GEO DataSets

(Submitter supplied) Ebola (EBOV) virus causes severe and often lethal hemorrhagic fever in humans and nonhuman primates (NHP), and has been classified as a Category A bioweapon agent. There are currently no approved preventive vaccines or postexposure treatments for EBOV hemorrhagic fever. The mechanisms of EBOV pathogenesis are only partially understood, but the dysregulation of normal host immune responses (including destruction of lymphocytes, increases in levels of circulating proinflammatory cytokines, and development of coagulation abnormalities) is thought to play a major role. more...

Organism:

Macaca mulatta; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL9700

91 Samples

Download data: GPR

(Submitter supplied) Infection with Ebola virus (EBOV) causes a fulminant and often fatal hemorrhagic fever. In order to improve our understanding of EBOV pathogenesis and EBOV-host interactions we have examined the molecular features of EBOV infection in vivo. Using self-spotted cDNA microarrays, we analyzed genome-wide host expression patterns in sequential blood samples from nonhuman primates (NHP) infected with EBOV. more...

Organism:

Homo sapiens; Macaca fascicularis

Type:

Expression profiling by array

Platform:

GPL5447

65 Samples

Download data

(Submitter supplied) To elucidate the mechanisms involved in pulmonary inflammation in Zaire ebolavirus-infected pigs, lung sections infected pigs were used for a porcine microarray to analyse changes in gene expression with particular interest in proinflammatory cytokine and chemokine transcription.

Organism:

Sus scrofa

Type:

Expression profiling by array

Platform:

GPL10162

16 Samples

Download data: PDF, PNG, TXT, XLS

(Submitter supplied) Ebola virus (EBOV) causes epidemics with high mortality, yet remains understudied due to the challenge of experimentation in high-containment and outbreak settings. Here, we used single-cell transcriptomics and CyTOF-based single-cell protein quantification to characterize peripheral immune cells during EBOV infection in rhesus monkeys. We obtained 100,000 transcriptomes and 15,000,000 protein profiles, providing insight into pathogenesis: e.g., immature, proliferative monocyte-lineage cells with reduced antigen presentation capacity replace conventional monocyte subsets, while lymphocytes upregulate apoptosis genes and decline in abundance. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27943

82 Samples

Download data: MTX, TSV

(Submitter supplied) Ebola virus (EBOV) causes epidemics with high mortality, yet remains understudied due to the challenge of experimentation in high-containment and outbreak settings. Here, we used single-cell transcriptomics and CyTOF-based single-cell protein quantification to characterize peripheral immune cells during EBOV infection in rhesus monkeys. We obtained 100,000 transcriptomes and 15,000,000 protein profiles, providing insight into pathogenesis: e.g., immature, proliferative monocyte-lineage cells with reduced antigen presentation capacity replace conventional monocyte subsets, while lymphocytes upregulate apoptosis genes and decline in abundance. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27943

24 Samples

Download data: MTX, TSV

(Submitter supplied) Ebola virus (EBOV) causes epidemics with high mortality, yet remains understudied due to the challenge of experimentation in high-containment and outbreak settings. Here, we used single-cell transcriptomics and CyTOF-based single-cell protein quantification to characterize peripheral immune cells during EBOV infection in rhesus monkeys. We obtained 100,000 transcriptomes and 15,000,000 protein profiles, providing insight into pathogenesis: e.g., immature, proliferative monocyte-lineage cells with reduced antigen presentation capacity replace conventional monocyte subsets, while lymphocytes upregulate apoptosis genes and decline in abundance. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27943

106 Samples

Download data

(Submitter supplied) To understand the host transcriptional response to S. enterica serovar Choleraesuis (S. Choleraesuis), the first generation Affymetrix porcine GeneChip® was used to identify differentially expressed genes in the mesenteric lymph nodes responding to infection at acute (8 hours (h), 24h, 48h post-inoculation (pi)) and chronic stages (21 days (d) pi) The objectives of this study were to identify and examine the stereotypical gene expression response within the host mesenteric lymph nodes to S. more...

Organism:

Sus scrofa

Type:

Expression profiling by array

Platform:

GPL3533

15 Samples

Download data: CEL, EXP

(Submitter supplied) Ebola virus is the causative agent of a severe syndrome in humans with a fatality rate that can approach 90%. During infection, the host immune response is thought to become dysregulated, but the mechanisms through which this happens are not entire understood. In this study, we use microarrays to determine the host response to Ebola infection in the PBMCs of cynomolgus macaques.

Organism:

Macaca fascicularis; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

36 Samples

Download data: TXT

(Submitter supplied) RNA deep sequencing analysis was perfromed on PBMCs obtained from cynomolgus macaques (CMs) prior to and after immunization with VSV carrying ZEBOVgp (VSVΔG/ZEBOVgp) and at multiple points after ZEBOV challenge

Organism:

Macaca fascicularis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17720

30 Samples

Download data: TXT

(Submitter supplied) Zaire ebolavirus (ZEBOV) is among the deadliest known human pathogens, causing severe hemorrhagic fever with high case fatality rates ranging from 70-90%. The lack of effective vaccines or treatment available for ZEBOV renders this pathogen as a significant global biodefense threat, as evidenced by the current, highly lethal outbreak of a novel ZEBOV variant in western Africa. Existing mouse models of lethal ZEBOV infection do not reproduce hallmark symptoms of Ebola hemorrhagic fever (EHF) including prolonged blood coagulation, acute hepatitis, disseminated intravascular coagulation (DIC), and death from hemorrhagic shock, thus restricting pathogenesis studies to non-human primates (NHP). more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL17400

53 Samples

Download data: CEL

(Submitter supplied) In this study, we conducted a genome-wide screen to identify differentially expressed long noncoding RNAs (lncRNAs), circular RNAs (circRNAs), micro RNAs (miRNAs) and mRNAs during replication and transcription using a tetracistronic transcription and replication-competent virus-like particle (trVLP) system that models the life cycle of EBOV in 293T cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL20795 GPL17303

30 Samples

Download data: TXT

(Submitter supplied) To assess the molecular basis of EVD infection across time, we performed host and viral RNA sequencing on 17 distinct tissue types from 21 infected rhesus monkeys. We then analyzed gene expression changes and viral mutation patterns.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27943

308 Samples

Download data: TXT

(Submitter supplied) We report comparative outcome-dependent transcriptional profiles from spleen and liver from Collaborative Cross mice infected with mouse-adapted Ebola virus (MA-EBOV).

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

729 Samples

Download data: TXT

(Submitter supplied) Evaluating the transcriptome profiles of CD4+ T cells that were cultured with mock, LPS, or recombinant Ebolavirus strain Mayinga (EBV) with a particular interest in characterizing the T lymphocyte cell death-associated pathways.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

24 Samples

Download data: TXT

(Submitter supplied) Ebola virus disease (EVD) is a serious illness associated with 20-90% fatalities. EVD is characterized by robust virus replication and strong host inflammatory immune response. Analyzing the host immune response has increasingly involved multimodal approaches including transcriptomics to profile gene expression. We studied cynomolgus macaques exposed to Ebola virus (EBOV) Makona via different routes with the intent of comparing RNA-Seq to a NanoString nCounter codeset targeting 769 non-human primate (NHP) genes. more...

Organism:

Macaca fascicularis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20302

21 Samples

Download data: TXT

(Submitter supplied) The domestic ferret has recently been described as a uniformly lethal model of infection for three species of Ebolavirus known to be pathogenic to humans. Reagents to systematically analyze the ferret host response to infection are lacking; however, the recent publication of a draft ferret genome has opened the potential for transcriptional analysis of ferret models of disease. In this work, we present comparative analysis of longitudinally sampled blood taken from ferrets and non-human primates infected with lethal doses of the Makona strain of Zaire ebolavirus. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21120

60 Samples

Download data: TXT

(Submitter supplied) The domestic ferret has recently been described as a uniformly lethal model of infection for three species of Ebolavirus known to be pathogenic to humans. Reagents to systematically analyze the ferret host response to infection are lacking; however, the recent publication of a draft ferret genome has opened the potential for transcriptional analysis of ferret models of disease. In this work, we present comparative analysis of longitudinally sampled blood taken from ferrets and non-human primates infected with lethal doses of the Makona strain of Zaire ebolavirus. more...

Organism:

Mustela putorius furo

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25171

12 Samples

Download data: TXT

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

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29319 GPL19129

73 Samples

Download data: GTF

(Submitter supplied) Long non-coding RNAs (lncRNAs) are pivotal mediators of systemic immune response to viral infection yet most studies concerning their expression and functions upon immune stimulation are limited to in vitro bulk cell populations. This strongly constrains our understanding of how lncRNA expression varies at single-cell resolution, and whether differences with protein coding genes exist in their cell-type specific immune regulatory roles. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

57 Samples

Download data: GTF

(Submitter supplied) Long non-coding RNAs (lncRNAs) are pivotal mediators of systemic immune response to viral infection yet most studies concerning their expression and functions upon immune stimulation are limited to in vitro bulk cell populations. This strongly constrains our understanding of how lncRNA expression varies at single-cell resolution, and whether differences with protein coding genes exist in their cell-type specific immune regulatory roles. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29319

16 Samples

Download data: GTF