GEO DataSets

(Submitter supplied) To address the role of miRNAs in Hirschsprund disease (HSCR), we carried out microRNA (miRNA) array analysis by using human intestinal samples obtained from HSCR patients and controls, and identified dysregulated miRNAs involved in the pathogenesis of HSCR.

Organism:

Merkel cell polyomavirus; Homo sapiens; Herpesvirus saimiri (strain 11); JC polyomavirus; Human gammaherpesvirus 8; Human alphaherpesvirus 1; Human betaherpesvirus 5; Human immunodeficiency virus 1; Human betaherpesvirus 6B

Type:

Non-coding RNA profiling by array

Platform:

GPL32145

10 Samples

Download data: GPR, TXT

(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; Herpesvirus saimiri (strain 11); JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus hominis; Homo sapiens; Human alphaherpesvirus 1; Macacine alphaherpesvirus 1; Human betaherpesvirus 5; Human immunodeficiency virus 1; Merkel cell polyomavirus

Type:

Non-coding RNA profiling by array

Platform:

GPL21439

12 Samples

Download data: GPR, XLSX

(Submitter supplied) Excessive alcohol consumption adversely affects the immune system and triggers the activation of peripheral blood (PB) monocytes and tissue macrophages, contributing to alcohol- related organ damage. This study aimed to analyze the M1/M2 and inflammatory phenotypes of circulating monocytes and macrophage-derived monocytes (MDMs). This single-center cross- sectional study included 20 excessive alcohol drinkers (EADs) and 22 healthy controls. more...

Organism:

Rattus norvegicus; Human alphaherpesvirus 2; Merkel cell polyomavirus; Mus musculus cytomegalovirus 2; Murid gammaherpesvirus 4; Betapolyomavirus hominis; human gammaherpesvirus 4; JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae; Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1

Type:

Non-coding RNA profiling by array

Platform:

GPL11434

22 Samples

Download data: GPR, TXT

(Submitter supplied) We used ac4C-seq to detedc cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV, iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells after after doxycycline and sodium butyrate treatment.

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Other

Platform:

GPL30065

24 Samples

Download data: TXT, XLS

(Submitter supplied) Flag-RIP-seq was performed in NAT10-Flag overexpressing iSLK-KSHV cells.

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other

Platform:

GPL30065

12 Samples

Download data: TXT

(Submitter supplied) Historically, ribosomes have been viewed as unchanged homogeneous macromolecular machines with no intrinsic regulatory capacity for mRNA translation. However, an emerging concept is that heterogeneity of ribosomal composition exists, which can exert a regulatory function or specificity in translational control. This is supported by recent discoveries identifying compositionally distinct ‘specialized ribosomes’ that actively regulate mRNA translation. more...

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL30065

8 Samples

Download data: TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL24095 GPL18573 GPL16791

58 Samples

Download data: BW

(Submitter supplied) Control of RNA Polymerase II (pol II) elongation is a critical component of gene expression in mammalian cells. The PNUTS-protein phosphatase 1 (PP1) complex controls elongation rates, slowing pol II after polyadenylation sites to promote termination. The Kaposi's sarcoma-associated herpesvirus (KSHV) co-opts pol II to express its genes, but little is known about its regulation of pol II elongation. more...

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other

Platform:

GPL24095

4 Samples

Download data: BW

(Submitter supplied) Control of RNA Polymerase II (pol II) elongation is a critical component of gene expression in mammalian cells. The PNUTS-protein phosphatase 1 (PP1) complex controls elongation rates, slowing pol II after polyadenylation sites to promote termination. The Kaposi's sarcoma-associated herpesvirus (KSHV) co-opts pol II to express its genes, but little is known about its regulation of pol II elongation. more...

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24095

24 Samples

Download data: TXT

(Submitter supplied) Silencing of the adaptor SH3BP2 impairs Gastrointestinal stromal tumors growth through miRNAs We dissected SH3BP2 pathway in Gastrointestinal Stromal Tumor cells (GIST) performing a miRNA array in SH3BP2-silenced GIST cells

Organism:

Herpesvirus saimiri (strain 11); JC polyomavirus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Human betaherpesvirus 6B; Betapolyomavirus macacae; Homo sapiens; Macacine alphaherpesvirus 1; Merkel cell polyomavirus; Human alphaherpesvirus 2; Betapolyomavirus hominis

Type:

Non-coding RNA profiling by array

Platform:

GPL21599

12 Samples

Download data: TXT, XLSX

(Submitter supplied) Eukaryotic genomes are structurally organized via the formation of multiple loops that create gene expression regulatory units called topologically associating domains (TADs). Here we revealed the KSHV TAD structure at 500 base pair resolution and constructed a 3D KSHV genomic structural model. The latent KSHV genome formed very similar TAD structures among three different naturally infected PEL cell lines. more...

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other

Platform:

GPL25719

10 Samples

Download data: HIC

(Submitter supplied) Characterization of pluripotent states, in which cells can both self-renew or differentiate, with the irreversible loss of pluripotency, are important research areas in developmental biology. Although microRNAs (miRNAs) have been shown to be crucial for embryonic stem (ES) self-renewal maintenance and cellular differentiation, the role of miRNAs integrated into gene regulatory networks and its dynamic changes during these state transitions remain elusive. more...

Organism:

Human alphaherpesvirus 2; Murid gammaherpesvirus 4; Mus musculus; Rattus norvegicus; Murid betaherpesvirus 1; JC polyomavirus; Human immunodeficiency virus 1; Merkel cell polyomavirus; Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; Betapolyomavirus hominis; human gammaherpesvirus 4; Human gammaherpesvirus 8; Betapolyomavirus macacae

Type:

Non-coding RNA profiling by array

Platform:

GPL18658

12 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:

GPL25719

42 Samples

Download data: BW, HIC

(Submitter supplied) lncRNAs regulate protein functions via formation of protein-RNA complexes. Previous studies have shown that expression of viral lncRNA, polyadenylated nuclear RNA (PAN RNA) is essential for inducible viral genomic looping and distal gene activation during Kaposi's sarcoma-associated herpesvirus (KSHV) reactivation. Here we show an underlying molecular mechanism and regulation of KSHV latency by a viral lncRNA-CHD4 (chromodomain helicase DNA binding protein 4) interaction. more...

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other

Platform:

GPL25719

12 Samples

Download data: HIC

(Submitter supplied) lncRNAs regulate protein functions via formation of protein-RNA complexes. Previous studies have shown that expression of viral lncRNA, polyadenylated nuclear RNA (PAN RNA) is essential for inducible viral genomic looping and distal gene activation during Kaposi's sarcoma-associated herpesvirus (KSHV) reactivation. Here we show an underlying molecular mechanism and regulation of KSHV latency by a viral lncRNA-CHD4 (chromodomain helicase DNA binding protein 4) interaction. more...

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25719

30 Samples

Download data: BW

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL24676 GPL20301 GPL30065

53 Samples

Download data: BW, TSV

(Submitter supplied) Herpesviruses rely on host cell transcription and translation machineries for replication. Viral proteins thus function to redirect multiple cellular proteins for viral replication. In herpesvirus replicating cells, host cell gene transcription is frequently down-regulated because important transcriptional apparatuses are appropriated by viral transcription factors. Here we show that an evolutionally-shaped viral protein sequence is a great starting material for unique drug development to modulate cellular transcription. more...

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL30065

15 Samples

Download data: BW

(Submitter supplied) An improved mechanistic understanding of the thyroid hormone (TH) action on bile acid (BA) synthetic pathway, the major route for cholesterol elimination, will facilitate the identification of novel therapeutic targets for hypercholesterolemia. Here, we show that hepatic miR-378 is positively regulated by TH. Transient overexpression of miR-378 in the liver of mice reduces the serum cholesterol levels, which is accompanied with an upregulation of key enzymes involved in the intrahepatic conversion of cholesterol to BAs. more...

Organism:

Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1; Rattus norvegicus; Murid gammaherpesvirus 4; Betapolyomavirus hominis; human gammaherpesvirus 4; JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae

Type:

Non-coding RNA profiling by array

Platform:

GPL20794

1 Sample

Download data: TXT, XLS

(Submitter supplied) Cancer cells of primary effusion lymphoma (PEL) often contain both Kaposi sarcoma-associated herpesvirus (KSHV) and Epstein-Barr virus (EBV). We measured the interplay of human, KSHV, and EBV transcription in a cell culture model of PEL using single-cell RNA sequencing. The data detect widespread trace expression of lytic KSHV genes.

Organism:

Homo sapiens; Human gammaherpesvirus 8; human gammaherpesvirus 4

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28902

2 Samples

Download data: CSV

(Submitter supplied) To explore the miRNAs associated with the memory deficits in Alzheimer's disease, we detected the miRNA profiles in the hippocampus of 6-month-old male APPswe/PS1dE9 (APP/PS1) mice and age-matched wild type C57BL/6 mice.

Organism:

human gammaherpesvirus 4; Herpesvirus saimiri (strain 11); JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae; Human alphaherpesvirus 2; Human betaherpesvirus 6B; Merkel cell polyomavirus; Betapolyomavirus hominis; Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Macacine alphaherpesvirus 1; Human betaherpesvirus 5; Human immunodeficiency virus 1

Type:

Non-coding RNA profiling by array

Platform:

GPL21439

6 Samples

Download data: GPR