GEO DataSets

(Submitter supplied) Despite antiretroviral therapy (ART), HIV-associated peripheral neuropathy remains one of the most prevalent neurologic manifestations of HIV infection. The spinal cord is an essential component of sensory pathways, but spinal cord sampling and evaluation in people with HIV has been very limited, especially in those on ART. The SIV/macaque model allows for assessment of the spinal cord at key time points throughout infection with and without ART. more...

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33261

24 Samples

Download data: XLSX

(Submitter supplied) Abstract: The effects of immunodeficiency associated with chronic HIV infection on COVID-19 disease and viral persistence have not been directly addressed in a controlled setting. In this pilot study, we exposed two pigtail macaques (PTMs) chronically infected with SIVmac239, exhibiting from very low to no CD4 T cells across all compartments, to SARS-CoV-2. We monitored the disease progression, viral replication and evolution, and compared these outcomes with SIV-naïve PTMs infected with SARS-CoV-2. more...

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34726

2 Samples

Download data: CSV, MTX

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

Organism:

Macaca nemestrina; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

22 Samples

Download data

(Submitter supplied) Here we use RNAseq and ATACseq to study the transcriptomics and epigenetic landscape of longitudinally sampled naïve and memory CD4+ and CD8+ T cells in two species of non-human primates prior to SIV infection, during chronic SIV infection, and after administration of ARVs. We find that SIV infection leads to significant alteration to the transcriptomic profile of all T cell subsets that are only partially reversed by administration of ARVs. more...

Organism:

Macaca mulatta; Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27943 GPL33261

116 Samples

Download data: TXT

(Submitter supplied) Here we use RNAseq and ATACseq to study the transcriptomics and epigenetic landscape of longitudinally sampled naïve and memory CD4+ and CD8+ T cells in two species of non-human primates prior to SIV infection, during chronic SIV infection, and after administration of ARVs. We find that SIV infection leads to significant alteration to the transcriptomic profile of all T cell subsets that are only partially reversed by administration of ARVs. more...

Organism:

Macaca nemestrina; Macaca mulatta

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL33261 GPL27943

120 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) HIV causes chronic inflammation and AIDS in humans, though the rate of disease progression varies between individuals. Similarly, simian lentiviruses vary in their pathogenicity based on characteristics of both the host (simian species) and virus strain. Here, we profile immune responses in pig-tailed macaques infected with variants of SIV that differ in virulence to understand the immune mechanisms underlying lentiviral pathogenicity. more...

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33261

37 Samples

Download data: RDS

(Submitter supplied) Investigation of spatial transcriptomic responses of nonhuman primate fetal brains during development

Organism:

Macaca nemestrina

Type:

Other; Expression profiling by high throughput sequencing

Platform:

GPL33261

141 Samples

Download data: CSV, DCC, PKC

(Submitter supplied) To investigate the transcriptional response in nonhuman primate fetal brain at term gestation following ZIKV exposure in utero

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22173

45 Samples

Download data: TXT

(Submitter supplied) Antiretroviral treatment regimens can effectively control HIV replication and some aspects of disease progression. However, molecular events in end-organ diseases such as central nervous system (CNS) disease are not yet fully understood, and routine eradication of latent reservoirs is not yet in reach. Regulatory RNAs have emerged as important participants in HIV disease pathogenesis. Using brain tissue from the simian immunodeficiency virus (SIV) model of HIV disease, we profiled messenger RNAs (mRNAs) and circular RNAs (circRNAs), seeking to identify possible networks of RNA interaction in SIV infection and neuroinflammation.

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33261

38 Samples

Download data: XLSX

(Submitter supplied) Antiretroviral treatment regimens can effectively control HIV replication and some aspects of disease progression. However, molecular events in end-organ diseases such as central nervous system (CNS) disease are not yet fully understood, and routine eradication of latent reservoirs is not yet in reach. Brain tissue-derived extracellular vesicles (bdEVs) act locally in the source tissue and may indicate molecular mechanisms in HIV CNS pathology. more...

Organism:

Macaca nemestrina

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL33261

44 Samples

Download data: XLS

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

Organism:

Macaca nemestrina

Type:

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

Platform:

GPL33261

82 Samples

Download data

(Submitter supplied) Kyasanur Forest disease virus (KFDV) and the closely related Alkhurma hemorrhagic disease virus (AHFV) are emerging flaviviruses that cause severe viral hemorrhagic fevers in humans. Increasing geographical expansion and case numbers, particularly of KFDV in southwest India, class these viruses as a public health threat. Viral pathogenesis is not well understood and additional vaccines and antivirals are needed to effectively counter the impact of these viruses. more...

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30848

30 Samples

Download data: TXT

(Submitter supplied) Abundant evidence supports the presence of at least three distinct types of thalamocortical (TC) neurons in the primate dorsal lateral geniculate nucleus (dLGN) of the thalamus, the brain region that conveys visual information from the retina to the primary visual cortex (V1). Different types of TC neurons in mice, humans, and macaques have distinct morphologies, distinct connectivity patterns, and convey different aspects of visual information to the cortex. more...

Organism:

Mus musculus; Macaca fascicularis; Macaca nemestrina; Homo sapiens

Type:

Expression profiling by high throughput sequencing

4 related Platforms

5552 Samples

Download data: CSV, TXT

(Submitter supplied) Choriodecidual infection is associated with preterm premature rupture of membranes (pPROM) and preterm birth. MicroRNAs (miRNAs) are small, non-coding RNAs that regulate gene expression and may be involved in the pathway leading to chorioamnion weakening following infection. The study objective was to determine if a miRNA profile in the chorioamnion is associated with Group B Streptococcal infection and membrane weakening.

Organism:

synthetic construct; Macaca nemestrina

Type:

Expression profiling by array

Platform:

GPL14613

10 Samples

Download data: CEL

(Submitter supplied) Induced pluripotent stem cells (iPSCs) hold promise for generating personalized xenogenic organs via development of cross-species chimeric animals. However, whether human and other primate iPSCs are capable of establishing cross-species chimeras remains unknown. Recognizing the ethical concerns of cross-species chimerism using human iPSCs, we explored the capacity for cross-species chimerism between distinct, non-human primates. more...

Organism:

Macaca nemestrina; Mus musculus; Macaca mulatta; Homo sapiens; Pan troglodytes

Type:

Expression profiling by high throughput sequencing

5 related Platforms

24 Samples

Download data: TSV

(Submitter supplied) Progestin-based contraception may increase the risk of vaginal HIV acquisition to a level greater than the progesterone-rich luteal phase of the menstrual cycle, which has been demonstrated to have a significantly higher transmission rate compared to the follicular phase. We used pig-tailed macaque (Macaca nemestrina) model to evaluate the effects of administration of the oral the combined oral contraceptives (COCs) depot medroxyprogesterone acetate (DMPA) and levonorgestrel (LNG) on mucosal factors that influence HIV susceptibility. more...

Organism:

Macaca nemestrina; Macaca mulatta

Type:

Expression profiling by array

Platform:

GPL3535

58 Samples

Download data: CEL

(Submitter supplied) Extracellular vesicles (EVs) are involved in a wide range of physiological and pathological processes by shuttling material out of and between cells. Tissue EVs may thus lend insights into disease mechanisms and also betray disease when released into easily accessed biological fluids. Since brain-derived EVs (bdEVs) and their cargo may serve as biomarkers of neurodegenerative diseases, we evaluated modifications to a published, rigorous protocol for separation of EVs from brain tissue and studied effects of processing variables on quantitative and qualitative outcomes. more...

Organism:

Macaca nemestrina; Homo sapiens

Type:

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

Platforms:

GPL28533 GPL23934

29 Samples

Download data: XLSX

(Submitter supplied) Here, we performed RNA-Seq on mRNA isolated from primary dermal fibroblasts of human, mice and multiple non-human primate species transfected with polyinosinic-polycytidylic acid (polyI:C), a synthetic dsRNA analog that invokes a strong interferon-mediated response, or mock transfected.

Organism:

Pan paniscus; Macaca mulatta; Macaca nemestrina; Papio anubis; Homo sapiens; Pan troglodytes; Saimiri sciureus; Gorilla gorilla; Pongo abelii; Mus musculus

Type:

Expression profiling by high throughput sequencing

14 related Platforms

197 Samples

Download data: TXT

(Submitter supplied) In order to identify IFNα-induced host factor(s) that might inhibit replication of unadapted chimeric SIV/HIV-1 viruses (SHIVs), we measured IFNα-induced gene expression in immortalized pig-tailed macaque (Ptm) CD4+ lymphocytes. Triplicate cultures of Ptm lymphocytes were left untreated or treated with 1000 U/ml of IFNα. Twenty-four hours later, RNA was isolated, and RNA-seq libraries were prepared for sequencing. more...

Organism:

Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19597

6 Samples

Download data: TXT

(Submitter supplied) Fetal lung and brain injury have been linked with intrauterine exposure to amniotic fluid (AF) cytokines, but injury to other fetal organs are not well characterized. Fetal cardiac injury was suspected based on an ultrasound study suggesting diastolic dysfunction, but not previously confirmed or characterized. In this study we explore the relationship between cytokine exposure due to exposure to group B streptococcus and cardiac gene expression.

Organism:

Macaca mulatta; Macaca fascicularis; Macaca nemestrina

Type:

Expression profiling by array

Platform:

GPL21213

10 Samples

Download data: CEL