Research graph
References from Human papillomavirus genomes associate with active host chromatin during persistent viral infection. Local targets link to admitted publications; unresolved targets remain external evidence.
Hitchhiking of Viral Genomes on Cellular Chromosomes
10.1146/annurev-virology-092818-015716 · 2019 · External reference
Long-term episomal maintenance of bovine papillomavirus type 1 plasmids is determined by attachment to host chromosomes, which Is mediated by the viral E2 protein and its binding sites
10.1128/jvi.73.5.4404-4412.1999 · 1999 · External reference
Bovine papillomavirus type 1 genomes and the E2 transactivator protein are closely associated with mitotic chromatin
10.1128/jvi.72.3.2079-2088.1998 · 1998 · External reference
Interaction of the bovine papillomavirus E2 protein with Brd4 tethers the viral DNA to host mitotic chromosomes
10.1016/s0092-8674(04)00402-7 · 2004 · External reference
The mitotic chromosome binding activity of the papillomavirus E2 protein correlates with interaction with the cellular chromosomal protein, Brd4
10.1128/jvi.79.8.4806-4818.2005 · 2005 · External reference
Interaction of bovine papillomavirus E2 protein with Brd4 stabilizes its association with chromatin
10.1128/jvi.79.14.8920-8932.2005 · 2005 · External reference
Papillomavirus E2 proteins and the host BRD4 protein associate with transcriptionally active cellular chromatin
10.1128/jvi.02275-08 · 2009 · External reference
Papillomavirus genomes associate with BRD4 to replicate at fragile sites in the host genome
2014 · External reference
Inhibition of E2 binding to Brd4 enhances viral genome loss and phenotypic reversion of bovine papillomavirus-transformed cells
10.1128/jvi.79.23.14956-14961.2005 · 2005 · External reference
The role of integration in oncogenic progression of HPV-associated cancers
10.1371/journal.ppat.1006211 · 2017 · External reference
Preferential sites for viral integration on mammalian genome
10.1016/0165-4608(89)90084-8 · 1989 · External reference
Viral integration and fragile sites in human papillomavirus-immortalized human keratinocyte cell lines
10.1002/gcc.2870050209 · 1992 · External reference
Human papillomavirus type 16 integrations in cervical tumors frequently occur in common fragile sites
2000 · External reference
Transcriptionally active regions are the preferred targets for chromosomal HPV integration in cervical carcinogenesis
10.1371/journal.pone.0119566 · 2015 · External reference
Genomic characterization of viral integration sites in HPV-related cancers
10.1002/ijc.30243 · 2016 · External reference
Integrated Analysis of Whole-Genome ChIP-Seq and RNA-Seq Data of Primary Head and Neck Tumor Samples Associates HPV Integration Sites with Open Chromatin Marks
10.1158/0008-5472.can-17-0833 · 2017 · External reference
Recurrent integration of human papillomavirus genomes at transcriptional regulatory hubs
10.1038/s41525-021-00264-y · 2021 · External reference
The Epstein-Barr Virus Episome Maneuvers between Nuclear Chromatin Compartments during Reactivation
10.1128/jvi.01413-17 · 2018 · External reference
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
10.1186/s13059-015-0831-x · 2015 · External reference
MHiC, an integrated user-friendly tool for the identification and visualization of significant interactions in Hi-C data
10.1186/s12864-020-6636-7 · 2020 · External reference
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
10.1126/science.1181369 · 2009 · External reference
Cell-cycle dynamics of chromosomal organization at single-cell resolution
10.1038/nature23001 · 2017 · External reference
Chromatin structure dynamics during the mitosis-to-G1 phase transition
10.1038/s41586-019-1778-y · 2019 · External reference
Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer
10.1016/j.cell.2020.07.030 · 2020 · External reference
Circular chromosome conformation capture (4C-seq) analysis of HBV-host chromosome DNA interactome.
10.1007/978-1-0716-4027-2_5 · 2024 · External reference
Transcriptionally inactive hepatitis B virus episome DNA preferentially resides in the vicinity of chromosome 19 in 3D host genome upon infection
10.1016/j.celrep.2021.109288 · 2021 · External reference
The adeno-associated virus 2 genome and Rep 68/78 proteins interact with cellular sites of DNA damage
10.1093/hmg/ddab300 · 2022 · External reference
Parvovirus minute virus of mice interacts with sites of cellular DNA damage to establish and amplify its lytic infection
10.7554/elife.37750 · 2018 · External reference
4C technology: protocols and data analysis
10.1016/b978-0-12-391938-0.00004-5 · 2012 · External reference
4C-seq from beginning to end: A detailed protocol for sample preparation and data analysis
10.1016/j.ymeth.2019.07.014 · 2020 · External reference
Short- and long-range cis interactions between integrated HPV genomes and cellular chromatin dysregulate host gene expression in early cervical carcinogenesis
10.1371/journal.ppat.1009875 · 2021 · External reference
Growth and differentiation of human papillomavirus type 31b positive human cervical cell lines
10.1006/gyno.1993.1131 · 1993 · External reference
Epigenetic specifications of host chromosome docking sites for latent Epstein-Barr virus
10.1038/s41467-019-14152-8 · 2020 · External reference
C-myc proto-oncogene expression and prognosis in early carcinoma of the uterine cervix
10.1016/s0140-6736(87)92795-4 · 1987 · External reference
HPV31 E7 facilitates replication by activating E2F2 transcription through its interaction with HDACs
10.1038/sj.emboj.7600651 · 2005 · External reference
Direct activation of caspase 8 by the proapoptotic E2 protein of HPV18 independent of adaptor proteins
10.1038/cdd.2008.53 · 2008 · External reference
HiTC: exploration of high-throughput “C” experiments
10.1093/bioinformatics/bts521 · 2012 · External reference
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes
10.1038/s41467-021-22666-3 · 2021 · External reference
HPV integration hijacks and multimerizes a cellular enhancer to generate a viral-cellular super-enhancer that drives high viral oncogene expression
10.1371/journal.pgen.1007179 · 2018 · External reference
Association between cyclin D1 (CCND1) gene amplification and human papillomavirus infection in human laryngeal squamous cell carcinoma
1998 · External reference
Specific down-modulation of Notch1 signaling in cervical cancer cells is required for sustained HPV-E6/E7 expression and late steps of malignant transformation
10.1101/gad.988902 · 2002 · External reference
Human papillomavirus E7 protein deregulates mitosis via an association with nuclear mitotic apparatus protein 1
10.1128/jvi.01971-08 · 2009 · External reference
Genome-wide methylation and expression differences in HPV(+) and HPV(-) squamous cell carcinoma cell lines are consistent with divergent mechanisms of carcinogenesis
10.4161/epi.6.6.16216 · 2011 · External reference
The human papillomavirus 16 E6 protein binds to Fas-associated death domain and protects cells from Fas-triggered apoptosis
10.1074/jbc.m401172200 · 2004 · External reference
Destabilization of TIP60 by human papillomavirus E6 results in attenuation of TIP60-dependent transcriptional regulation and apoptotic pathway
10.1016/j.molcel.2010.05.020 · 2010 · External reference
HPV-16 E7 reveals a link between DNA replication stress, fanconi anemia D2 protein, and alternative lengthening of telomere-associated promyelocytic leukemia bodies
10.1158/0008-5472.can-08-0224 · 2008 · External reference
Dysregulation of hsa-miR-34a and hsa-miR-449a leads to overexpression of PACS-1 and loss of DNA damage response (DDR) in cervical cancer
10.1074/jbc.ra120.014048 · 2020 · External reference
Super-enhancers in the control of cell identity and disease
10.1016/j.cell.2013.09.053 · 2013 · External reference
GREAT improves functional interpretation of cis-regulatory regions
10.1038/nbt.1630 · 2010 · External reference
Bon voyage: A transcriptional journey around DNA breaks
10.1016/j.dnarep.2019.102686 · 2019 · External reference
Human papillomaviruses activate the ATM DNA damage pathway for viral genome amplification upon differentiation
10.1371/journal.ppat.1000605 · 2009 · External reference
DSBCapture: in situ capture and sequencing of DNA breaks
10.1038/nmeth.3960 · 2016 · External reference
RUNX1-mediated alphaherpesvirus-host trans-species chromatin interaction promotes viral transcription
10.1126/sciadv.abf8962 · 2021 · External reference
Tridimensional infiltration of DNA viruses into the host genome shows preferential contact with active chromatin
10.1038/s41467-018-06739-4 · 2018 · External reference
Epstein-Barr Virus Episome Physically Interacts with Active Regions of the Host Genome in Lymphoblastoid Cells
10.1128/jvi.01390-20 · 2020 · External reference
Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus
10.1016/j.cell.2018.05.024 · 2018 · External reference
Genome organization around nuclear speckles
10.1016/j.gde.2019.06.008 · 2019 · External reference
Coactivator condensation at super-enhancers links phase separation and gene control
10.1126/science.aar3958 · 2018 · External reference
Human Papillomavirus Genome Copy Number Is Maintained by S-Phase Amplification, Genome Loss to the Cytosol during Mitosis, and Degradation in G 1 Phase
10.1128/jvi.01879-22 · 2023 · External reference
Tracking replicating HPV genomes in proliferating keratinocytes
2025 · External reference
Widespread Mitotic Bookmarking by Histone Marks and Transcription Factors in Pluripotent Stem Cells
10.1016/j.celrep.2017.04.067 · 2017 · External reference
H3K27ac bookmarking promotes rapid post-mitotic activation of the pluripotent stem cell program without impacting 3D chromatin reorganization
10.1016/j.molcel.2021.02.032 · 2021 · External reference
CCCTC-binding factor recruitment to the early region of the human papillomavirus 18 genome regulates viral oncogene expression
10.1128/jvi.00097-15 · 2015 · External reference
Disruption of CTCF-YY1-dependent looping of the human papillomavirus genome activates differentiation-induced viral oncogene transcription
10.1371/journal.pbio.2005752 · 2018 · External reference
Utilization of Host Cell Chromosome Conformation by Viral Pathogens: Knowing When to Hold and When to Fold
10.3389/fimmu.2021.633762 · 2021 · External reference
Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes
10.1016/j.cell.2015.05.032 · 2015 · External reference
Activation of Oncogenic Super-Enhancers Is Coupled with DNA Repair by RAD51
10.1016/j.celrep.2019.09.001 · 2019 · External reference
Recruitment of Brd4 to the human papillomavirus type 16 DNA replication complex is essential for replication of viral DNA
10.1128/jvi.03068-12 · 2013 · External reference
An interaction between human papillomavirus 16 E2 and TopBP1 is required for optimum viral DNA replication and episomal genome establishment
10.1128/jvi.01002-12 · 2012 · External reference
Evidence supporting a role for TopBP1 and Brd4 in the initiation but not continuation of human papillomavirus 16 E1/E2-mediated DNA replication
10.1128/jvi.00335-15 · 2015 · External reference
BRD4 promotes resection and homology-directed repair of DNA double-strand breaks
10.1038/s41467-022-30787-6 · 2022 · External reference
A PARylation-phosphorylation cascade promotes TOPBP1 loading and RPA-RAD51 exchange in homologous recombination
10.1016/j.molcel.2022.04.031 · 2022 · External reference
The human papillomavirus type 16 E6 and E7 oncoproteins independently induce numerical and structural chromosome instability
2002 · External reference
Human Papillomaviruses Preferentially Recruit DNA Repair Factors to Viral Genomes for Rapid Repair and Amplification
10.1128/mbio.00064-18 · 2018 · External reference
Differences in integration frequencies and APOBEC3 profiles of five high-risk HPV types adheres to phylogeny
10.1016/j.tvr.2022.200247 · 2022 · External reference
Multi-omics characterization of silent and productive HPV integration in cervical cancer
10.1016/j.xgen.2022.100211 · 2023 · External reference
Integrated genomic and molecular characterization of cervical cancer
10.1038/nature21386 · 2017 · External reference
Differentiation-induced and constitutive transcription of human papillomavirus type 31b in cell lines containing viral episomes
10.1128/jvi.66.10.6070-6080.1992 · 1992 · External reference
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
10.1016/j.cell.2014.11.021 · 2014 · External reference
Viral Chromosome Conformation Capture (V3C) Assays for Identifying Trans-interaction Sites between Lytic Viruses and the Cellular Genome
10.21769/bioprotoc.3198 · 2019 · External reference
Investigation of the Basic Steps in the Chromosome Conformation Capture Procedure
10.3389/fgene.2021.733937 · 2021 · External reference
Complex heatmap visualization
2022 · External reference
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
10.1038/nmeth.4396 · 2017 · External reference
Fast gapped-read alignment with Bowtie 2
10.1038/nmeth.1923 · 2012 · External reference
The UCSC Genome Browser Database: update 2006
10.1093/nar/gkj144 · 2006 · External reference
BEDTools: a flexible suite of utilities for comparing genomic features
10.1093/bioinformatics/btq033 · 2010 · External reference
regioneR: an R/Bioconductor package for the association analysis of genomic regions based on permutation tests
10.1093/bioinformatics/btv562 · 2016 · External reference
An integrated encyclopedia of DNA elements in the human genome
10.1038/nature11247 · 2012 · External reference
karyoploteR: an R/Bioconductor package to plot customizable genomes displaying arbitrary data
10.1093/bioinformatics/btx346 · 2017 · External reference
circlize Implements and enhances circular visualization in R
10.1093/bioinformatics/btu393 · 2014 · External reference
