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Data released on November 09, 2015

Supporting data for "Full-length single cell RNA-seq applied to a viral human cancer: Applications to HPV expression and splicing analysis in HeLa S3 cells".

Chen, J; Dean, M; Hou, Y; Jiang, R; Kristiansen, K; Li, B; Li, F; Li, G; Li, Y; Li, Y; Lin, X; Mei, Z; Rao, W; Wang, J; Wang, L; Wang, T; Wang, Y; Wu, K; Wu, L; Xie, G; Xu, L; Xu, X; Yang, H; Yang, H; Yu, Q; Zhang, J; Zhang, X; Zhang, X; Zhao, Z (2015): Supporting data for "Full-length single cell RNA-seq applied to a viral human cancer: Applications to HPV expression and splicing analysis in HeLa S3 cells". GigaScience Database. http://dx.doi.org/10.5524/100160 RIS BibTeX Text

Viral infection causes multiple forms of human cancer, and human papillomavirus (HPV) infection is the primary factor in cervical carcinomas. Single-cell RNA-seq studies highlight the tumor heterogeneity of most cancers, but virally induced tumors have not been studied. HeLa is a well characterized HPV+ cervical cancer cell line. We 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, 40 of which were randomly selected to perform single-cell RNA sequencing. On the basis of this data, we obtained a comprehensive understanding of the heterogeneity of HeLa S3 cells in terms of gene expression, alternative splicing, and gene fusions. Furthermore, by co-expression analysis we can identify a high diversity of HPV-18 gene expression and splicing at the single-cell level. In addition to providing a characterization of the transcriptome of HeLa S3 cells at the single-cell level, our study demonstrates the power of single-cell RNA-seq analysis of virally infected cells and cancers.

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Read the peer-reviewed publication(s):

Wu, L., Zhang, X., Zhao, Z., Wang, L., Li, B., Li, G., … Xu, X. (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). doi:10.1186/s13742-015-0091-4

Accessions (data included in GigaDB):

BioProject: PRJNA301652

Keywords:

single-cell transcriptome HeLa HPV virus tumor heterogeneity cancer RNA splicing 

Transcriptomic

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File NameSample IDData TypeFile FormatSizeRelease Date 
Expression dataEXCEL1.01 MB2015-11-09
Expression dataEXCEL5.72 MB2015-11-09
TextTEXT0.88 KB2015-11-09
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