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133 results for “SIV”
Results of the differential gene expression analysis in SIV infection in Chlorocebus sabaeus and Macaca mulatta
<p>Results of differential gene expression analysis in SIV infection in Chlorocebus sabaeus and Macaca mulatta.</p> <p>From the transcriptome data repository MACE (http://mace.ihes.fr)</p>
Combined single-cell quantitation of host and SIV genes and proteins ex vivo reveals host-pathogen interactions in individual cells
<p>Single cell gene expression data for the paper "Combined single-cell quantitation of host and SIV genes and proteins ex vivo reveals host-pathogen interactions in individual cells" to appear in PLOS Pathogens.</p> <p>Package contains two single cell data sets, one consisting of single cells from PBMCs in three animals, and the other three tissues from one animal.</p> <p>The single-cells are grouped based on the SIV viral genes that they express.</p> <p> </p>
Gene expression in the lung and liver of SIV-infected macaques.
<p>Analysis of RNA transcripts in the liver and lung of healthy (n=2), SIV infected (n=2) and antiretroviral therapy treated (n=2) rhesus macaques using NovaSeq 6000 flowcell S1 at the Next-Generation Sequencing Platform, Genomics Center (CHU de Québec-Université Laval Research Center, Québec City, Canada). Gene symbols and amounts of transcripts per million (TPM) are listed for each condition.</p>
Replication data for Optical properties of SiV and GeV color centers in nanodiamonds under hydrostatic pressures up to 180 GPa
<p>We investigate the optical properties of silicon-vacancy (SiV) and germanium-vacancy (GeV) color centers in nanodiamonds under hydrostatic pressure up to 180 GPa. The nanodiamonds were synthetized by Si or Ge-doped plasma assisted chemical vapor deposition and, for our experiment, pressurized in a diamond anvil cell.</p> <p>Data_SiV : replication data for the center wavelength of the photoluminescence of the SiV center as a function of pressure. The file is composed of 4 columns: first is pressure (in GPa), second is error in pressure (in GPa), third is center wavelength (in nm) and fourth is error in center wavelength (in nm).</p> <p>Data_GeV : replication data for the center wavelength of the photoluminescence of the GeV center as a function of pressure. The file is composed of 4 columns: first is pressure (in GPa), second is error in pressure (in GPa), third is center wavelength (in nm) and fourth is error in center wavelength (in nm).</p>
Supplementary information for: Macrophage- and CD4+ T cell-derived SIV differ in glycosylation, infectivity, and neutralization sensitivity
<p>The human immunodeficiency virus (HIV) envelope protein (Env) mediates viral entry into host cells and is the primary target for the humoral immune response. Env is extensively glycosylated, and these glycans shield underlying epitopes from neutralizing antibodies. The glycosylation of Env is influenced by the type of host cell in which the virus is produced. Thus, HIV is distinctly glycosylated by CD4<sup>+</sup> T cells, the major target cells, and macrophages. However, the specific differences in glycosylation between viruses produced in these cell types have not been explored at the molecular level. Moreover, it remains unclear whether the production of HIV in CD4<sup>+</sup> T cells or macrophages affects the efficiency of viral spread and resistance to neutralization. To address these questions, we employed the simian immunodeficiency virus (SIV) model. Glycan analysis implied higher relative levels of oligomannose-type <em>N</em>-glycans in SIV from CD4<sup>+</sup> T cells (T-SIV) compared to SIV from macrophages (M-SIV), and the complex-type <em>N</em>-glycans profiles seem to differ between the two viruses. Notably, M-SIV demonstrated greater infectivity than T-SIV, even when accounting for Env incorporation, suggesting that host cell-dependent factors influence infectivity. Further, M-SIV was more efficiently disseminated by HIV-binding cellular lectins. We also evaluated the influence of cell type-dependent differences on SIV's vulnerability to carbohydrate-binding agents (CBAs) and neutralizing antibodies. T-SIV demonstrated greater susceptibility to mannose-specific CBAs, possibly due to its elevated expression of oligomannose-type <em>N</em>-glycans. In contrast, M-SIV exhibited higher susceptibility to neutralizing sera in comparison to T-SIV. These findings underscore the importance of host cell-dependent attributes of SIV, such as glycosylation, in shaping both infectivity and the potential effectiveness of intervention strategies.</p>
A data set on "High-Yield Production of SiV-Doped Nanodiamonds for Spectroscopy and Sensing Applications"
<p>The data set to paper: </p> <p>High-Yield Production of SiV-Doped Nanodiamonds for Spectroscopy and Sensing Applications</p> <p>Alexander Kromka1,*, Marián Varga1,2, Kateřina Aubrechtová Dragounová1,3, Oleg Babčenko1, René. Pfeifer1, Assegid M. Flatae4, Florian Sledz4, Farzana Akther4, Mario Agio4,5, Štěpán Potocký1, Štěpán Stehlík1</p> <p>1 Institute of Physics, Czech Academy of Sciences, Prague 6, Czech Republic<br>2 Institute of Electrical Engineering, Slovak Academy of Sciences, Bratislava, Slovakia<br>3 Faculty of Nuclear Sciences and Physical Engineering, Czech Technical University in Prague, Prague 1, Czech Republic<br>4 Laboratory of Nano-Optics and Cμ, University of Siegen, Walter-Flex-Str. 3, 57072 Siegen, Germany <br>5 National Institute of Optics (INO-CNR), Largo Enrico Fermi 6, 50125 Florence, Italy</p> <p>*corresponding authors: kromka@fzu.cz</p> <p>Data manager: Kristýna Dostálová: dostalovak@fzu.cz</p> <p>Date of data collection: 1. 2. 2023 - 31. 7. 2024</p> <p>All the data showed in the pictures are provided in X-Y format with described sample. Always, the respective figure to which the data belong is provided in high resolution. <br>The data are in the following formats: <br>Scheme 1: pdf<br>Figure 1: pdf<br>Figure 2: pdf<br>Figure 3: pdf, csv<br>Figure 4: pdf, csv<br>Figure 5: pdf, csv<br>Figure 6: pdf, csv<br>Figure 7: pdf, csv<br>Figure S1: pdf, csv<br>Figure S2: pdf, csv</p> <p>The comma separated values file (csv) always contain the description of the columns in the first row. In case of composed image the name of the file corresponds to the corresponding figure.</p> <p>Data acquistion and processing is provided in the Experimental part in the publication: DOI: 10.1021/acsanm.4c04676</p>
Supplementary information for: Macrophage- and CD4+ T cell-derived SIV differ in glycosylation, infectivity, and neutralization sensitivity
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Gene expression of CD4+ T cells in the liver of SIV-infected macaques.
<p>Analysis of RNA transcripts of CD4+ T cells from the liver of healthy (n=3) and SIV infected (n=3) rhesus macaques using NovaSeq 6000 flowcell S1 at the Next-Generation Sequencing Platform, Genomics Center (CHU de Québec-Université Laval Research Center, Québec City, Canada). Gene symbols and amounts of transcripts per million (TPM) are listed for each condition.</p>
CD8+ cells and small viral reservoirs facilitate post-ART SIV control in MHC-M3+ Mauritian cynomolgus macaques
GEO Series GSE225770. Macaca fascicularis. 16 samples. Type: Expression profiling by high throughput sequencing.
Short-term pIFN-α2a treatment does not significantly reduce the viral reservoir of SIV-infected, ART-treated rhesus macaques
GEO Series GSE114561. Macaca mulatta. 35 samples. Type: Expression profiling by high throughput sequencing.
scRNA-seq data from two macaques in AP-1/c-Fos supports SIV and HIV-1 latency in CD4 T-cells infected in vivo
GEO Series GSE232998. Macaca mulatta. 1631 samples. Type: Expression profiling by high throughput sequencing.
miRNA expression changes in small intestinal lamina propria leukocyte samples during the course of SIV infection of rhesus macaques
GEO Series GSE77134. Macaca mulatta; Homo sapiens. 25 samples. Type: Expression profiling by RT-PCR.
MicroRNA profiling of Gingival tissue from chronically SIV infected rhesus macaques
GEO Series GSE181541. Macaca mulatta; Homo sapiens. 13 samples. Type: Expression profiling by RT-PCR.
T cell-mediated SIV dissemination into the CNS: a single-cell transcriptomic analysis
GEO Series GSE293543. Macaca mulatta; Homo sapiens. 14 samples. Type: Expression profiling by high throughput sequencing.
miRNA profiling of Macaca mulatta colonic epithelium samples from chronic SIV infected rhesus macaques
GEO Series GSE104767. Macaca mulatta; Homo sapiens. 20 samples. Type: Expression profiling by RT-PCR.
Genome-wide DNA methylation analysis reveals dynamic changes in metabolic and immune-regulatory pathways during uncontrolled SIV infection
GEO Series GSE143708. Macaca mulatta; Homo sapiens; Chlorocebus sabaeus. 77 samples. Type: Methylation profiling by genome tiling array.
Peripheral Blood Biomarkers in ART-Suppressed, SIV-Infected Rhesus Macaques Predict Viral Rebound Following ART Discontinuation
GEO Series GSE203603. Macaca mulatta. 105 samples. Type: Expression profiling by high throughput sequencing.
Pharmacological modulation of the Wnt/β-catenin pathway inhibits the proliferation of long-lived latently-infected memory CD4+ T-cells in ART-suppressed SIV-infected macaques
GEO Series GSE127330. Macaca mulatta. 47 samples. Type: Expression profiling by high throughput sequencing.
Cannabinoid attenuation of intestinal inflammation in chronic SIV-infected rhesus macaques involves differential modulation of pro-inflammatory microRNA/gene expression and T-cell activation
GEO Series GSE121441. Macaca mulatta; Homo sapiens. 39 samples. Type: Expression profiling by array; Expression profiling by RT-PCR.
SIV infection induces alterations in gene expression and loss of interneurons in Rhesus Macaque frontal cortex during early systemic infection
GEO Series GSE277094. Macaca mulatta. 9 samples. Type: Expression profiling by high throughput sequencing.
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