With the proliferating studies of human cancers by single-cell RNA sequencing technique (scRNA-seq), cellular heterogeneity, immune landscape and pathogenesis within diverse cancers have been uncovered successively. The exponential explosion of massive cancer scRNA-seq datasets in the past decade are calling for a burning demand to be integrated and processed for essential investigations in tumor microenvironment of various cancer types. To fill this gap, we developed a database of Cancer Single-cell Expression Map (CancerSCEM, https://ngdc.cncb.ac.cn/cancerscem), particularly focusing on a variety of human cancers. To date, CancerSCE version 1.0 consists of 208 cancer samples across 28 studies and 20 human cancer types. A series of uniformly and multiscale analyses for each sample were performed, including accurate cell type annotation, functional gene expressions, cell interaction network, survival analysis and etc. Plus, we visualized CancerSCEM as a user-friendly web interface for users to browse, search, online analyze and download all the metadata as well as analytical results. More importantly and unprecedentedly, the newly-constructed comprehensive online analyzing platform in CancerSCEM integrates seven analyze functions, where investigators can interactively perform cancer scRNA-seq analyses. In all, CancerSCEM paves an informative and practical way to facilitate human cancer studies, and also provides insights into clinical therapy assessments.
基金:
Strategic Priority Research Program of the Chinese Academy of SciencesChinese Academy of Sciences [XDB38030400]; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31970634, 31771465]; National Key Research Program of China [2016YFB0201702, 2020YFA0907001]; CAS Key Technology Talent Program; Specialized Research Assistant Programof the Chinese Academy of Sciences [202044]; China Postdoctoral Science FoundationChina Postdoctoral Science Foundation [2021M693109]
第一作者机构:[1]Chinese Acad Sci, Natl Genom Data Ctr, Beijing Inst Genom, Beijing 100101, Peoples R China[2]China Natl Ctr Bioinformat, Beijing 100101, Peoples R China[3]Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing 100101, Peoples R China
共同第一作者:
通讯作者:
通讯机构:[1]Chinese Acad Sci, Natl Genom Data Ctr, Beijing Inst Genom, Beijing 100101, Peoples R China[2]China Natl Ctr Bioinformat, Beijing 100101, Peoples R China[3]Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing 100101, Peoples R China[4]Univ Chinese Acad Sci, Beijing 100049, Peoples R China
推荐引用方式(GB/T 7714):
Zeng Jingyao,Zhang Yadong,Shang Yunfei,et al.CancerSCEM: a database of single-cell expression map across various human cancers[J].NUCLEIC ACIDS RESEARCH.2022,50(D1):D1147-D1155.doi:10.1093/nar/gkab905.
APA:
Zeng, Jingyao,Zhang, Yadong,Shang, Yunfei,Mai, Jialin,Shi, Shuo...&Xiao, Jingfa.(2022).CancerSCEM: a database of single-cell expression map across various human cancers.NUCLEIC ACIDS RESEARCH,50,(D1)
MLA:
Zeng, Jingyao,et al."CancerSCEM: a database of single-cell expression map across various human cancers".NUCLEIC ACIDS RESEARCH 50..D1(2022):D1147-D1155