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Items: 1 to 20 of 11601

1.

Porcine Rotavirus VP6 Protein Wrests IPEC-J2 METTL3-Mediated M6A Modification to Fight Antiviral Immune Response

(Submitter supplied) N6-methyladenosine (m6A), the most abundant mRNA modification, can regulate various mRNA metabolism to affect numerous physiological and pathophysiological processes, including immune function. However, the regulation of m6A methylation and its role in immune defense against virus infections remain unexplored. Here, we found that Porcine rotavirus (PoRV) infection decreased global m6A levels in host cells by downregulating m6A writer METTL3. more...
Organism:
Sus scrofa; Porcine rotavirus
Type:
Other
Platforms:
GPL34387 GPL22475
18 Samples
Download data: BW
Series
Accession:
GSE264016
ID:
200264016
2.

Replication-competent HIV-1 gRNA Constructs for CRISPR/Cas9-based Discovery of Antiviral Factors

(Submitter supplied) Innate cellular defense mechanisms and viral countermeasures govern the outcome of pathogen exposure but the complex virus-host interplay remains poorly understood. Here, we developed a virus-guided technology platform where the pathogen itself reveals its cellular opponents. To accomplish this, we engineered replication-competent HIV-1 expressing single guide RNAs (sgRNAs) targeting potential antiviral genes in Cas9 expressing CD4+ T cells. more...
Organism:
Human immunodeficiency virus 1
Type:
Other
Platform:
GPL33848
49 Samples
Download data: TAB, XLSX
Series
Accession:
GSE245526
ID:
200245526
3.

Whole-genome bisulfite sequencing of Mandarin fish ranavirus

(Submitter supplied) To characterize the site-specific methylation landscape of the Mandarin fish ranavirus (MRV) genome, whole-genome bisulfite sequencing (WGBS) was conducted on an isolated MRV strain.
Organism:
Mandarin fish ranavirus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL34339
1 Sample
Download data: TXT
Series
Accession:
GSE262554
ID:
200262554
4.

Aging aggravates aortic aneurysm and dissection via the miR-1204-MYLK signaling axis

(Submitter supplied) The mechanism by which aging induces aortic aneurysm and dissection (AAD) remains unclear. A total of 430 subjects were recruited for screening of differentially expressed plasma microRNAs. We found that miR-1204 was significantly increased in both plasma and aorta of elder patients with AAD, and was positively correlated with age. Cell senescence induced the expression of miR-1204 through p53 interaction with plasmacytoma variant translocation 1, and miR-1204 induced vascular smooth muscle cell (VSMC) senescence to form a positive feedback loop. more...
Organism:
Human alphaherpesvirus 2; human gammaherpesvirus 4; Human betaherpesvirus 6B; Betapolyomavirus macacae; Homo sapiens; Human alphaherpesvirus 1; Macacine alphaherpesvirus 1; Human betaherpesvirus 5; Human immunodeficiency virus 1; Merkel cell polyomavirus; Herpesvirus saimiri (strain 11); JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus hominis
Type:
Non-coding RNA profiling by array
Platform:
GPL21439
12 Samples
Download data: GPR, XLSX
Series
Accession:
GSE253747
ID:
200253747
5.

Recognition of copy-back defective interfering rabies virus genomes by RIG-I triggers efficient immune response against vaccine strains

(Submitter supplied) Using next-generation sequencing (NGS) combined with bioinformatics tools, we characterized two major 5’copy-back defective interfering (5’cb DI) genomes generated during SAD replication. Furthermore, we identified a specific interaction of 5’cb DI genomes and RIG-I that correlated with a high stimulation of the type I IFN signaling
Organism:
Homo sapiens; Lyssavirus rabies; Rabies virus SAD B19
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL31905 GPL31906
36 Samples
Download data: CSV
Series
Accession:
GSE196051
ID:
200196051
6.

Anti-viral defense by an ADP-ribosyltransferase that targets mRNA to block translation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Escherichia phage T4; Escherichia coli
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL34101 GPL34102
14 Samples
Download data
Series
Accession:
GSE253514
ID:
200253514
7.

Anti-viral defense by an ADP-ribosyltransferase that targets mRNA to block translation (RNA-Seq)

(Submitter supplied) Host-pathogen conflicts are crucibles of molecular innovation. Selection for immunity to pathogens has driven the evolution of sophisticated immunity mechanisms throughout biology, including in bacteria that must evade their viral predators known as bacteriophages. Here, we characterize a toxin-antitoxin-chaperone system, CmdTAC, in Escherichia coli that provides robust defense against infection by T4 phage. more...
Organism:
Escherichia phage T4; Escherichia coli
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34102
8 Samples
Download data: CSV
Series
Accession:
GSE253513
ID:
200253513
8.

Anti-viral defense by an ADP-ribosyltransferase that targets mRNA to block translation (RIP-Seq in vivo)

(Submitter supplied) Host-pathogen conflicts are crucibles of molecular innovation. Selection for immunity to pathogens has driven the evolution of sophisticated immunity mechanisms throughout biology, including in bacteria that must evade their viral predators known as bacteriophages. Here, we characterize a toxin-antitoxin-chaperone system, CmdTAC, in Escherichia coli that provides robust defense against infection by T4 phage. more...
Organism:
Escherichia phage T4; Escherichia coli
Type:
Other
Platform:
GPL34101
4 Samples
Download data: CSV
Series
Accession:
GSE253512
ID:
200253512
9.

Anti-viral defense by an ADP-ribosyltransferase that targets mRNA to block translation (RIP-Seq in vitro)

(Submitter supplied) Host-pathogen conflicts are crucibles of molecular innovation. Selection for immunity to pathogens has driven the evolution of sophisticated immunity mechanisms throughout biology, including in bacteria that must evade their viral predators known as bacteriophages. Here, we characterize a toxin-antitoxin-chaperone system, CmdTAC, in Escherichia coli that provides robust defense against infection by T4 phage. more...
Organism:
Escherichia phage T4; Escherichia coli
Type:
Other
Platform:
GPL34101
2 Samples
Download data: CSV
Series
Accession:
GSE253511
ID:
200253511
10.

The helicase domain of human Dicer prevents RNAi-independent activation of antiviral and inflammatory pathways

(Submitter supplied) In mammalian somatic cells, the relative contribution of RNAi and the type I interferon response during viral infection is unclear. The apparent inefficiency of antiviral RNAi might be due to self-limiting properties and mitigating co-factors of the key enzyme Dicer. In particular, the helicase domain of human Dicer appears to be an important restriction factor of its activity. Here, we study the involvement of several helicase-truncated mutants of human Dicer in the antiviral response. more...
Organism:
Sindbis virus; Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL33716 GPL20301
26 Samples
Download data: BW, TXT
Series
Accession:
GSE241798
ID:
200241798
11.

The helicase domain of human Dicer prevents RNAi-independent activation of antiviral and inflammatory pathways

(Submitter supplied) In mammalian somatic cells, the relative contribution of RNAi and the type I interferon response during viral infection is unclear. The apparent inefficiency of antiviral RNAi might be due to self-limiting properties and mitigating co-factors of the key enzyme Dicer. In particular, the helicase domain of human Dicer appears to be an important restriction factor of its activity. Here, we study the involvement of several helicase-truncated mutants of human Dicer in the antiviral response. more...
Organism:
Sindbis virus; Homo sapiens
Type:
Other
Platform:
GPL33716
8 Samples
Download data: BW, TXT
Series
Accession:
GSE241797
ID:
200241797
12.

The helicase domain of human Dicer prevents RNAi-independent activation of antiviral and inflammatory pathways

(Submitter supplied) In mammalian somatic cells, the relative contribution of RNAi and the type I interferon response during viral infection is unclear. The apparent inefficiency of antiviral RNAi might be due to self-limiting properties and mitigating co-factors of the key enzyme Dicer. In particular, the helicase domain of human Dicer appears to be an important restriction factor of its activity. Here, we study the involvement of several helicase-truncated mutants of human Dicer in the antiviral response. more...
Organism:
Homo sapiens; Sindbis virus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL33716 GPL20301
18 Samples
Download data: TXT
Series
Accession:
GSE241796
ID:
200241796
13.

N6-methyladenosine modification is not a general trait of viral RNA genomes.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Chikungunya virus; Homo sapiens; Dengue virus
Type:
Other
Platforms:
GPL33379 GPL33380
8 Samples
Download data: BW, NARROWPEAK
Series
Accession:
GSE231739
ID:
200231739
14.

N6-methyladenosine modification is not a general trait of viral RNA genomes [Dengue]

(Submitter supplied) N6-methyladenosine (m6A), the most common internal RNA modification in eukaryotic mRNAs, is described to be abundantly present in the genomes of cytoplasmic-replicating RNA viruses. Yet, how the host nuclear m6A writer has access to the viral RNAs in the cytoplasm and what are the associated biological consequences remain unknown. Here, we comprehensively addressed these questions by combining antibody-dependent (m6A-seq) and antibody-independent (SELECT and nanopore direct RNA sequencing) methods on the cytoplasmic-replicating Chikungunya virus (CHIKV) RNA, and found no evidence of m6A modifications. more...
Organism:
Dengue virus; Homo sapiens
Type:
Other
Platform:
GPL33380
4 Samples
Download data: BW, NARROWPEAK, TXT
Series
Accession:
GSE231738
ID:
200231738
15.

N6-methyladenosine modification is not a general trait of viral RNA genomes [CHIKV]

(Submitter supplied) N6-methyladenosine (m6A), the most common internal RNA modification in eukaryotic mRNAs, is described to be abundantly present in the genomes of cytoplasmic-replicating RNA viruses. Yet, how the host nuclear m6A writer has access to the viral RNAs in the cytoplasm and what are the associated biological consequences remain unknown. Here, we comprehensively addressed these questions by combining antibody-dependent (m6A-seq) and antibody-independent (SELECT and nanopore direct RNA sequencing) methods on the cytoplasmic-replicating Chikungunya virus (CHIKV) RNA, and found no evidence of m6A modifications. more...
Organism:
Chikungunya virus; Homo sapiens
Type:
Other
Platform:
GPL33379
4 Samples
Download data: BW, NARROWPEAK, TXT
Series
Accession:
GSE231737
ID:
200231737
16.

FLUAV RAM-IGIP: A modified live influenza virus vaccine that enhances humoral and mucosal responses against influenza. Vaccine Encoding the IgA-Inducing Protein

(Submitter supplied) Influenza A virus (FLUAV) poses a significant threat to both humans and animals. While vaccination serves as the primary defense against influenza, the effectiveness of currently approved vaccines is suboptimal. To address this issue, we have developed modified live virus (MLV) vaccines against influenza using genome rearrangement techniques targeting the internal gene segments of FLUAV. The rearranged M2 (RAM) strategy involves cloning the M2 ORF downstream of the PB1 ORF in segment 2 and incorporating multiple early stop codons within the M2 ORF in segment 7. more...
Organism:
Influenza A virus; Mus musculus
Type:
Protein profiling by protein array
Platform:
GPL30424
112 Samples
Download data: TXT
Series
Accession:
GSE252919
ID:
200252919
17.

Unstable EBV latency drives inflammation in multiple sclerosis patient derived spontaneous B cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
human gammaherpesvirus 4; Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL34327 GPL18573
18 Samples
Download data: BW
Series
Accession:
GSE221625
ID:
200221625
18.

Unstable EBV latency drives inflammation in multiple sclerosis patient derived spontaneous B cells [EBV WGS]

(Submitter supplied) Epstein-Barr virus (EBV) is an etiologic risk factor, and likely prerequisite, for the development of multiple sclerosis (MS). However, the role of EBV infected B cells in the immunopathology of MS is not well understood. Here, we characterized spontaneous lymphoblastoid cell lines (SLCLs) isolated from MS patients and healthy controls (HC) ex vivo to study EBV and host gene expression in the context of an individual’s endogenous EBV. more...
Organism:
human gammaherpesvirus 4
Type:
Other
Platform:
GPL34327
9 Samples
Download data: BW, TXT
Series
Accession:
GSE221624
ID:
200221624
19.

SARS-CoV-2 produces a microRNA, CoV2-miR-O8, in patients with COVID-19 infection

(Submitter supplied) SARS-CoV-2 can generate viral microRNAs (v-miRNAs) that target host gene expression. This study used small RNAseq to identify the v-miRNAs present in COVID-19 patients' nasopharyngeal swabs. The study identified a specific conserved v-miRNA sequence (CoV2-miR-O8) unique to SARS-CoV-2 that is highly present in COVID-19 patients' samples, interacts with Argonaute, and has features consistent with Dicer and Drosha generation. more...
Organism:
Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL28867
9 Samples
Download data: BW
Series
Accession:
GSE230080
ID:
200230080
20.

KARR-seq reveals principles of high-order ribonucleoprotein structure assembly

(Submitter supplied) We designed KARR-seq, which reveals RNA-RNA interactions transcriptome-wide. The frequency of KARR-seq chimeras accurately reveals the physical distances between RNAs in vivo. Using KARR-seq, we systematically analyzed celullar effect on RNA-RNA interactions.
Organism:
Vesicular stomatitis virus; Mus musculus; Homo sapiens; Respiratory syncytial virus; Drosophila melanogaster
Type:
Other
5 related Platforms
67 Samples
Download data: PAIRS
Series
Accession:
GSE166155
ID:
200166155
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