中国科学院机构知识库网格
Chinese Academy of Sciences Institutional Repositories Grid
首页 机构 成果 学者
  
  1. CAS IR Grid
  2. 计算技术研究所
  3. 中国科学院计算技术研究所
  4. 中国科学院计算技术研究所期刊论文
  5. 英文
Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity

文献类型：期刊论文

作者Luo, Haitao1,2,3; Bu, Dechao4; Shao, Lijuan1,2,3; Li, Yang5; Sun, Liang4; Wang, Ce1,2; Wang, Jing1,2,3; Yang, Wei1,2; Yang, Xiaofei1,2; Dong, Jun3
刊名GENOMICS PROTEOMICS & BIOINFORMATICS
出版日期2021-06-01
卷号19期号:3页码:377-393
ISSN号1672-0229
关键词Long non-coding RNA Transcriptome assembly Metacell Immune regulation Functional annotation
DOI10.1016/j.gpb.2021.02.006
英文摘要The development of new biomarkers or therapeutic targets for cancer immunotherapies requires deep understanding of T cells. To date, the complete landscape and systematic characterization of long noncoding RNAs (lncRNAs) in T cells in cancer immunity are lacking. Here, by systematically analyzing full-length single-cell RNA sequencing (scRNA-seq) data of more than 20,000 libraries of T cells across three cancer types, we provided the first comprehensive catalog and the functional repertoires of lncRNAs in human T cells. Specifically, we developed a custom pipeline for de novo transcriptome assembly and obtained a novel lncRNA catalog containing 9433 genes. This increased the number of current human lncRNA catalog by 16% and nearly doubled the number of lncRNAs expressed in T cells. We found that a portion of expressed genes in single T cells were lncRNAs which had been overlooked by the majority of previous studies. Based on metacell maps constructed by the MetaCell algorithm that partitions scRNA-seq datasets into disjointed and homogenous groups of cells (metacells), 154 signature lncRNA genes were identified. They were associated with effector, exhausted, and regulatory T cell states. Moreover, 84 of them were functionally annotated based on the co-expression networks, indicating that lncRNAs might broadly participate in the regulation of T cell functions. Our findings provide a new point of view and resource for investigating the mechanisms of T cell regulation in cancer immunity as well as for novel cancer-immune biomarker development and cancer immunotherapies.
资助项目Science and Technology Project of Shenzhen, China[JCYJ20190807145013281] ; Science and Technology Project of Shenzhen, China[JHZ20170310090257380] ; Science and Technology Project of Shenzhen, China[JCYJ20170413092711058] ; Science and Technology Project of Shenzhen, China[JCYJ20170307095822325] ; China Postdoctoral Science Foundation[2019M663369] ; National Natural Science Foundation of China[31970636]
WOS研究方向Genetics & Heredity
语种英语
出版者ELSEVIER
WOS记录号WOS:000753148400005
源URL[http://119.78.100.204/handle/2XEOYT63/18998]  
专题中国科学院计算技术研究所期刊论文_英文
通讯作者Luo, Haitao; Dong, Jun; Zhao, Yi; Li, Furong
作者单位1.Jinan Univ, Clin Med Coll 2, Shenzhen Peoples Hosp, Translat Med Collaborat Innovat Ctr, Shenzhen 518020, Peoples R China
2.Shenzhen Key Lab Stem Cell Res & Clin Transformat, Shenzhen 518020, Peoples R China
3.Jinan Univ, Integrated Chinese & Western Med Postdoctoral Res, Guangzhou 510632, Peoples R China
4.Chinese Acad Sci, Inst Comp Technol, Adv Comp Res Ctr, Key Lab Intelligent Informat Proc,Bioinformat Res, Beijing 100190, Peoples R China
5.Jinan Univ, Clin Med Coll 2, Shenzhen Peoples Hosp, Dept Gastrointestinal Surg, Shenzhen 518020, Peoples R China
推荐引用方式
GB/T 7714		 Luo, Haitao,Bu, Dechao,Shao, Lijuan,et al. Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity[J]. GENOMICS PROTEOMICS & BIOINFORMATICS,2021,19(3):377-393.
APA Luo, Haitao.,Bu, Dechao.,Shao, Lijuan.,Li, Yang.,Sun, Liang.,...&Li, Furong.(2021).Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity.GENOMICS PROTEOMICS & BIOINFORMATICS,19(3),377-393.
MLA Luo, Haitao,et al."Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity".GENOMICS PROTEOMICS & BIOINFORMATICS 19.3(2021):377-393.

入库方式： OAI收割

来源：计算技术研究所

浏览0
下载0
收藏0
其他版本

除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。