Full-length single-cell rna-seq applied to a viral human cancer: applications to hpv expression and splicing analysis in hela s3 cells
文献类型：期刊论文
| 作者 | Wu,Liang1; Zhang,Xiaolong1,2; Zhao,Zhikun1,3,4; Wang,Ling5; Li,Bo1; Li,Guibo1,6; Dean,Michael7; Yu,Qichao1,8; Wang,Yanhui1; Lin,Xinxin1 |
| 刊名 | Gigascience
 |
| 出版日期 | 2015-11-05 |
| 卷号 | 4期号:1 |
| 关键词 | Single-cell transcriptome Hela Hpv Virus Tumor heterogeneity Cancer Rna splicing |
| ISSN号 | 2047-217X |
| DOI | 10.1186/s13742-015-0091-4 |
| 通讯作者 | Hou,yong(houyong@genomics.cn) ; Xu,xun(xuxun@genomics.cn) |
| 英文摘要 | Abstractbackgroundviral infection causes multiple forms of human cancer, and hpv infection is the primary factor in cervical carcinomas. recent single-cell rna-seq studies highlight the tumor heterogeneity present in most cancers, but virally induced tumors have not been studied. hela is a well characterized hpv+ cervical cancer cell line.resultwe developed a new high throughput platform to prepare single-cell rna on a nanoliter scale based on a customized microwell chip. using this method, we successfully amplified full-length transcripts of 669 single hela s3 cells and 40 of them were randomly selected to perform single-cell rna sequencing. based on these data, we obtained a comprehensive understanding of the heterogeneity of hela s3 cells in gene expression, alternative splicing and fusions. furthermore, we identified a high diversity of hpv-18 expression and splicing at the single-cell level. by co-expression analysis we identified 283 e6, e7 co-regulated genes, including cdc25, pcna, plk4, bub1b and irf1 known to interact with hpv viral proteins.conclusionour results reveal the heterogeneity of a virus-infected cell line. it not only provides a transcriptome characterization of hela s3 cells at the single cell level, but is a demonstration of the power of single cell rna-seq analysis of virally infected cells and cancers. |
| 语种 | 英语 |
| WOS记录号 | BMC:10.1186/S13742-015-0091-4 |
| 出版者 | BioMed Central |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2374348 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Hou,Yong; Xu,Xun |
| 作者单位 | 1.BGI-Shenzhen 2.University of Chinese Academy of Sciences; College of Life Sciences 3.Southeast University; State Key Laboratory of Bioelectronics 4.Southeast University; School of Biological Science and Medical Engineering 5.Fourth Military Medical University; Department of Vascular and Endocrine Surgery, Xijing Hospital 6.University of Copenhagen; Department of Biology 7.National Cancer Institute at Frederick; Cancer and Inflammation Program 8.University of Chinese Academy of Sciences; BGI-Education Center 9.The Guangdong Enterprise Key Laboratory of Human Disease Genomics, BGI-Shenzhen 10.The University of Queensland; Institute for Molecular Bioscience |
| 推荐引用方式 GB/T 7714 | Wu,Liang,Zhang,Xiaolong,Zhao,Zhikun,et al. Full-length single-cell rna-seq applied to a viral human cancer: applications to hpv expression and splicing analysis in hela s3 cells[J]. Gigascience,2015,4(1). |
| APA | Wu,Liang.,Zhang,Xiaolong.,Zhao,Zhikun.,Wang,Ling.,Li,Bo.,...&Xu,Xun.(2015).Full-length single-cell rna-seq applied to a viral human cancer: applications to hpv expression and splicing analysis in hela s3 cells.Gigascience,4(1). |
| MLA | Wu,Liang,et al."Full-length single-cell rna-seq applied to a viral human cancer: applications to hpv expression and splicing analysis in hela s3 cells".Gigascience 4.1(2015). |
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来源：中国科学院大学
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