-ralated Dataset Summary

This module is dedicated to providing researchers with comprehensive and detailed virus-related omics data from the public databases. The current version brings together virus related transcriptome, epigenome and genome data. The experiment types include: Expression profiling by high throughput sequencing/array, Methylation profiling by high throughput sequencing/array/genome tiling array, Genome binding/occupancy profiling by genome tiling array and Genome variation profiling by high throughput sequencing, etc.
The following labels indicate that this dataset has analysis data/figure/literature.
X
 xCell analysis  
E
 Differential expression analysis  
M
 Differential methylation analysis  
C
 Genome binding/occupancy profiling analysis  
S
 scRNA analysis  
L
 Literature  


Dataset Summary
Accession Virus Title Experiment Type Platform ID Samples Data Availability Detail
GSE100044 Kaposi's sarcoma-associated herpesvirus (KSHV) Identification of symmetric methylation of histone H4 arginine 3 on KSHV genome (H4R3me2s ChIP-Seq) Chip-seq GPL23366 8
L
 Detail
GSE100266 Human Immunodeficiency Virus (HIV) The Short Isoform of BRD4 Promotes HIV-1 Latency by Engaging Repressive SWI/SNF Chromatin Remodeling Complexes ATAC-seq
Chip-seq
RNA-seq 		GPL16791 32
X
E
C
L
 Detail
GSE100376 Human Immunodeficiency Virus (HIV) HIV-1 infection of human monocyte-derived dendritic cells with and without the integrase inhibitor, Raltegravir (ATAC-Seq) ATAC-seq GPL18573 24
C
L
 Detail
GSE100400 Hepatitis B Virus (HBV) Episomal HBV persistence within transcribed host nuclear chromatin compartments involves HBx Chip-seq
RNA-seq
4C_cccDNA 		GPL18573
GPL19057 		31
X
E
C
L
 Detail
GSE103728 Hepatitis C virus (HCV) High-resolution liver cancer genomic profiling links etiology, epigenetic and mutation signatures [ChIP-Seq] Chip-seq GPL16791 24
C
L
 Detail
GSE103730 Hepatitis C virus (HCV) High-resolution liver cancer genomic profiling links etiology, epigenetic and mutation signatures Chip-seq
RNA-seq 		GPL16791 42
X
E
L
 Detail
GSE104621 Kaposi's sarcoma-associated herpesvirus (KSHV) N6-methyladenosine modification in lytic viral gene expression during Kaposi's sarcoma-associated herpesvirus infection [MeRIP-seq] MeRIP-seq GPL16791 8
L
 Detail
GSE110511 Dengue fever virus (DENV) Leo1 occupancy in presence of dengue virus NS5 Chip-seq GPL20301 24
C
 Detail
GSE113702 Influenza Virus (IV) H3K27ac profiling of human tracheobronchial epithelial cells during infection with H1N1, H3N2, and H5N1 influenza virus [ChIP-seq] Chip-seq GPL18573
GPL20301 		52
C
 Detail
GSE124801 Herpes simplex virus type 1 (HSV1) The epigenetic landscapes of histone modifications on HSV-1 genome in human THP-1 cells [ChIP-seq] Chip-seq GPL26016 60
L
 Detail
GSE124856 Merkel Cell Polyomavirus (MCV) Genome-wide maps of LSD1-RCOR2 binding in Merkel cell carcinoma cells Chip-seq GPL18573 8
C
L
 Detail
GSE130891 Dengue fever virus (DENV);Hepatitis D virus (HDV);Zika virus (ZIKV) MeRIP-seq for host response to Flaviviridae infection MeRIP-seq GPL16791 48
L
 Detail
GSE131257 Hepatitis B Virus (HBV) RNA Helicase DDX5, a Negative Regulator of Wnt Activation and Hepatocyte Reprogramming in Hepatitis B Virus-associated Hepatocellular Carcinoma ATAC-seq
RNA-seq 		GPL16791 19
X
E
C
L
 Detail
GSE132777 Kaposi's sarcoma-associated herpesvirus (KSHV) ChIP-Seq of IRF4, BATF, and vIRF3 in BC-3 cells Chip-seq GPL11154
GPL18573 		10
C
L
 Detail
GSE135740 Kaposi's sarcoma-associated herpesvirus (KSHV) Genome-wide maps of chromatin modifications in KSHV-transformed primary effusion lymphoma cell lines Chip-seq GPL11154
GPL18573 		10
C
L
 Detail
GSE136189 Human T-cell Lymphotropic Virus type 1 (HTLV1) Genome-wide methylation analysis of T-cells using Infinium HumanMethylation BeadChip Methylation profiling (Array) GPL13534
GPL23976 		40
M
 Detail
GSE138342 Human T-cell Lymphotropic Virus type 1 (HTLV1) Epigenetic pattern after EZH1,2 inhibition in lymohoma cells ChIP-on-chip GPL19784 117
L
 Detail
GSE143026 Human Papillomavirus(HPV) Viral integration transforms chromatin to drive oncogenesis ATAC-seq
Chip-seq
RNA-seq 		GPL16791 30
X
C
 Detail
GSE144329 Human Immunodeficiency Virus (HIV) A unique viral reservoir landscape associated with durable natural control of HIV-1 infection [ATAC-seq] ATAC-seq GPL21697 96
C
L
 Detail
GSE147063 Kaposi's sarcoma-associated herpesvirus (KSHV) Global epigenomic analysis of primary effusion lymphoma identifies MYC super-enhancers and enhancer RNAs associated with KSHV infection Chip-seq
GRO-seq
4C-seq 		GPL18573
GPL27467 		10
C
 Detail
GSE147406 Merkel Cell Polyomavirus (MCV) Polyomavirus and neuroendocrine regulomes converge to establish tumor dependencies Chip-seq GPL18573 39
C
 Detail
GSE156060 Influenza Virus (IV) Influenza non-structural protein 1 (NS1) localization plays a key role in the anatagonism of host antiviral processes Chip-seq
RNA-seq 		GPL24676 28
X
E
C
 Detail
GSE161783 Zika virus (ZIKV) Transcriptomic and epigenetic investigation of Zika virus (ZIKV) infection in human monocyte-derived dendritic cells and other cell types Chip-seq
RNA-seq
csRNA-seq 		GPL18573
GPL20301
GPL24676 		51
X
E
C
L
 Detail
GSE163623 Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide [ChIP-Seq] Chip-seq GPL24676 5
C
L
 Detail
GSE164841 Human cytomegalovirus (HCMV) Chromatin accessibilty analysis of HCMV infected and mock-infected Kasumi-3 cells at 24 hours post infection ATAC-seq GPL18573
GPL24958 		6
L
 Detail
GSE164842 Human cytomegalovirus (HCMV) Pol2 and H3K27Ac and H3K27me3 occupancy of the viral and host genomes in HCMV infected Kasumi-3 cells at 24 hpi Chip-seq GPL20301
GPL29603 		21
L
 Detail
GSE164844 Human cytomegalovirus (HCMV) Pol2 and H3K27Ac and H3K27me3 occupancy of the viral genome in HCMV infected Kasumi-3 cells at early times post infection Chip-seq GPL29601
GPL29602 		24
L
 Detail
GSE164845 Human cytomegalovirus (HCMV) Pol2 occupancy of the viral and host genomes in HCMV infected Kasumi-3 cells at 24 hpi Chip-seq GPL18573
GPL20301
GPL24958 		8
L
 Detail
GSE164861 Human cytomegalovirus (HCMV) Epigenetic reprogramming of host and viral genes by Human Cytomegalovirus infection in Kasumi-3 myeloid progenitor cells at early times post-infection Chip-seq
RNA-seq
ATAC-seq 		GPL18573
GPL20301
GPL24958
GPL29601
GPL29602
GPL29603 		79
C
L
 Detail
GSE165703 Human Immunodeficiency Virus (HIV) Epigenetic impairment and blunted transcriptional response to Mycobacterium tuberculosis of alveolar macrophages from persons living with HIV (ATAC-Seq) ATAC-seq GPL20301 82
C
L
 Detail
GSE165705 Human Immunodeficiency Virus (HIV) Epigenetic impairment and blunted transcriptional response to Mycobacterium tuberculosis of alveolar macrophages from persons living with HIV (ChIP-Seq) Chip-seq GPL24676 30
C
L
 Detail
GSE167075 Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) m6A modification in SARS-CoV-2 virus regulates host cell innate immune response MeRIP-seq
RNA-seq 		GPL29320
GPL29742 		16
X
E
L
 Detail
GSE169310 Human Immunodeficiency Virus (HIV) H3K4me3 histone ChIPseq Analysis Reveals Molecular Mechanisms Responsible for Neutrophil dysfunction in HIV-infected individuals Chip-seq GPL21697 8
L
 Detail
GSE169622 Human Papillomavirus(HPV) Epigenome analysis of normal and cervical cancer with human papilloma virus type 16 or 18 positive Methylation profiling (Array) GPL21145 9
M
L
 Detail
GSE169634 Human cytomegalovirus (HCMV) HCMV infected Human Fibroblasts UL84 IE2 ChIPSeq Chip-seq GPL18573 12
C
L
 Detail
GSE171518 Human cytomegalovirus (HCMV) Role of the HCMV immediate early proteins in controlling the HCMV and cellular epigenomes Chip-seq GPL29977 16
C
L
 Detail
GSE172194 Human T-cell Lymphotropic Virus type 1 (HTLV1) Epigenomic Regulation of Human T-Cell Leukemia Virus by Chromatin-Insulator CTCF Chip-seq GPL30008 24
L
 Detail
GSE183048 Human Papillomavirus(HPV) Recurrent Integration of Human Papillomavirus Genomes at Transcriptional Regulatory Hubs Chip-seq GPL20301 24
C
L
 Detail
GSE185234 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (ATAC-seq I) ATAC-seq GPL18573 18
L
 Detail
GSE185235 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (ATAC-seq I) ATAC-seq GPL18573 22
L
 Detail
GSE185236 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (Omni-ATAC-seq II) Omni-ATAC-seq GPL18573 24
L
 Detail
GSE185238 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (Omni-ATAC-seq I) Omni-ATAC-seq GPL18573 14
L
 Detail
GSE185240 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (Omni-ATAC-seq III) Omni-ATAC-seq GPL18573 6
L
 Detail
GSE185241 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes ATAC-seq
Omni-ATAC-seq
RNA-seq
Chip-seq 		GPL18573
GPL28038 		160
C
L
 Detail
GSE185246 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (ChIPmentation) Chip-seq GPL18573
GPL28038 		40
L
 Detail
GSE185618 Human cytomegalovirus (HCMV) Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes [ChIP-seq] Chip-seq GPL20301
GPL24676 		25
C
L
 Detail
GSE189602 Human T-cell Lymphotropic Virus type 1 (HTLV1) DNA demethylating agents and EZH2 inhibitors for Adult T cell leukemia [Illumina] Methylation profiling (Array) GPL21145 4
M
L
 Detail
GSE198332 Epstein-Barr(EBV) Repression of DERL3 via DNA methylation by Epstein-Barr virus latent membrane protein 1 in nasopharyngeal carcinoma [methylation data] Methylation profiling (Array) GPL21145 7
M
L
 Detail
GSE198334 Epstein-Barr(EBV) Repression of DERL3 via DNA methylation by Epstein-Barr virus latent membrane protein 1 in nasopharyngeal carcinoma [ChIP-seq] Chip-seq GPL18573 4
C
L
 Detail
GSE19905 Kaposi's sarcoma-associated herpesvirus (KSHV) Global analysis of DNA methylation patterns on the latent KSHV episome in PEL and de novo infected endothelial cells MeDIP GPL9942 8
L
 Detail
GSE19906 Kaposi's sarcoma-associated herpesvirus (KSHV) Global analysis of histone modification patterns on the latent KSHV episome ChIP-on-chip GPL9942 12
L
 Detail
GSE202670 Kaposi's sarcoma-associated herpesvirus (KSHV) Epigenetic reprogramming of Kaposi’s sarcoma-associated herpesvirus during hypoxic reactivation Chip-seq GPL9052 14
C
L
 Detail
GSE208077 Herpes simplex virus type 1 (HSV1) The HSV-1 ICP22 protein selectively impairs histone repositioning upon Pol II transcription downstream of genes (OMNI-ATAC-seq IV) Omni-ATAC-seq GPL18573 12
L
 Detail
GSE211651 Human Immunodeficiency Virus (HIV) Enhancing HIV-1 latency reversal through regulating the elongating RNA Pol II pause-release by a small-molecule disruptor of PAF1C Chip-seq
RNA-seq
PRO-seq 		GPL18573
GPL24676 		39
X
E
C
L
 Detail
GSE220859 Human Immunodeficiency Virus (HIV) HIV-1 integration in microglia (ChIP-seq of CTCF-KD/-NT) Chip-seq GPL24676 11
C
L
 Detail
GSE221685 Human Immunodeficiency Virus (HIV) The latent HIV reservoir in the brain of people with HIV under antiretroviral therapy (ChIP-Seq) Chip-seq GPL24676 6 Detail
GSE221686 Human Immunodeficiency Virus (HIV) The latent HIV reservoir in the brain of people with HIV under antiretroviral therapy (scATAC-Seq) scATAC-seq GPL24676 3 Detail
GSE221688 Human Immunodeficiency Virus (HIV) The latent HIV reservoir in the brain of people with HIV under antiretroviral therapy Chip-seq
scATAC-Seq
scRNA-Seq 		GPL24676 12
C
 Detail
GSE225248 Epstein-Barr(EBV) Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [ChIP-Seq] Chip-seq GPL18573 12
C
L
 Detail
GSE225704 Influenza Virus (IV) Genome graphs detect human polymorphisms in active epigenomic state during influenza infection [ATAC-seq] ATAC-seq GPL24676 3
C
L
 Detail
GSE225706 Influenza Virus (IV) Genome graphs detect human polymorphisms in active epigenomic state during influenza infection [ChIP-seq] Chip-seq GPL24676 6
C
L
 Detail
GSE230758 Merkel Cell Polyomavirus (MCV) Merkel cell polyomavirus small tumor antigen contributes to immune evasion by interfering with type I interferon signaling [ChIP-Seq] Chip-seq GPL16791 20
C
 Detail
GSE233426 Epstein-Barr(EBV) NPC268 whole-genome bisulfite sequencing (WGBS) Whole-genome bisulfite sequencing (WGBS) GPL24676 1
L
 Detail
GSE240450 Hepatitis B Virus (HBV) Hepatitis B virus X protein contributes to hepatocellular carcinoma via upregulation of KIAA1429 methyltransferase and mRNA m6A hypermethylation of HSPG2/Perlecan [MeRIP-Seq] MeRIP-Seq GPL11154 4 Detail
GSE245832 Human cytomegalovirus (HCMV) DNA methylation profiling identifies TBKBP1 as potent amplifier of cytotoxic activity in CMV-specific human CD8+ T cells Whole-genome bisulfite sequencing (WGBS) GPL24676 14
L
 Detail
GSE246059 Epstein-Barr(EBV) Shared and distinct interactions of Epstein-Barr Nuclear Antigen 2 type 1 and type 2 with the human genome (ATAC-Seq) ATAC-seq GPL18573
GPL24676 		8
C
L
 Detail
GSE246060 Epstein-Barr(EBV) Shared and distinct interactions of Epstein-Barr Nuclear Antigen 2 type 1 and type 2 with the human genome (ChIP-Seq) Chip-seq GPL24676 26
C
L
 Detail
GSE249663 Herpes simplex virus type 1 (HSV1) The roles of nuclear orphan receptor NR2F6 in anti-viral innate immunity [ChIP-seq] Chip-seq GPL24676 8 Detail
GSE249665 Herpes simplex virus type 1 (HSV1) The roles of nuclear orphan receptor NR2F6 in anti-viral innate immunity Chip-seq
RNA-seq 		GPL24676 18
X
E
C
 Detail
GSE250106 Hepatitis B Virus (HBV) Epitranscriptomic cytidine methylation of the Hepatitis B viral RNA encapsidation signal ensure the reverse transcription of viral RNA [PA-m5C-seq] PA-m5C-seq GPL16791
GPL18573 		4
L
 Detail
GSE250107 Hepatitis B Virus (HBV) Epitranscriptomic cytidine methylation of the Hepatitis B viral RNA encapsidation signal ensure the reverse transcription of viral RNA [PA-m6A-seq] PA-m6A-seq GPL16791 2
L
 Detail
GSE253562 Human cytomegalovirus (HCMV) DNA methylation profiling of lung transplant recipients Targeted-bisulfite sequencing (TBS-seq) GPL24676 92
M
L
 Detail
GSE254734 Human cytomegalovirus (HCMV) Human cytomegalovirus infection coopts chromatin organization to modulate TEAD1 transcription factor activity [ATAC-seq] ATAC-seq GPL24676 8 Detail
GSE254736 Human cytomegalovirus (HCMV) Human cytomegalovirus infection coopts chromatin organization to modulate TEAD1 transcription factor activity [ChIP-seq] Chip-seq GPL24676 12 Detail
GSE254737 Human cytomegalovirus (HCMV) Human cytomegalovirus infection coopts chromatin organization to modulate TEAD1 transcription factor activity [HiChIP] HiChIP GPL24676 6 Detail
GSE254741 Human cytomegalovirus (HCMV) Human cytomegalovirus infection coopts chromatin organization to modulate TEAD1 transcription factor activity ATAC-seq
ChIP-seq
HiChIP
RNA-seq 		GPL24676 30
C
 Detail
GSE270130 Hepatitis B Virus (HBV) A nucleosome switch primes Hepatitis B Virus infection [ChIP-Seq] Chip-seq GPL24676 27
C
 Detail
GSE270937 Hepatitis B Virus (HBV) Differential methylation patterns in paternally imprinted gene promoter regions in sperm from hepatitis B virus infected individuals DNA methylation sequencing GPL24676 35
M
L
 Detail
GSE279982 Human Immunodeficiency Virus (HIV) DNA Methylation Biomarkers for Cervical Cancer Risk Prediction in HIV-Positive Nigerian Women Methylation profiling (Array) GPL21145 576
M
 Detail
GSE281836 Herpes simplex virus type 1 (HSV1) Multifaceted roles of RAP80 during the Herpes simplex virus 1 life cycle Chip-seq GPL24676 2
C
 Detail
GSE285166 Herpes simplex virus type 1 (HSV1) Bisulfite sequencing of methylation changes in the D4Z4 region caused by HSV-1 Bisulfite-seq GPL24676 2 Detail
GSE285167 Herpes simplex virus type 1 (HSV1) Chromatin immunoprecipitation sequencing of transcription factor DUX4 Chip-seq GPL24676 4
C
 Detail
GSE30736 Human Immunodeficiency Virus (HIV) Genome-wide binding map of the HIV Tat protein to the human genome (ChIP-chip) Chip-seq
ChIP on chip 		GPL7032 1
L
 Detail
GSE30738 Human Immunodeficiency Virus (HIV) Genome-wide binding map of the HIV Tat protein to the human genome (ChIP-Seq) Chip-seq GPL9115 2
C
L
 Detail
GSE35462 Hepatitis B Virus (HBV) Genome-wide analysis of histone methylation reveals chromatin state-based regulation of host cellular gene expression induced by hepatitis B viruses (ChIP-Seq dataset) Chip-seq GPL11154 4
L
 Detail
GSE35465 Hepatitis B Virus (HBV) Genome-wide analysis of histone methylation reveals chromatin state-based regulation of host cellular gene expression induced by hepatitis B viruses Chip-seq
RNA-seq 		GPL11154 6
C
L
 Detail
GSE38411 Kaposi's sarcoma-associated herpesvirus (KSHV) Cohesins Repress KSHV Immediate Early Gene Transcription During Latency Chip-seq GPL9115
GPL15642 		5
C
L
 Detail
GSE52421 Kaposi's sarcoma-associated herpesvirus (KSHV) Genome-wide ChIP sequence analysis of KSHV-infected primary effusion lymphoma (PEL) cell line BCBL-1 and human umbilical vein endothelial TIVE-LTC cells Chip-seq GPL10999 18
C
L
 Detail
GSE53271 Human cytomegalovirus (HCMV) Release of Human Cytomegalovirus from latency by a KAP1/TRIM28 phosphorylation switch Chip-seq GPL11154 2
C
L
 Detail
GSE56144 Kaposi's sarcoma-associated herpesvirus (KSHV) Site-Specific Association with Host and Viral Chromatin by KSHV LANA and its Reversal during Lytic Reactivation Chip-seq
RNA-seq 		GPL9115
GPL16791 		33
C
L
 Detail
GSE64877 Hepatitis B Virus (HBV) Global re-wiring of p53 transcription regulation by the hepatitis B virus X (HBx) protein [ChIP-Seq] Chip-seq GPL9052 2
C
L
 Detail
GSE68028 Human Immunodeficiency Virus (HIV) The alteration of DNA methylation driven by HIV infection based on a pair of monozygotic twins (MeDIP-chip) MeDIP-chip GPL16284 1
M
L
 Detail
GSE68402 Hepatitis B Virus (HBV) Mapping of histone modifications in episomal HBV cccDNA uncovers an unusual chromatin conformation amenable to epigenetic manipulation Chip-seq GPL15520
GPL16791 		26
C
L
 Detail
GSE69877 Merkel Cell Polyomavirus (MCV) MCPyV ST, MAX and the TRRAP complex cooperate to bind to Transcription Start Sites Chip-seq GPL11154
GPL18573 		10
C
L
 Detail
GSE71450 Human T-cell Lymphotropic Virus type 1 (HTLV1) Genome-wide epigenetic alteration in adult T-cell leukemia cells and HTLV-1-mediated immortalized cells ChIP-on-chip GPL19784 17
L
 Detail
GSE82321 Kaposi's sarcoma-associated herpesvirus (KSHV) Identification of symmetric methyltion of histone H4 arginine 3 on KSHV genome Chip-seq GPL11154 4
C
 Detail
GSE85724 Human Immunodeficiency Virus (HIV) m6A sequencing of HIV viral genomic RNA and infected host cell samples m6A-seq GPL16791 15
L
 Detail
GSE94732 Human T-cell Lymphotropic Virus type 1 (HTLV1) Targeting the HBZ Viral Oncoprotein Transcriptional Network in Adult T-cell leukemia/lymphoma (ChIP-Seq) Chip-seq GPL18573
GPL23049 		24
C
L
 Detail
GSE98057 Kaposi's sarcoma-associated herpesvirus (KSHV) Identification of symmetric methylation of histone H4 arginine 3 on KSHV genome (TREx Und 12h 24hInd ChIP-Seq) Chip-seq GPL23366 10
L
 Detail
GSE98087 Kaposi's sarcoma-associated herpesvirus (KSHV) Identification of symmetric methylation of histone H4 arginine 3 on KSHV genome (iSLKBac16WT ChIP-Seq) Chip-seq GPL23366 4
L
 Detail
TCGA_CESC Human Papillomavirus(HPV) DNA methylation sequencing
RNA-seq 		TCGA 288
X
E
M
 Detail
TCGA_LIHC_HBV Hepatitis B Virus (HBV) DNA methylation sequencing
RNA-seq 		TCGA 97
X
E
M
 Detail
TCGA_LIHC_HCV Hepatitis C virus (HCV) DNA methylation sequencing
RNA-seq 		TCGA 97
X
E
M
 Detail

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