Accession	GSE185236
Status	2023/6/20
Title	The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (Omni-ATAC-seq II)
Organism	Homo sapiens
Experiment type	Genome binding/occupancy profiling by high throughput sequencing
Summary	Human telomerase reverse transcriptase (hTERT)-Immortalized cell line (T-HF) with or without DOX-induced KD of SSPR1 and SPT6 were infected with wild-type simplex virus 1 (HSV-1) strain F or with ICP22-null mutant at a multiplicity of infection (MOI) of 10. Omni-ATAC-seq libraries were prepared starting with 50,000 cells per condition following the protocol described by Corces, M., Trevino, A., Hamilton, E. et al. An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues. Nat Methods 14, 959–962 (2017). https://doi.org/10.1038/nmeth.4396
Samples	GSM ID Sample info Characteristics Description GSM5608558 T-HF cells, with no SPT6 KD, infected with ICP22-null mutant, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608559 T-HF cells, with no SPT6 KD, infected with ICP22-null mutant, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608560 T-HF cells, with SPT6 KD, infected with ICP22-null mutant, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608561 T-HF cells, with SPT6 KD, infected with ICP22-null mutant, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608562 T-HF cells, with no SPT6 KD, mock, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608563 T-HF cells, with no SPT6 KD, mock, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608564 T-HF cells, with SPT6 KD, mock, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608565 T-HF cells, with SPT6 KD, mock, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608566 T-HF cells, with no SPT6 KD, infected with WT strain F, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608567 T-HF cells, with no SPT6 KD, infected with WT strain F, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608568 T-HF cells, with SPT6 KD, infected with WT strain F, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608569 T-HF cells, with SPT6 KD, infected with WT strain F, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608570 T-HF cells, with no SSRP1 KD, infected with ICP22-null mutant, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608571 T-HF cells, with no SSRP1 KD, infected with ICP22-null mutant, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608572 T-HF cells, with SSRP1 KD, infected with ICP22-null mutant, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608573 T-HF cells, with SSRP1 KD, infected with ICP22-null mutant, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: ICP22-null mutant of herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608574 T-HF cells, with no SSRP1 KD, mock, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608575 T-HF cells, with no SSRP1 KD, mock, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608576 T-HF cells, with SSP1 KD, mock, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608577 T-HF cells, with SSRP1 KD, mock, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: no infection;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: no infection DNA isolated with Zymo DNA Clean & Concentrator GSM5608578 T-HF cells, with no SSRP1 KD, infected with WT strain F, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608579 T-HF cells, with no SSRP1 KD, infected with WT strain F, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608580 T-HF cells, with SSRP1 KD, infected with WT strain F, replicate 1 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator GSM5608581 T-HF cells, with SSRP1 KD, infected with WT strain F, replicate 2 cell type: Human telomerase reverse transcriptase (hTERT)-Immortalized cell line;time post infection: 8 hpi;treatment: PAA (350 microg/ml) + DOX (1 μg/mL);agent: Herpes simplex virus 1, strain F DNA isolated with Zymo DNA Clean & Concentrator
Platform	GPL18573  : Illumina NextSeq 500 (Homo sapiens)
Literature	37524699