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".

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.