GEO DataSets

(Submitter supplied) Human Bocavirus 1(HBoV1), which belongs to the genus Bocaparvovirus of the family Parvoviridae, infects well differentiated human airway epithelium which is at mitotically quiescent state. To systematicaly investigate the interaction between HBoV1 and primary human airway epithelium cultured at an air-liquid interface (HAE-ALI), RNA-seq was applied to study the transcriptome profile of HAE-ALI infected by HBoV1.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

6 Samples

Download data: TXT

(Submitter supplied) Human Bocavirus 1(HBoV1), which belongs to the genus Bocaparvovirus of the family Parvoviridae, infects well differentiated human airway epithelium which is at mitotically quiescent state. To systematicaly investigate the host and viral small RNA expression after HBoV1 infection of primary human airway epithelium cultured at an air-liquid interface (HAE-ALI), small RNA-seq was applied to study the small RNA transcriptome profile of HAE-ALI infected by HBoV1.

Organism:

Homo sapiens; Human bocavirus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL25879

3 Samples

Download data: TXT

(Submitter supplied) Intestinal epithelisal cells were obtained by EDTA isolation of ileum from WT mice followed by facs sorting (EpCAM + CD45 – 7AAD – ). Raw sequencing reads were aligned to the mouse genome (mm10) with Tophat , and gene expression levels were measured by Cufflinks .

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

2 Samples

Download data: XLSX

(Submitter supplied) Host-influenza virus interplay at the transcript level has been extensively characterized in epithelial cells. Yet, there are no studies that simultaneously characterize human host and influenza A virus (IAV) genomes. We infected human bronchial epithelial BEAS-2B cells with two seasonal IAV/H3N2 strains, Brisbane/10/07 and Perth/16/09 (reference strains for past vaccine seasons) and the well-characterized laboratory strain Udorn/307/72. more...

Organism:

Homo sapiens; Influenza A virus (A/Perth/16/2009(H3N2)); Influenza A virus (A/Udorn/307/1972(H3N2)); Influenza A virus (A/Brisbane/10/2007(H3N2))

Type:

Expression profiling by high throughput sequencing

4 related Platforms

36 Samples

Download data: FA, XLSX

(Submitter supplied) The comprehensive analysis of MmuPV1 expression was performed using total RNA-seq of wart tissues obtained from infected FoxN1nu/nu mice.

Organism:

Mus musculus papillomavirus type 1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24037

12 Samples

Download data: BEDGRAPH

(Submitter supplied) Virus and host factors contribute to cell-to-cell variation in viral infection and determine the outcome of the overall infection. However, the extent of the variability at the single cell level and how it impacts virus-host interactions at a systems level are not well understood. To characterize the dynamics of viral transcription and host responses, we used single-cell RNA sequencing to quantify at multiple time points the host and viral transcriptomes of human A549 cells and primary bronchial epithelial cells infected with influenza A virus. more...

Organism:

Homo sapiens; Canis lupus familiaris; Influenza A virus (A/Puerto Rico/8/1934(H1N1))

Type:

Expression profiling by high throughput sequencing; Other

7 related Platforms

33 Samples

Download data: TXT

(Submitter supplied) We reported an atlas of de novo-defined, full-length macaque gene models on the basis of single molecule long-read transcriptome sequencing (Iso-seq).

Organism:

Mus musculus; Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24198 GPL26751

14 Samples

Download data: BW

(Submitter supplied) Expression data from airway brush biopsy samples, differentiated primary cultures of human airway epithelia, CaLu3 cultures at the air liquid interface, and primary cultures of human airway epithelia submerged in nutrient media Organotypic cultures of primary human airway epithelial cells have been used to investigate the morphology, ion and fluid transport, innate immunity, transcytosis, infection, inflammation, signaling, cilia and repair functions of this complex tissue. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10097

50 Samples

Download data: CEL

(Submitter supplied) We report that IFI16, which was previously identified as a cytosolic DNA sensor, is essential for the activation of programmed cell death pathways in IAV infected cells. We have identified IFI16 as an innate immune sensor of the influenza A virus. We find that IFI16 recognizes viral genomic RNA upon infection. The activation of IFI16, in turn, triggers the production of type I, III interferons, and also other pro-inflammatory cytokines via the STING-TBK1 and Pro-caspase-1 signalling axis, thereby promoting cell death (apoptosis and pyroptosis in IAV infected cells).

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

4 Samples

Download data: TXT

(Submitter supplied) Current methods for single-nucleus RNA-sequencing (snRNAseq) are limited to assaying endogenously polyadenylated (A-tailed) RNA transcripts. Here we demonstrate that enzymatic in situ polyadenylation of RNAs enables detection of the full spectrum of RNAs, expanding the scope of sequencing-based single-nucleus transcriptomics to the total transcriptome. We apply standard snRNAseq and total snRNAseq to C2C12 myoblasts. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

2 Samples

Download data: MTX, TSV, TXT

(Submitter supplied) Spatial transcriptomics reveals the spatial context of gene expression, but current methods are limited to assaying endogenously polyadenylated (A-tailed) RNA transcripts. Here we demonstrate that enzymatic in situ polyadenylation of RNAs enables detection of the full spectrum of RNAs, expanding the scope of sequencing-based spatial transcriptomics to the total transcriptome. We apply this Spatial Total RNA-Sequencing (STRS) approach to spatially map noncoding RNAs, newly transcribed RNAs, and non-host RNAs at the tissue-scale in the study skeletal muscle regeneration and viral-induced myocarditis. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19057 GPL30172

8 Samples

Download data: JSON, MTX, TIFF, TSV, TXT

(Submitter supplied) Small RNAs, including microRNAs, play many roles in the regulation of gene expression. We performed small RNA-sequencing on two groups of samples to catalog which microRNAs are expressed during muscle regeneration in response to chemical injury and in heart tissue in response to viral-induced myocarditis.

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17021

12 Samples

Download data: CSV