HPV16-Positive Cell Line Sequencing

CTCF ChIP-Seq, RNA-seq, and ATAC-seq data from 5 patient-derived HPV16-positive cell lines

Description: We used 5 patient-derived HPV16-positive cell lines. Three biological replicates for CTCF ChIP-seq, 1 lane of sequencing for ATAC-seq of each sample, and 4 lanes of sequencing for RNA-seq of each sample. We report that the integration of the human papillomavirus into the host genome increases chromatin accessibility, transcription, and CTCF binding within 100 kbp of the integration site which promotes oncogenesis in some patients.
Karimzadeh M, Arlidge C, Rostami A, Lupien M, Bratman SV, Hoffman MM
Lab: Hoffman
Year: 2020
Keywords: CTCF, ChIP-seq, RNA-seq, ATAC-seq, HPV, cervical cancer


Karimzadeh M, Arlidge C, Rostami A, et al. Viral integration transforms chromatin to drive oncogenesis. bioRxiv; 2020. DOI: 10.1101/2020.02.12.942755.

30 samples

Sample Type:Homo sapiens, 5 patient-derived HPV16-positive cell lines (93-VU147T, Caski, HMS-001, SCC-090, SiHa)
Datatype:ChIP-seq, RNA-seq, ATAC-seq
Technology:ChIP-seq, RNA-seq, ATAC-seq


This dataset is public.

Contact: Michael Hoffman

Contact email: Email