Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional profile of human STAT1-/- fibroblasts expressing IFI6 or empty control vector

ABSTRACT: Detection of viral infection by pattern-recognition receptors triggers production of interferon. Secreted interferon binds to cognate receptors, triggering JAK/STAT signaling, resulting in the transcription and production of hundreds of interferon-stimulated genes (ISGs). Our lab identified interferon alpha inducible protein 6 (IFI6) as an ISG that potently suppresses replication of viruses from the Flavivirus genus. To test whether the inhibitory effects of IFI6 were due to activating expression of other antiviral ISGs, we overexpressed IFI6 and a control vector and examined global transcription using RNA-Seq.

ORGANISM(S): Homo sapiens

PROVIDER: GSE105771 | GEO | 2018/12/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptional profile of human STAT1-/- fibroblasts expressing LY6E or empty control vector

Project description:Detection of viral infection by pattern-recognition receptors triggers production of interferon. Secreted interferon binds to cognate receptors, triggering JAK/STAT signaling, resulting in the transcription and production of hundreds of interferon-stimulated genes (ISGs). Our lab identified lymphocyte antigen 6, locus E (LY6E) as an ISG that enhances infectivity of a subset of enveloped RNA viruses from Flaviviridae, Orthomyxoviridae, and Togaviridae families. To test whether the enhancing effects of LY6E were due to alterations of the global cellular transcriptome, we overexpressed LY6E and a control empty vector and examined global transcription using RNA-Seq.

2018-12-25 | GSE111958 | GEO

Pan-cancer analysis of IFI6 and its tumor promotor effects in esophageal squamous cell carcinoma

Project description:IFI6 is one of the ISG family, which is considered to play an important role in signal transduction pathway and immune response. However, there are few reports on IFI6, and only a few studies have reported that IFI6 may play a role in the occurrence and development of some tumors. We downloaded normal tissue and tumor tissue information from GTEx, TCGA and CCLE, and used survival analysis to study the relationship between IFI6 expression and OS, DSS, etc. We found that IFI6 was expressed in a variety of tumors, and the expression of individual tumors such as LUAD was very high. In addition, we also studied the relationship between IFI6 and immune cell infiltration enrichment, tumor immune microenvironment, methylation and so on. Furthermore, the high expression level of IFI6 was verified in esophageal squamous cell carcinoma (ESCC). In ESCC cells, IFI6 overexpression significantly promoted cell proliferation and growth, and inhibited cell apoptosis. In the lncRNA sequencing analysis, we found that IFI6 could regulate the expression of multiple genes, including HNRNPC, PEMT, INTS7, and several pathways, such as VEGF signaling pathway, and PPAR signaling pathway. Our study provides new insights into the role of IFI6 in pan-cancer. IFI6 may represent a novel target for the treatment of esophageal squamous cell carcinoma.

2021-04-29 | GSE173475 | GEO

Interferon inhibits a model RNA virus via a limited set of inducible effector genes [ISG_CRISPR_Screen]

Project description:Host cells produce interferon (IFN) in response to viral infections. Secreted interferon results in the transcription and production of hundreds of interferon-stimulated genes (ISGs). An ISG-targeted CRISPR screen using IFN beta-treated U-2 OS cells was performed to determine which ISGs were required in order for host cells to suppress Venezuelan equine encephalitis virus (VEEV) infection.

2023-05-26 | GSE233196 | GEO

Transcriptional profile of human STAT1-/- fibroblasts expressing IFI6 or empty control vector

Project description:Transcriptional profile of human STAT1-/- fibroblasts expressing IFI6 or empty control vector

| PRJNA415354 | ENA

RNA-seq of coding RNA from USP14 knockout human haploid (HAP1) cells

Project description:We performed a genome-scale screen for suppressors of interferon stimulated gene (ISG) expression in human haploid cells (HAP1). Ubiquitin specific peptidase 14 (USP14) was a significant hit. In order to validate USP14 as a regulator of ISG expression, we created knockouts of USP14 in HAP1 cells using CRISPR-Cas9 and performed RNA-seq on coding RNA from USP14 KO and WT cells. This data was used to determine if ISGs were upregulated in USP14 KO HAP1 cells.

2017-07-25 | E-MTAB-5865 | biostudies-arrayexpress

RNA-seq of coding RNA from DDX6 knockout human haploid (HAP1) cells

Project description:We performed a genome-scale screen for suppressors of interferon stimulated gene (ISG) expression in human haploid cells (HAP1). DEAD-box helicase 6 (DDX6) was a significant hit. In order to validate DDX6 as a regulator of ISG expression, we created knockouts of DDX6 in HAP1 cells using CRISPR-Cas9 and performed RNA-seq on coding RNA from DDX6 KO and WT cells. This data was used to determine if ISGs were upregulated in DDX6 KO HAP1 cells.

2017-07-25 | E-MTAB-5867 | biostudies-arrayexpress

Identical transcriptome reprograming by interferon lambda 3 and 4 and its absence in IFNLR1 or IL10R2 deficient cells rules out the IFNL4 non-canonical signaling hypothesis

Project description:Lambda interferons IFNL1-3 mediate antiviral immunity by inducing interferon sensitive genes (ISGs) in epithelial tissues. Contrarily, a variant creating the functional gene IFNL4 is associated with impaired clearance of hepatitis C virus (HCV) despite of higher liver expression of ISGs in untreated HCV patients. We aimed to explore IFNL4 signaling mechanism by comparing expression profiles from human hepatic cell line clones with genetic modifications influencing the ISG signaling pathway (IFNLR1/IL10R2 knockouts, IFNL4/IFNL3 expression stimulation by transfection).

2021-12-31 | E-MTAB-8916 | biostudies-arrayexpress

Proteome of CNOT1 and ANXAR2-depleted cells

Project description:Interferon-stimulated genes (ISGs) form the backbone of innate immune system and are pivotal for limiting intra- and intercellular viral replication and spread. We conducted a mass spectrometry–based survey to understand the fundamental organization of the innate immune system and to explore molecular functions of individual ISGs. We identified interactions between 104 ISGs and 1,401 cellular binding partners engaging in 2,734 high-confidence interactions. 90% of these interactions are unreported so far, and our survey therefore illuminates a far wider activity spectrum of ISGs than currently known. Integration of the resulting ISG-interaction network with published datasets and functional studies allowed us to identify novel regulators of immunity and immune system–related processes. Given the extraordinary robustness of the innate immune system, this ISG network may serve as a blueprint for therapeutic targeting of cellular systems in order to efficiently fight viral infections.

2019-03-01 | PXD012278 | Pride

Proteome of LGALS3BP-depleted HeLa cells

2019-03-01 | PXD012276 | Pride

FluAV vRNP interactome - A protein-interaction network of interferon-stimulated genes extends the innate immune system landscape

2019-03-01 | PXD012275 | Pride