Virus Dataset Detail

> Detail information for each sample

Dataset Information
Accession GSE143026
Status 2020/2/14
Title Viral integration transforms chromatin to drive oncogenesis
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing;Genome binding/occupancy profiling by high throughput sequencing
Summary 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.
Samples
GSM ID Sample info Characteristics Description
GSM4249094 ATAC-seq_Caski cell line:Caski; chip antibody:n/a; sequencing type:Paired 100-600 bp fragments
GSM4249095 ATAC-seq_HMS-001 cell line:HMS-001; chip antibody:n/a; sequencing type:Paired 100-600 bp fragments
GSM4249096 ATAC-seq_SCC-090 cell line:SCC-090; chip antibody:n/a; sequencing type:Paired 100-600 bp fragments
GSM4249097 ATAC-seq_SiHa cell line:SiHa; chip antibody:n/a; sequencing type:Paired 100-600 bp fragments
GSM4249068 CTCF ChIP-seq_93-VU147T_R1 cell line:93-VU147T; chip antibody:CTCF; replicate:R1; sequencing type:Unpaired CTCF ChIP-seq
GSM4249069 CTCF ChIP-seq_Caski_R1 cell line:Caski; chip antibody:CTCF; replicate:R1; sequencing type:Unpaired CTCF ChIP-seq
GSM4249070 CTCF ChIP-seq_HMS-001_R1 cell line:HMS-001; chip antibody:CTCF; replicate:R1; sequencing type:Unpaired CTCF ChIP-seq
GSM4249071 CTCF ChIP-seq_SCC-090_R1 cell line:SCC-090; chip antibody:CTCF; replicate:R1; sequencing type:Unpaired CTCF ChIP-seq
GSM4249072 CTCF ChIP-seq_SiHa_R1 cell line:SiHa; chip antibody:CTCF; replicate:R1; sequencing type:Unpaired CTCF ChIP-seq
GSM4249073 Input ChIP-seq_93-VU147T cell line:93-VU147T; chip antibody:none (input); replicate:R2; sequencing type:Unpaired Input ChIP-seq
GSM4249074 CTCF ChIP-seq_93-VU147T_R2 cell line:93-VU147T; chip antibody:CTCF; replicate:R2; sequencing type:Unpaired CTCF ChIP-seq
GSM4249075 Input ChIP-seq_Caski cell line:Caski; chip antibody:none (input); replicate:R2; sequencing type:Unpaired Input ChIP-seq
GSM4249076 CTCF ChIP-seq_Caski_R2 cell line:Caski; chip antibody:CTCF; replicate:R2; sequencing type:Unpaired CTCF ChIP-seq
GSM4249077 Input ChIP-seq_HMS-001 cell line:HMS-001; chip antibody:none (input); replicate:R2; sequencing type:Unpaired Input ChIP-seq
GSM4249078 CTCF ChIP-seq_HMS-001_R2 cell line:HMS-001; chip antibody:CTCF; replicate:R2; sequencing type:Unpaired CTCF ChIP-seq
GSM4249079 Input ChIP-seq_SCC-090 cell line:SCC-090; chip antibody:none (input); replicate:R2; sequencing type:Unpaired Input ChIP-seq
GSM4249080 CTCF ChIP-seq_SCC-090_R2 cell line:SCC-090; chip antibody:CTCF; replicate:R2; sequencing type:Unpaired CTCF ChIP-seq
GSM4249081 Input ChIP-seq_SiHa cell line:SiHa; chip antibody:none (input); replicate:R2; sequencing type:Unpaired Input ChIP-seq
GSM4249082 CTCF ChIP-seq_SiHa_R2 cell line:SiHa; chip antibody:CTCF; replicate:R2; sequencing type:Unpaired CTCF ChIP-seq
GSM4249083 CTCF ChIP-seq_93-VU147T_R3 cell line:93-VU147T; chip antibody:CTCF; replicate:R3; sequencing type:Unpaired CTCF ChIP-seq
GSM4249084 CTCF ChIP-seq_Caski_R3 cell line:Caski; chip antibody:CTCF; replicate:R3; sequencing type:Unpaired CTCF ChIP-seq
GSM4249085 CTCF ChIP-seq_HMS-001_R3 cell line:HMS-001; chip antibody:CTCF; replicate:R3; sequencing type:Unpaired CTCF ChIP-seq
GSM4249086 CTCF ChIP-seq_SCC-090_R3 cell line:SCC-090; chip antibody:CTCF; replicate:R3; sequencing type:Unpaired CTCF ChIP-seq
GSM4249087 CTCF ChIP-seq_SiHa_R3 cell line:SiHa; chip antibody:CTCF; replicate:R3; sequencing type:Unpaired CTCF ChIP-seq
GSM4249088 RNA-seq_93-VU147T cell line:93-VU147T; chip antibody:n/a; sequencing type:Paired -
GSM4249089 RNA-seq_Caski cell line:Caski; chip antibody:n/a; sequencing type:Paired -
GSM4249090 RNA-seq_HMS-001 cell line:HMS-001; chip antibody:n/a; sequencing type:Paired -
GSM4249091 RNA-seq_SCC-090 cell line:SCC-090; chip antibody:n/a; sequencing type:Paired -
GSM4249092 RNA-seq_SiHa cell line:SiHa; chip antibody:n/a; sequencing type:Paired -
GSM4249093 ATAC-seq_93-VU147T cell line:93-VU147T; chip antibody:n/a; sequencing type:Paired 100-600 bp fragments
Platform GPL16791  : Illumina HiSeq 2500 (Homo sapiens)
Literature   
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xCell Plot
* p<0.05 ** p<0.01