ArticleGigaScience2015
Full-length single-cell RNA-seq applied to a viral human cancer: applications to HPV expression and splicing analysis in HeLa S3 cells.
Article in GigaScience, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 68 citations in OpenAlex.
- A medium throughput approach for single cell copy number variation sequencing towards efficient application in clinics.Journal of advanced research · 2026Article
- Advancements in single-cell sequencing for cervical cancer research.Molecular and cellular biochemistry · 2026Review
- Application of Single-Cell RNA Sequencing in Investigating Virus-Host Interactions.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Transcriptomic Signatures of Zika Virus Infection in Patients and a Cell Culture Model.Microorganisms · 2024Article
- Zika virus infection in a cell culture model reflects the transcriptomic signatures in patients.bioRxiv : the preprint server for biology · 2024Article
- Single-cell RNA sequencing of nc886, a non-coding RNA transcribed by RNA polymerase III, with a primer spike-in strategy.PloS one · 2024Article
- Single-cell RNA-seq methods to interrogate virus-host interactions.Seminars in immunopathology · 2023Review
- Modeling HPV-Associated Disease and Cancer Using the Cottontail Rabbit Papillomavirus.Viruses · 2022Review
- Clinically relevant fusion oncogenes: detection and practical implications.Therapeutic advances in medical oncology · 2022Review
- Functional Annotation of a Full-Length Transcriptome and Identification of Genes Associated with Flower Development inPlants (Basel, Switzerland) · 2021Article
- AGO-accessible anticancer siRNAs designed with synergistic miRNA-like activity.Molecular therapy. Nucleic acids · 2021Article
- Multiregion single-cell sequencing reveals the transcriptional landscape of the immune microenvironment of colorectal cancer.Clinical and translational medicine · 2021Article
- Microfluidics in Single-Cell Virology: Technologies and Applications.Trends in biotechnology · 2020Review
- Embryonic liver developmental trajectory revealed by single-cell RNA sequencing in the Foxa2Communications biology · 2020Article
- Single-cell RNA profiling links ncRNAs to spatiotemporal gene expression during C. elegans embryogenesis.Scientific reports · 2020Article
- Fusion transcript detection using spatial transcriptomics.BMC medical genomics · 2020Article
- Comprehensive analysis of prognostic alternative splicing signature in cervical cancer.Cancer cell international · 2020Article
- Technological advances and computational approaches for alternative splicing analysis in single cells.Computational and structural biotechnology journal · 2020Review
- scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation.Genome biology · 2019Article
- Clonal Decomposition and DNA Replication States Defined by Scaled Single-Cell Genome Sequencing.Cell · 2019Article
Corrections and comments
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Authors and funding
29 authors at 9 institutions in 5 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundViral 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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.