmin.
J Immunother Cancer, 2021 Jun 10; 9(6). PMID: 34103351    Free PMC article.
Resident and circulating memory T cells persist for years in melanoma patients with durable responses to immunotherapy.
Jichang Han, Yanding Zhao, +12 authors, Christina V Angeles.
Nat Cancer, 2021 Jun 29; 2(3). PMID: 34179824    Free PMC article.
Single-cell analyses reveal suppressive tumor microenvironment of human colorectal cancer.
Yan Mei, Weiwei Xiao, +15 authors, Guangshuai Jia.
Clin Transl Med, 2021 Jun 30; 11(6). PMID: 34185431    Free PMC article.
Discovering Cellular Mitochondrial Heteroplasmy Heterogeneity with Single Cell RNA and ATAC Sequencing.
Aidan S Marshall, Nick S Jones.
Biology (Basel), 2021 Jul 03; 10(6). PMID: 34198745    Free PMC article.
Role of CD8+ T lymphocyte cells: Interplay with stromal cells in tumor microenvironment.
Qin Xie, Jian Ding, Yi Chen.
Acta Pharm Sin B, 2021 Jul 06; 11(6). PMID: 34221857    Free PMC article.
Tumor Purity Coexpressed Genes Related to Immune Microenvironment and Clinical Outcomes of Lung Adenocarcinoma.
Ming Bai, Qi Pan, Chen Sun.
J Oncol, 2021 Jul 09; 2021. PMID: 34234827    Free PMC article.
CD8+ T cell differentiation and dysfunction in cancer.
Mary Philip, Andrea Schietinger.
Nat Rev Immunol, 2021 Jul 14; 22(4). PMID: 34253904
HLA-DR cancer cells expression correlates with T cell infiltration and is enriched in lung adenocarcinoma with indolent behavior.
Maria-Fernanda Senosain, Yong Zou, +11 authors, Pierre P Massion.
Sci Rep, 2021 Jul 15; 11(1). PMID: 34257356    Free PMC article.
[Progress in Single-cell RNA Sequencing of Lung Adenocarcinoma].
Yichu Lin, Donglai Chen, +3 authors, Yongbing Chen.
Zhongguo Fei Ai Za Zhi, 2021 May 25; 24(6). PMID: 34024063    Free PMC article.
Bulk and single-cell transcriptome profiling reveal the metabolic heterogeneity in human breast cancers.
Tian-Jian Yu, Ding Ma, +6 authors, Gen-Hong Di.
Mol Ther, 2021 Mar 08; 29(7). PMID: 33677091    Free PMC article.
Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers.
Justina X Caushi, Jiajia Zhang, +52 authors, Kellie N Smith.
Nature, 2021 Jul 23; 596(7870). PMID: 34290408    Free PMC article.
Characterizing the Metabolic and Immune Landscape of Non-small Cell Lung Cancer Reveals Prognostic Biomarkers Through Omics Data Integration.
Fengjiao Wang, Yuanfu Zhang, +5 authors, Peng Wang.
Front Cell Dev Biol, 2021 Jul 24; 9. PMID: 34295900    Free PMC article.
Antigen identification for HLA class I- and HLA class II-restricted T cell receptors using cytokine-capturing antigen-presenting cells.
Mark N Lee, Matthew Meyerson.
Sci Immunol, 2021 Jan 24; 6(55). PMID: 33483338    Free PMC article.
Targeting Neoepitopes to Treat Solid Malignancies: Immunosurgery.
Eric de Sousa, Joana R Lérias, +11 authors, Markus Maeurer.
Front Immunol, 2021 Aug 03; 12. PMID: 34335558    Free PMC article.
Sex-Based Dimorphism of Anticancer Immune Response and Molecular Mechanisms of Immune Evasion.
Fabio Conforti, Laura Pala, +25 authors, Giuseppe Giaccone.
Clin Cancer Res, 2021 May 22; 27(15). PMID: 34016641    Free PMC article.
ERO1L Is a Novel and Potential Biomarker in Lung Adenocarcinoma and Shapes the Immune-Suppressive Tumor Microenvironment.
Lihui Liu, Chao Wang, +6 authors, Jie Wang.
Front Immunol, 2021 Aug 07; 12. PMID: 34354701    Free PMC article.
Single-Cell Transcriptome Profiling Simulation Reveals the Impact of Sequencing Parameters and Algorithms on Clustering.
Yunhe Liu, Aoshen Wu, +3 authors, Lei Liu.
Life (Basel), 2021 Aug 07; 11(7). PMID: 34357088    Free PMC article.
Interleukin-2 inducible T-cell kinase: a potential prognostic biomarker and tumor microenvironment remodeling indicator for hepatocellular carcinoma.
Binhua Pan, Modan Yang, +7 authors, Xiao Xu.
Aging (Albany NY), 2021 Jul 21; 13(14). PMID: 34282055    Free PMC article.
Cancer biology deciphered by single-cell transcriptomic sequencing.
Yanmeng Li, Jianshi Jin, Fan Bai.
Protein Cell, 2021 Aug 19; 13(3). PMID: 34405376    Free PMC article.
Technological advances in cancer immunity: from immunogenomics to single-cell analysis and artificial intelligence.
Ying Xu, Guan-Hua Su, +3 authors, Yi-Zhou Jiang.
Signal Transduct Target Ther, 2021 Aug 22; 6(1). PMID: 34417437    Free PMC article.
MultiK: an automated tool to determine optimal cluster numbers in single-cell RNA sequencing data.
Siyao Liu, Aatish Thennavan, +2 authors, Charles M Perou.
Genome Biol, 2021 Aug 21; 22(1). PMID: 34412669    Free PMC article.
Landscape of Prognostic m6A RNA Methylation Regulators in Hepatocellular Carcinoma to Aid Immunotherapy.
Qianhui Xu, Hao Xu, +9 authors, Wen Huang.
Front Cell Dev Biol, 2021 Aug 24; 9. PMID: 34422799    Free PMC article.
Integrating T cell receptor sequences and transcriptional profiles by clonotype neighbor graph analysis (CoNGA).
Stefan A Schattgen, Kate Guion, +5 authors, Philip Bradley.
Nat Biotechnol, 2021 Aug 25; 40(1). PMID: 34426704    Free PMC article.
Dynamic Network Biomarker of Pre-Exhausted CD8+ T Cells Contributed to T Cell Exhaustion in Colorectal Cancer.
Jiaqi Hu, Chongyin Han, +5 authors, Fei Ling.
Front Immunol, 2021 Aug 27; 12. PMID: 34434188    Free PMC article.
From bench to bedside: Single-cell analysis for cancer immunotherapy.
Emily F Davis-Marcisak, Atul Deshpande, +5 authors, Luciane T Kagohara.
Cancer Cell, 2021 Jul 31; 39(8). PMID: 34329587    Free PMC article.
Applying high-dimensional single-cell technologies to the analysis of cancer immunotherapy.
Satyen H Gohil, J Bryan Iorgulescu, +2 authors, Kenneth J Livak.
Nat Rev Clin Oncol, 2020 Dec 06; 18(4). PMID: 33277626    Free PMC article.
A single-cell atlas of liver metastases of colorectal cancer reveals reprogramming of the tumor microenvironment in response to preoperative chemotherapy.
Li-Heng Che, Jing-Wen Liu, +14 authors, Jian-Ming Li.
Cell Discov, 2021 Sep 08; 7(1). PMID: 34489408    Free PMC article.
Dissecting esophageal squamous-cell carcinoma ecosystem by single-cell transcriptomic analysis.
Xiannian Zhang, Linna Peng, +22 authors, Dongxin Lin.
Nat Commun, 2021 Sep 08; 12(1). PMID: 34489433    Free PMC article.
Peripheral blood transcriptome heterogeneity and prognostic potential in lung cancer revealed by RNA-Seq.
Qi Zhang, Manchao Kuang, +5 authors, Shujun Cheng.
J Cell Mol Med, 2021 Jul 22; 25(17). PMID: 34288383    Free PMC article.
Active surveillance characterizes human intratumoral T cell exhaustion.
Ran You, Jordan Artichoker, +5 authors, Matthew F Krummel.
J Clin Invest, 2021 Jul 23; 131(18). PMID: 34292884    Free PMC article.
Augmented Expansion of Treg Cells From Healthy and Autoimmune Subjects via Adult Progenitor Cell Co-Culture.
James L Reading, Valerie D Roobrouck, +10 authors, Timothy Tree.
Front Immunol, 2021 Sep 21; 12. PMID: 34539651    Free PMC article.
Activin-A impedes the establishment of CD4+ T cell exhaustion and enhances anti-tumor immunity in the lung.
Ioannis Morianos, Aikaterini Tsitsopoulou, +8 authors, Maria Semitekolou.
J Exp Clin Cancer Res, 2021 Sep 23; 40(1). PMID: 34548096    Free PMC article.
Mechanism of action of PD-1 receptor/ligand targeted cancer immunotherapy.
Jannie Borst, Julia Busselaar, Douwe M T Bosma, Ferry Ossendorp.
Eur J Immunol, 2021 Jun 10; 51(8). PMID: 34106465    Free PMC article.
Multimodel preclinical platform predicts clinical response of melanoma to immunotherapy.
Eva Pérez-Guijarro, Howard H Yang, +22 authors, Glenn Merlino.
Nat Med, 2020 Apr 15; 26(5). PMID: 32284588    Free PMC article.
IRIS-FGM: an integrative single-cell RNA-Seq interpretation system for functional gene module analysis.
Yuzhou Chang, Carter Allen, +4 authors, Qin Ma.
Bioinformatics, 2021 Feb 18;. PMID: 33595622    Free PMC article.
Identifying Lung Cancer Cell Markers with Machine Learning Methods and Single-Cell RNA-Seq Data.
Guo-Hua Huang, Yu-Hang Zhang, +3 authors, Yu-Dong Cai.
Life (Basel), 2021 Sep 29; 11(9). PMID: 34575089    Free PMC article.
Novel Immune Infiltrating Cell Signature Based on Cell Pair Algorithm Is a Prognostic Marker in Cancer.
Hao Zhang, Zeyu Wang, +5 authors, Quan Cheng.
Front Immunol, 2021 Oct 02; 12. PMID: 34594324    Free PMC article.
CD177 modulates the function and homeostasis of tumor-infiltrating regulatory T cells.
Myung-Chul Kim, Nicholas Borcherding, +32 authors, Weizhou Zhang.
Nat Commun, 2021 Oct 03; 12(1). PMID: 34599187    Free PMC article.
Resolving the Spatial and Cellular Architecture of Lung Adenocarcinoma by Multiregion Single-Cell Sequencing.
Ansam Sinjab, Guangchun Han, +39 authors, Humam Kadara.
Cancer Discov, 2021 May 12; 11(10). PMID: 33972311    Free PMC article.
Layilin Anchors Regulatory T Cells in Skin.
Pooja Mehta, Victoire Gouirand, +20 authors, Michael D Rosenblum.
J Immunol, 2021 Sep 03; 207(7). PMID: 34470859    Free PMC article.
Tumor-Infiltrating PD-1hiCD8+-T-Cell Signature as an Effective Biomarker for Immune Checkpoint Inhibitor Therapy Response Across Multiple Cancers.
Zhenyu Yang, Yulan Deng, +3 authors, Lunxu Liu.
Front Oncol, 2021 Oct 05; 11. PMID: 34604032    Free PMC article.
Immunotherapeutic Potential of T Memory Stem Cells.
Yujie Li, Dengqiang Wu, Xuejia Yang, Sufang Zhou.
Front Oncol, 2021 Oct 05; 11. PMID: 34604060    Free PMC article.
Single-cell data clustering based on sparse optimization and low-rank matrix factorization.
Yinlei Hu, Bin Li, Falai Chen, Kun Qu.
G3 (Bethesda), 2021 Apr 01;. PMID: 33787873    Free PMC article.
Inhibition of MAN2A1 Enhances the Immune Response to Anti-PD-L1 in Human Tumors.
Sailing Shi, Shengqing Gu, +11 authors, X Shirley Liu.
Clin Cancer Res, 2020 Jul 30; 26(22). PMID: 32723834    Free PMC article.
Identification of tumor microenvironment-associated immunological genes as potent prognostic markers in the cancer genome analysis project HOPE.
Ryota Kondou, Yasuto Akiyama, +31 authors, Ken Yamaguchi.
Mol Clin Oncol, 2021 Oct 12; 15(5). PMID: 34631056    Free PMC article.
Single-Cell RNA-Seq of T Cells in B-ALL Patients Reveals an Exhausted Subset with Remarkable Heterogeneity.
Xiaofang Wang, Yanjuan Chen, +8 authors, Yangqiu Li.
Adv Sci (Weinh), 2021 Aug 09; 8(19). PMID: 34365737    Free PMC article.
Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions.
Alma Andersson, Ludvig Larsson, +10 authors, Joakim Lundeberg.
Nat Commun, 2021 Oct 16; 12(1). PMID: 34650042    Free PMC article.
Improving CAR T-Cell Persistence.
Violena Pietrobon, Lauren Anne Todd, +3 authors, Francesco Marincola.
Int J Mol Sci, 2021 Oct 14; 22(19). PMID: 34639168    Free PMC article.
Comprehensive Analysis of Clinical Significance, Immune Infiltration and Biological Role of m6A Regulators in Early-Stage Lung Adenocarcinoma.
Bolun Zhou, Shugeng Gao.
Front Immunol, 2021 Oct 16; 12. PMID: 34650549    Free PMC article.
Dysregulation of TFH-B-TRM lymphocyte cooperation is associated with unfavorable anti-PD-1 responses in EGFR-mutant lung cancer.
Jae-Won Cho, Seyeon Park, +8 authors, Hye Ryun Kim.
Nat Commun, 2021 Oct 20; 12(1). PMID: 34663810    Free PMC article.
Single-cell transcriptomic analysis of the tumor ecosystems underlying initiation and progression of papillary thyroid carcinoma.
Weilin Pu, Xiao Shi, +18 authors, Yu-Long Wang.
Nat Commun, 2021 Oct 20; 12(1). PMID: 34663816    Free PMC article.
Single-cell RNA sequencing reveals distinct tumor microenvironmental patterns in lung adenocarcinoma.
Philip Bischoff, Alexandra Trinks, +17 authors, Frederick Klauschen.
Oncogene, 2021 Oct 20; 40(50). PMID: 34663877    Free PMC article.
Antigen dominance hierarchies shape TCF1+ progenitor CD8 T cell phenotypes in tumors.
Megan L Burger, Amanda M Cruz, +22 authors, Tyler Jacks.
Cell, 2021 Sep 18; 184(19). PMID: 34534464    Free PMC article.
Atlas of clinically distinct cell states and ecosystems across human solid tumors.
Bogdan A Luca, Chloé B Steen, +10 authors, Aaron M Newman.
Cell, 2021 Oct 02; 184(21). PMID: 34597583    Free PMC article.
CD161, a promising Immune Checkpoint, correlates with Patient Prognosis: A Pan-cancer Analysis.
Wenrui Ye, Cong Luo, +2 authors, Fangkun Liu.
J Cancer, 2021 Oct 19; 12(21). PMID: 34659549    Free PMC article.
Characterizing Intercellular Communication of Pan-Cancer Reveals SPP1+ Tumor-Associated Macrophage Expanded in Hypoxia and Promoting Cancer Malignancy Through Single-Cell RNA-Seq Data.
Jinfen Wei, Zixi Chen, +4 authors, Hongli Du.
Front Cell Dev Biol, 2021 Oct 23; 9. PMID: 34676217    Free PMC article.
High-Dimensional Single-Cell Transcriptomics in Melanoma and Cancer Immunotherapy.
Camelia Quek, Xinyu Bai, +2 authors, James S Wilmott.
Genes (Basel), 2021 Oct 24; 12(10). PMID: 34681023    Free PMC article.
Emerging concepts in PD-1 checkpoint biology.
Kristen E Pauken, James A Torchia, +2 authors, Gordon J Freeman.
Semin Immunol, 2021 May 20; 52. PMID: 34006473    Free PMC article.
Driver gene alterations profiling of Chinese non-small cell lung cancer and the effects of co-occurring alterations on immunotherapy.
Shengjie Sun, Wenjuan Du, +5 authors, Zhiyong Wu.
Cancer Med, 2021 Oct 03; 10(20). PMID: 34599863    Free PMC article.
Single-cell sequencing reveals antitumor characteristics of intratumoral immune cells in old mice.
Cangang Zhang, Lei Lei, +14 authors, Baojun Zhang.
J Immunother Cancer, 2021 Oct 14; 9(10). PMID: 34642245    Free PMC article.
Rapid Identification of the Tumor-Specific Reactive TIL Repertoire via Combined Detection of CD137, TNF, and IFNγ, Following Recognition of Autologous Tumor-Antigens.
Arianna Draghi, Christopher Aled Chamberlain, +16 authors, Marco Donia.
Front Immunol, 2021 Oct 29; 12. PMID: 34707600    Free PMC article.
Integrating single cell sequencing with a spatial quantitative systems pharmacology model spQSP for personalized prediction of triple-negative breast cancer immunotherapy response.
Shuming Zhang, Chang Gong, +5 authors, Elana J Fertig.
Immunoinformatics (Amst), 2021 Oct 29; 1-2. PMID: 34708216    Free PMC article.
Miscell: An efficient self-supervised learning approach for dissecting single-cell transcriptome.
Hongru Shen, Yang Li, +13 authors, Xiangchun Li.
iScience, 2021 Oct 30; 24(11). PMID: 34712916    Free PMC article.
Correlation of MKI67 with prognosis, immune infiltration, and T cell exhaustion in hepatocellular carcinoma.
Shi-Yi Wu, Pan Liao, +4 authors, Hong-Tao Sun.
BMC Gastroenterol, 2021 Nov 03; 21(1). PMID: 34724892    Free PMC article.
Elucidation of Tumor-Stromal Heterogeneity and the Ligand-Receptor Interactome by Single-Cell Transcriptomics in Real-world Pancreatic Cancer Biopsies.
Jaewon J Lee, Vincent Bernard, +12 authors, Paola A Guerrero.
Clin Cancer Res, 2021 Aug 25; 27(21). PMID: 34426439    Free PMC article.
Cyclophosphamide enhances the antitumor potency of GITR engagement by increasing oligoclonal cytotoxic T cell fitness.
Daniel Hirschhorn, Allison Betof Warner, +11 authors, Jedd D Wolchok.
JCI Insight, 2021 Oct 23; 6(20). PMID: 34676831    Free PMC article.
Deciphering cell lineage specification of human lung adenocarcinoma with single-cell RNA sequencing.
Zhoufeng Wang, Zhe Li, +16 authors, Weimin Li.
Nat Commun, 2021 Nov 13; 12(1). PMID: 34764257    Free PMC article.
Identifying phenotype-associated subpopulations by integrating bulk and single-cell sequencing data.
Duanchen Sun, Xiangnan Guan, +9 authors, Zheng Xia.
Nat Biotechnol, 2021 Nov 13; 40(4). PMID: 34764492    Free PMC article.
Peritumoral CD90+CD73+ cells possess immunosuppressive features in human non-small cell lung cancer.
Limei Wang, Haitang Yang, +10 authors, Sean R R Hall.
EBioMedicine, 2021 Nov 06; 73. PMID: 34740105    Free PMC article.
Single cell T cell landscape and T cell receptor repertoire profiling of AML in context of PD-1 blockade therapy.
Hussein A Abbas, Dapeng Hao, +31 authors, Andrew Futreal.
Nat Commun, 2021 Oct 20; 12(1). PMID: 34663807    Free PMC article.
T cell dysfunction in glioblastoma: a barrier and an opportunity for the development of successful immunotherapies.
Josephina A Jansen, Antonio Omuro, Liliana E Lucca.
Curr Opin Neurol, 2021 Sep 28; 34(6). PMID: 34569985    Free PMC article.
Dynamic regulatory networks of T cell trajectory dissect transcriptional control of T cell state transition.
Min Yan, Jing Hu, +9 authors, Xia Li.
Mol Ther Nucleic Acids, 2021 Nov 18; 26. PMID: 34786214    Free PMC article.
Single-cell analysis of diverse immune phenotypes in malignant pleural effusion.
Zhong-Yin Huang, Ming-Ming Shao, +9 authors, Huan-Zhong Shi.
Nat Commun, 2021 Nov 20; 12(1). PMID: 34795282    Free PMC article.
mTOR-dependent translation drives tumor infiltrating CD8+ effector and CD4+ Treg cells expansion.
Benedetta De Ponte Conti, Annarita Miluzio, +3 authors, Sara Ricciardi.
Elife, 2021 Nov 18; 10. PMID: 34787568    Free PMC article.
Single-cell atlas of tumor cell evolution in response to therapy in hepatocellular carcinoma and intrahepatic cholangiocarcinoma.
Lichun Ma, Limin Wang, +15 authors, Xin Wei Wang.
J Hepatol, 2021 Jul 04; 75(6). PMID: 34216724    Free PMC article.
Determinants of anti-PD-1 response and resistance in clear cell renal cell carcinoma.
Lewis Au, Emine Hatipoglu, +55 authors, TRACERx Renal Consortium.
Cancer Cell, 2021 Oct 30; 39(11). PMID: 34715028    Free PMC article.
Immune ageing at single-cell resolution.
Denis A Mogilenko, Irina Shchukina, Maxim N Artyomov.
Nat Rev Immunol, 2021 Nov 25;. PMID: 34815556    Free PMC article.
Exposure to Tobacco Smoking Induces a subset of Activated Tumor-resident Tregs in Non-Small Cell Lung Cancer.
Yudi Hu, Chaoqun Xu, +6 authors, Qiyuan Li.
Transl Oncol, 2021 Nov 13; 15(1). PMID: 34768099    Free PMC article.
RNA-Binding Protein Expression Alters Upon Differentiation of Human B Cells and T Cells.
Nordin D Zandhuis, Benoit P Nicolet, Monika C Wolkers.
Front Immunol, 2021 Dec 07; 12. PMID: 34867946    Free PMC article.
The Emerging Interplay Between Recirculating and Tissue-Resident Memory T Cells in Cancer Immunity: Lessons Learned From PD-1/PD-L1 Blockade Therapy and Remaining Gaps.
Silvia Gitto, Ambra Natalini, Fabrizio Antonangeli, Francesca Di Rosa.
Front Immunol, 2021 Dec 07; 12. PMID: 34867987    Free PMC article.
Identification of Immune-Related Gene Signatures in Lung Adenocarcinoma and Lung Squamous Cell Carcinoma.
Na Li, Jiahong Wang, Xianquan Zhan.
Front Immunol, 2021 Dec 11; 12. PMID: 34887858    Free PMC article.
Application and prospects of single cell sequencing in tumors.
Ruo Han Huang, Le Xin Wang, Jing He, Wen Gao.
Biomark Res, 2021 Dec 14; 9(1). PMID: 34895349    Free PMC article.
Single-Cell RNA Sequencing Reveals Multiple Pathways and the Tumor Microenvironment Could Lead to Chemotherapy Resistance in Cervical Cancer.
Meijia Gu, Ti He, +3 authors, Chao Shen.
Front Oncol, 2021 Dec 14; 11. PMID: 34900703    Free PMC article.
Neoantigen-driven B cell and CD4 T follicular helper cell collaboration promotes anti-tumor CD8 T cell responses.
Can Cui, Jiawei Wang, +13 authors, Nikhil S Joshi.
Cell, 2021 Dec 02; 184(25). PMID: 34852236    Free PMC article.
Investigating immune and non-immune cell interactions in head and neck tumors by single-cell RNA sequencing.
Cornelius H L Kürten, Aditi Kulkarni, +19 authors, Robert L Ferris.
Nat Commun, 2021 Dec 19; 12(1). PMID: 34921143    Free PMC article.
Alternative Splicing Events in Immune Infiltration of Lung Adenocarcinoma.
Tianpeng Huang, Wei Ye, Xuejiao Lin.
Med Sci Monit, 2021 Dec 06; 27. PMID: 34864813    Free PMC article.
CREM Is Correlated With Immune-Suppressive Microenvironment and Predicts Poor Prognosis in Gastric Adenocarcinoma.
Kuai Yu, Linju Kuang, +6 authors, Aiping Le.
Front Cell Dev Biol, 2021 Dec 24; 9. PMID: 34938728    Free PMC article.
Single-Cell Transcriptome Analysis Reveals RGS1 as a New Marker and Promoting Factor for T-Cell Exhaustion in Multiple Cancers.
Yunmeng Bai, Meiling Hu, +2 authors, Hongli Du.
Front Immunol, 2021 Dec 28; 12. PMID: 34956194    Free PMC article.
Distinct exhaustion features of T lymphocytes shape the tumor-immune microenvironment with therapeutic implication in patients with non-small-cell lung cancer.
Chang Gon Kim, Gamin Kim, +8 authors, Hye Ryun Kim.
J Immunother Cancer, 2021 Dec 16; 9(12). PMID: 34907028    Free PMC article.
Immunosuppression and outcomes in adult patients with de novo acute myeloid leukemia with normal karyotypes.
Francesca Ferraro, Christopher A Miller, +24 authors, Timothy J Ley.
Proc Natl Acad Sci U S A, 2021 Dec 01; 118(49). PMID: 34845035    Free PMC article.
Single-cell RNA sequencing reveals a pro-invasive cancer-associated fibroblast subgroup associated with poor clinical outcomes in patients with gastric cancer.
Xuechun Li, Zhao Sun, +12 authors, Xiaoyue Wang.
Theranostics, 2022 Jan 04; 12(2). PMID: 34976204    Free PMC article.
Overcoming microenvironmental resistance to PD-1 blockade in genetically engineered lung cancer models.
Amaia Martinez-Usatorre, Ece Kadioglu, +10 authors, Michele De Palma.
Sci Transl Med, 2021 Aug 13; 13(606). PMID: 34380768    Free PMC article.
CancerSCEM: a database of single-cell expression map across various human cancers.
Jingyao Zeng, Yadong Zhang, +9 authors, Jingfa Xiao.
Nucleic Acids Res, 2021 Oct 14; 50(D1). PMID: 34643725    Free PMC article.
Single-cell analysis of human non-small cell lung cancer lesions refines tumor classification and patient stratification.
Andrew M Leader, John A Grout, +30 authors, Miriam Merad.
Cancer Cell, 2021 Nov 13; 39(12). PMID: 34767762    Free PMC article.
Tumor-Associated Regulatory T Cell Expression of LAIR2 Is Prognostic in Lung Adenocarcinoma.
Dalam Ly, Quan Li, +6 authors, Li Zhang.
Cancers (Basel), 2022 Jan 12; 14(1). PMID: 35008369    Free PMC article.
Harnessing Antitumor CD4+ T Cells for Cancer Immunotherapy.
Myriam Ben Khelil, Yann Godet, +3 authors, Romain Loyon.
Cancers (Basel), 2022 Jan 12; 14(1). PMID: 35008422    Free PMC article.
Integrated single-cell RNA sequencing analysis reveals distinct cellular and transcriptional modules associated with survival in lung cancer.
Li Zhang, Yiming Zhang, +22 authors, Weimin Li.
Signal Transduct Target Ther, 2022 Jan 15; 7(1). PMID: 35027529    Free PMC article.
Tumor-Infiltrating CD4+ Central Memory T Cells Correlated with Favorable Prognosis in Oral Squamous Cell Carcinoma.
Jin Wu, Tianyi Zhang, +6 authors, Tong Su.
J Inflamm Res, 2022 Jan 18; 15. PMID: 35035226    Free PMC article.
Single-Cell RNA-Seq Technologies and Computational Analysis Tools: Application in Cancer Research.
Qianqian Song, Liang Liu.
Methods Mol Biol, 2022 Jan 20; 2413. PMID: 35044670
Deciphering the Immune-Tumor Interplay During Early-Stage Lung Cancer Development via Single-Cell Technology.
Wei-Wei Chen, Wei Liu, +5 authors, Hanjie Li.
Front Oncol, 2022 Jan 21; 11. PMID: 35047383    Free PMC article.
Resolving the difference between left-sided and right-sided colorectal cancer by single-cell sequencing.
Wei Guo, Cuiyu Zhang, +3 authors, Jingxin Li.
JCI Insight, 2021 Nov 19; 7(1). PMID: 34793335    Free PMC article.
Prognostic Landscape of Tumor-Infiltrating T and B Cells in Human Cancer.
Ming Zheng, Yi-Ming Li, +7 authors, Zhi-Nan Chen.
Front Immunol, 2022 Jan 25; 12. PMID: 35069521    Free PMC article.
Dissecting Cellular Heterogeneity Based on Network Denoising of scRNA-seq Using Local Scaling Self-Diffusion.
Xin Duan, Wei Wang, +2 authors, Xudong Lin.
Front Genet, 2022 Jan 28; 12. PMID: 35082838    Free PMC article.
Dissecting the heterogeneity of the microenvironment in primary and recurrent nasopharyngeal carcinomas using single-cell RNA sequencing.
Wen-Sa Peng, Xin Zhou, +9 authors, Chao-Su Hu.
Oncoimmunology, 2022 Feb 01; 11(1). PMID: 35096485    Free PMC article.
Cytotoxic CD4+ T cells in cancer: Expanding the immune effector toolbox.
David Y Oh, Lawrence Fong.
Immunity, 2021 Dec 16; 54(12). PMID: 34910940    Free PMC article.
Single-cell immune profiling reveals functional diversity of T cells in tuberculous pleural effusion.
Yi Cai, Yejun Wang, +13 authors, Xinchun Chen.
J Exp Med, 2022 Jan 22; 219(3). PMID: 35061012    Free PMC article.
A novel prognostic model based on single-cell RNA sequencing data for hepatocellular carcinoma.
Juan Lu, Yanfei Chen, +3 authors, Lanjuan Li.
Cancer Cell Int, 2022 Jan 27; 22(1). PMID: 35078458    Free PMC article.
Systemic Immune Dysregulation Correlates With Clinical Features of Early Non-Small Cell Lung Cancer.
Zhixing Hao, Mingjie Lin, +11 authors, Pin Wu.
Front Immunol, 2022 Feb 05; 12. PMID: 35116020    Free PMC article.
Temporal single-cell tracing reveals clonal revival and expansion of precursor exhausted T cells during anti-PD-1 therapy in lung cancer.
Baolin Liu, Xueda Hu, +8 authors, Zemin Zhang.
Nat Cancer, 2022 Feb 06; 3(1). PMID: 35121991
Single-Cell RNA Sequencing in Lung Cancer: Revealing Phenotype Shaping of Stromal Cells in the Microenvironment.
Jianhong Zhang, Chengyang Song, Ye Tian, Xueying Yang.
Front Immunol, 2022 Feb 08; 12. PMID: 35126365    Free PMC article.
Genetic Alteration, Prognostic and Immunological Role of Acyl-CoA Synthetase Long-Chain Family Member 4 in a Pan-Cancer Analysis.
Yongsheng Yu, Xuepu Sun, Fei Chen, Miao Liu.
Front Genet, 2022 Feb 08; 13. PMID: 35126480    Free PMC article.
Single-cell RNA sequencing identifies an Il1rn+/Trem1+ macrophage subpopulation as a cellular target for mitigating the progression of thoracic aortic aneurysm and dissection.
Xuanyu Liu, Wen Chen, +5 authors, Zhou Zhou.
Cell Discov, 2022 Feb 09; 8(1). PMID: 35132073    Free PMC article.
CD161 expression and regulation defines rapidly responding effector CD4+ T cells associated with improved survival in HPV16-associated tumors.
Chantal L Duurland, Saskia J Santegoets, +14 authors, Sjoerd H van der Burg.
J Immunother Cancer, 2022 Jan 19; 10(1). PMID: 35039463    Free PMC article.
An NK-like CAR T cell transition in CAR T cell dysfunction.
Charly R Good, M Angela Aznar, +27 authors, Carl H June.
Cell, 2021 Dec 04; 184(25). PMID: 34861191    Free PMC article.
T cell-mediated elimination of cancer cells by blocking CEACAM6-CEACAM1 interaction.
Jessica Pinkert, Hans-Henning Boehm, +28 authors, Joerg Willuda.
Oncoimmunology, 2022 Feb 11; 11(1). PMID: 35141051    Free PMC article.
PD-L1+CD8+ T cells enrichment in lung cancer exerted regulatory function and tumor-promoting tolerance.
Yingxia Zheng, Li Han, +10 authors, Lisong Shen.
iScience, 2022 Feb 12; 25(2). PMID: 35146396    Free PMC article.
Signatures of GVHD and relapse after posttransplant cyclophosphamide revealed by immune profiling and machine learning.
Shannon R McCurdy, Vedran Radojcic, +13 authors, Leo Luznik.
Blood, 2021 Oct 18; 139(4). PMID: 34657151    Free PMC article.
Functional and molecular characterization of PD1+ tumor-infiltrating lymphocytes from lung cancer patients.
Jesse J Lipp, Limei Wang, +14 authors, Sean R R Hall.
Oncoimmunology, 2022 Feb 15; 11(1). PMID: 35154905    Free PMC article.
Revealing Clonal Responses of Tumor-Reactive T-Cells Through T Cell Receptor Repertoire Analysis.
Hiroyasu Aoki, Shigeyuki Shichino, Kouji Matsushima, Satoshi Ueha.
Front Immunol, 2022 Feb 15; 13. PMID: 35154125    Free PMC article.
Myeloid antigen-presenting cell niches sustain antitumor T cells and license PD-1 blockade via CD28 costimulation.
Jaikumar Duraiswamy, Riccardo Turrini, +33 authors, George Coukos.
Cancer Cell, 2021 Nov 06; 39(12). PMID: 34739845    Free PMC article.
Identification of Immune Subtypes of Lung Squamous Cell Carcinoma by Integrative Genome-Scale Analysis.
Liyuan Yin, Wen Zhang, +7 authors, Qinghua Zhou.
Front Oncol, 2022 Feb 22; 11. PMID: 35186710    Free PMC article.
Efficient recovery of potent tumour-infiltrating lymphocytes through quantitative immunomagnetic cell sorting.
Zongjie Wang, Sharif Ahmed, +7 authors, Shana O Kelley.
Nat Biomed Eng, 2022 Jan 29; 6(2). PMID: 35087171
Negative Regulation of the IL-1 System by IL-1R2 and IL-1R8: Relevance in Pathophysiology and Disease.
Domenico Supino, Luna Minute, +3 authors, Cecilia Garlanda.
Front Immunol, 2022 Feb 26; 13. PMID: 35211118    Free PMC article.
scDPN for High-throughput Single-cell CNV Detection to Uncover Clonal Evolution During HCC Recurrence.
Liang Wu, Miaomiao Jiang, +9 authors, Shiping Liu.
Genomics Proteomics Bioinformatics, 2021 Jul 20; 19(3). PMID: 34280548    Free PMC article.
Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity.
Haitao Luo, Dechao Bu, +9 authors, Furong Li.
Genomics Proteomics Bioinformatics, 2021 Jul 21; 19(3). PMID: 34284134    Free PMC article.
Analysis of the tumor immune environment identifies an immune gene set-based prognostic signature in non-small cell lung cancer.
Guangran Guo, Longjun Yang, +7 authors, Lanjun Zhang.
Ann Transl Med, 2022 Mar 05; 10(1). PMID: 35242860    Free PMC article.
The interaction of CD4+ helper T cells with dendritic cells shapes the tumor microenvironment and immune checkpoint blockade response.
Merav Cohen, Amir Giladi, +16 authors, Ido Amit.
Nat Cancer, 2022 Mar 05; 3(3). PMID: 35241835
Clinical Prognostic Value of the PLOD Gene Family in Lung Adenocarcinoma.
Yiming Meng, Jing Sun, +2 authors, Haozhe Piao.
Front Mol Biosci, 2022 Mar 11; 8. PMID: 35265665    Free PMC article.
Improving Cancer Immunotherapy: Exploring and Targeting Metabolism in Hypoxia Microenvironment.
Jinfen Wei, Meiling Hu, Hongli Du.
Front Immunol, 2022 Mar 15; 13. PMID: 35281061    Free PMC article.
Identification of the Crucial Role of CCL22 in F. nucleatum-Related Colorectal Tumorigenesis that Correlates With Tumor Microenvironment and Immune Checkpoint Therapy.
Hufei Wang, Kangjia Luo, +12 authors, Rui Huang.
Front Genet, 2022 Mar 18; 13. PMID: 35295948    Free PMC article.
Landscape of Infiltrated Immune Cell Characterization in Uveal Melanoma to Improve Immune Checkpoint Blockade Therapy.
Xiaohui Lv, Min Ding, Yan Liu.
Front Immunol, 2022 Mar 22; 13. PMID: 35309331    Free PMC article.
NcRNA-Mediated High Expression of HMMR as a Prognostic Biomarker Correlated With Cell Proliferation and Cell Migration in Lung Adenocarcinoma.
Xiulin Jiang, Lin Tang, +5 authors, Lincan Duan.
Front Oncol, 2022 Mar 22; 12. PMID: 35311097    Free PMC article.
AhR promotes phosphorylation of ARNT isoform 1 in human T cell malignancies as a switch for optimal AhR activity.
Luke A Bourner, Israel Muro, +6 authors, Casey W Wright.
Proc Natl Acad Sci U S A, 2022 Mar 16; 119(12). PMID: 35290121    Free PMC article.
Ferroptosis-associated molecular classification characterized by distinct tumor microenvironment profiles in colorectal cancer.
Wenqin Luo, Weixing Dai, +10 authors, Guoxiang Cai.
Int J Biol Sci, 2022 Mar 29; 18(5). PMID: 35342352    Free PMC article.
Revealing the transcriptional heterogeneity of organ-specific metastasis in human gastric cancer using single-cell RNA Sequencing.
Haiping Jiang, Dingyi Yu, +6 authors, Xiaohui Fan.
Clin Transl Med, 2022 Feb 21; 12(2). PMID: 35184420    Free PMC article.
Reconstructing codependent cellular cross-talk in lung adenocarcinoma using REMI.
Alice Yu, Yuanyuan Li, +7 authors, Sylvia K Plevritis.
Sci Adv, 2022 Mar 19; 8(11). PMID: 35302849    Free PMC article.
The impact of CCR8+ regulatory T cells on cytotoxic T cell function in human lung cancer.
Miya Haruna, Azumi Ueyama, +13 authors, Hisashi Wada.
Sci Rep, 2022 Apr 01; 12(1). PMID: 35354899    Free PMC article.
Characteristics and Clinical Significance of T-Cell Receptor Repertoire in Hepatocellular Carcinoma.
Zifei Wang, Yu Zhong, +10 authors, Yunfan Sun.
Front Immunol, 2022 Apr 05; 13. PMID: 35371059    Free PMC article.
Single-cell RNA sequencing technologies and applications: A brief overview.
Dragomirka Jovic, Xue Liang, +3 authors, Yonglun Luo.
Clin Transl Med, 2022 Mar 31; 12(3). PMID: 35352511    Free PMC article.
IL-9/STAT3/fatty acid oxidation-mediated lipid peroxidation contributes to Tc9 cell longevity and enhanced antitumor activity.
Liuling Xiao, Xingzhe Ma, +8 authors, Qing Yi.
J Clin Invest, 2022 Feb 23; 132(7). PMID: 35192544    Free PMC article.
Comprehensive Molecular Analyses of a TNF Family-Based Gene Signature as a Potentially Novel Prognostic Biomarker for Cervical Cancer.
Yan Ma, Xiaoyan Zhang, +3 authors, Jianping Qiu.
Front Oncol, 2022 Apr 09; 12. PMID: 35392242    Free PMC article.
Single-cell RNA sequencing coupled to TCR profiling of large granular lymphocyte leukemia T cells.
Shouguo Gao, Zhijie Wu, +10 authors, Neal S Young.
Nat Commun, 2022 Apr 13; 13(1). PMID: 35411048    Free PMC article.
Immune checkpoint blockade sensitivity and progression-free survival associates with baseline CD8+ T cell clone size and cytotoxicity.
Robert A Watson, Orion Tong, +8 authors, Benjamin P Fairfax.
Sci Immunol, 2021 Oct 02; 6(64). PMID: 34597125    Free PMC article.
Hepatocellular carcinoma-infiltrating γδ T cells are functionally defected and allogenic Vδ2+ γδ T cell can be a promising complement.
Wenjing He, Yi Hu, +10 authors, Yangzhe Wu.
Clin Transl Med, 2022 Apr 08; 12(4). PMID: 35390227    Free PMC article.
Next-generation computational tools for interrogating cancer immunity.
Francesca Finotello, Dietmar Rieder, Hubert Hackl, Zlatko Trajanoski.
Nat Rev Genet, 2019 Sep 14; 20(12). PMID: 31515541
Gaussian graphical model-based heterogeneity analysis via penalized fusion.
Mingyang Ren, Sanguo Zhang, Qingzhao Zhang, Shuangge Ma.
Biometrics, 2021 Jan 28;. PMID: 33501648    Free PMC article.
Different subpopulations of regulatory T cells in human autoimmune disease, transplantation, and tumor immunity.
Zhongyi Jiang, Haitao Zhu, +4 authors, Futian Du.
MedComm (2020), 2022 Apr 28; 3(2). PMID: 35474948    Free PMC article.
AXL targeting restores PD-1 blockade sensitivity of STK11/LKB1 mutant NSCLC through expansion of TCF1+ CD8 T cells.
Huiyu Li, Zhida Liu, +30 authors, Rolf A Brekken.
Cell Rep Med, 2022 May 03; 3(3). PMID: 35492873    Free PMC article.
High-throughput single-сell sequencing in cancer research.
Qingzhu Jia, Han Chu, +2 authors, Bo Zhu.
Signal Transduct Target Ther, 2022 May 04; 7(1). PMID: 35504878    Free PMC article.
Landscape of helper and regulatory antitumour CD4+ T cells in melanoma.
Giacomo Oliveira, Kari Stromhaug, +24 authors, Catherine J Wu.
Nature, 2022 May 05; 605(7910). PMID: 35508657
Decoding the pathogenesis of Diamond-Blackfan anemia using single-cell RNA-seq.
Bingrui Wang, Chenchen Wang, +20 authors, Lihong Shi.
Cell Discov, 2022 May 10; 8(1). PMID: 35534476    Free PMC article.
Refining colorectal cancer classification and clinical stratification through a single-cell atlas.
Ateeq M Khaliq, Cihat Erdogan, +28 authors, Ashiq Masood.
Genome Biol, 2022 May 11; 23(1). PMID: 35538548    Free PMC article.
Single-cell landscape of immunocytes in patients with extrahepatic cholangiocarcinoma.
Lei Xu, Yun Lu, +5 authors, Jianming Wang.
J Transl Med, 2022 May 14; 20(1). PMID: 35562760    Free PMC article.
Single-Cell RNA Sequencing Analysis for Oncogenic Mechanisms Underlying Oral Squamous Cell Carcinoma Carcinogenesis with Candida albicans Infection.
Yi-Ping Hsieh, Yu-Hsueh Wu, +10 authors, Tze-Ta Huang.
Int J Mol Sci, 2022 May 15; 23(9). PMID: 35563222    Free PMC article.
Immunotherapy resistance of lung cancer.
Xin Yu, Chaonan Han, Chunxia Su.
Cancer Drug Resist, 2022 May 19; 5(1). PMID: 35582531    Free PMC article.
Activation-induced pyroptosis contributes to the loss of MAIT cells in chronic HIV-1 infected patients.
Peng Xia, Xu-Dong Xing, +14 authors, Ji-Yuan Zhang.
Mil Med Res, 2022 May 27; 9(1). PMID: 35619176
Global characterization of megakaryocytes in bone marrow, peripheral blood, and cord blood by single-cell RNA sequencing.
Weilong Zhang, Changjian Yan, +10 authors, Hongmei Jing.
Cancer Gene Ther, 2022 Jun 02;. PMID: 35650393
The correlation of EZH2 expression with the progression and prognosis of hepatocellular carcinoma.
Shi-Yi Wu, Zhao-Yu Xie, +5 authors, Hong-Tao Sun.
BMC Immunol, 2022 Jun 07; 23(1). PMID: 35659256