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152 results for “latent infection”
Latent infection of an active giant endogenous virus in a unicellular green alga
<p>Additional data for Latent infection of an active giant endogenous virus in a unicellular green alga.</p>
Dataset of "Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-infected Cells"
<p><strong>Detailed quantitative analysis of GFP expression in SAHA and TCR-treated cells & Computational analysis of bulk and single-cell RNA-Seq data.</strong></p> <p> </p> <p><em><strong>Detailed quantitative analysis of GFP expression in SAHA and TCR-treated cells.</strong></em></p> <p>Cells were prepared for single cell analysis at the Genome Technology Facility (GTF) of the University of Lausanne. Cells were loaded on Fluidigm C1 IFC plates (5-10 μm), with run ID smart33, smart34 and smart35, corresponding to untreated, SAHA- and TCR-treated conditions respectively. After single cell capture on the Fluidigm C1 IFC plate, each chamber was inspected visually by microscopy and pictures were captured with a Zeiss Axiovert 200 M fluorescence microscope equipped with a Roper Scientific CoolSnap HQ camera using a Plan-Neofluar 10X lens (smart34 run) or 20X lens (for smart35 run). For each capture chamber, pictures in bright field and FITC channel were taken with the MetaMorph 6.3 software. Picture analysis was then performed using ImageJ 1.50b software (open access software: website). Brightness and contrast were adjusted for qualitative assessment of the pictures.</p> <p><em><strong>Computational analysis of bulk and single-cell RNA-Seq data.</strong></em></p> <p>Upon bulk or single cell isolation, RNA extraction and library preparation was performed according to Illumina protocols. Bulk and single-cell RNA-Seq data analysis are detailed here.</p> <p> </p> <p>Linked to the paper published in Cell Reports (doi:10.1016/j.celrep.2018.03.102): </p> <p><strong>Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-infected Cells</strong></p> <p>Despite effective treatment, HIV can persist in latent reservoirs, which represent a major obstacle towards HIV eradication. Targeting and reactivating latent cells is challenging due to the heterogeneous nature of HIV infected cells. Here, we used a primary model of HIV latency and single-cell RNA sequencing to characterize transcriptional heterogeneity during HIV latency and reactivation. Our analysis identified transcriptional programs leading to successful reactivation of HIV expression.</p> <p> </p> <p> </p>
Monoclonal antibodies from humans with Mycobacterium tuberculosis exposure or latent infection recognize distinct arabinomannan epitopes
<p>The surface polysacharide arabinomannan (AM) and related glycolipid lipoarabinomannan (LAM) play critical roles in tuberculosis pathogenesis. Human antibody responses to AM/LAM are heterogenous and knowledge of reactivity to specific glycan epitopes at the monoclonal level is limited, especially in individuals who can control <i><span>M. tuberculosis</span></i> infection<span>. </span>We generated human IgG mAbs to AM/LAM from B cells of two asymptomatic individuals exposed to or latently infected with <i><span>M. tuberculosis</span></i>. We here show that two of these mAbs have high affinity to AM/LAM, are non-competing, and recognize different glycan epitopes <span>distinct from other anti-AM/LAM mAbs reported. Both mAbs recognize virulent </span><i><span>M. tuberculosis</span></i><span> and nontuberculous mycobacteria with marked differences, can be used for the detection of urinary LAM, and can detect </span><i><span>M. tuberculosis</span></i><span> and LAM in infected lungs. These mAbs enhance our understanding of the spectrum of antibodies to AM/LAM epitopes </span>in humans <span>and</span> are valuable for <span>tuberculosis</span> diagnostic and research applications.</p>
Data from: Hemin treatment drives viral reactivation and plasma cell differentiation of EBV latently infected B cells
<p>Epstein-Barr virus (EBV) and <em>Plasmodium falciparum</em> have a well described role in the development of endemic Burkitt lymphoma (BL), yet the mechanisms involved remain unknown. A major hallmark of malarial disease is hemolysis and bystander eryptosis of red blood cells, which causes release of free heme in large quantities into peripheral blood. We hypothesized that heme released during malaria infection drives differentiation of latently infected EBV-positive B cells, resulting in viral reactivation and release of infectious virus. To test this hypothesis, we used the EBV-positive Mutu I B-cell line and treated with hemin (the oxidized form of heme) and evaluated for evidence of EBV reactivation. Hemin treatment resulted in the expression of EBV immediate early, early and late lytic gene transcripts. In addition, expression of CD138, a marker of plasma cells was co-expressed with the late lytic protein gp350 on hemin treated Mutu I cells. Finally, DNase-resistant EBV DNA indicative of virion production was detected in supernatant. To assess the transcriptional changes induced by hemin treatment, RNA sequencing was performed on mock- and hemin-treated Mutu I cells, and a shift from mature B cell transcripts to plasma cell transcripts was identified. To identify the mechanism of hemin-induced B cell differentiation, we measured levels of the plasma cell transcriptional repressor, BACH2, that contains specific heme binding sites. Hemin treatment caused significant degradation of BACH2 by 24 hours post-treatment in four BL cell lines (two EBV positive, two EBV negative). Knockdown of BACH2 in Mutu I cells using siRNAs significantly increased CD138+gp350+ cells to levels similar to treatment with hemin. This suggested that hemin induced BACH2 degradation was responsible for plasma cell differentiation and viral reactivation. Together, these data support a model where EBV reactivation can occur during malaria infection via heme modulation, providing a mechanistic link between malaria and EBV. </p>
A Phase I/IIa AERAS-456 in HIV-Negative Adults With & Without Latent Tuberculosis Infection (C-035-456)
ClinicalTrials.gov study NCT01865487. IPD Sharing: NO. Countries: 1. Publications: 1.
Study 33: Adherence to Latent Tuberculosis Infection Treatment 3HP SAT Versus 3HP DOT
ClinicalTrials.gov study NCT01582711. IPD Sharing: Not stated. Countries: 4. Publications: 7.
Short-term Disulfiram Administration to Reverse Latent HIV Infection: a Dose Escalation Study
ClinicalTrials.gov study NCT01944371. IPD Sharing: Not stated. Countries: 2. Publications: 1.
Screening for Latent Tuberculosis Infection (LTBI) in US Army Recruits
ClinicalTrials.gov study NCT00804713. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Treatment of Latent TB Infection for Jailed Persons
ClinicalTrials.gov study NCT00128206. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Hemin treatment drives viral reactivation and plasma cell differentiation of EBV latently infected B cells
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Monoclonal antibodies from humans with Mycobacterium tuberculosis exposure or latent infection recognize distinct arabinomannan epitopes
Open the record for dataset details and reuse information.
Unravelling molecular signatures and causal factors underlying latent Cytomegalovirus infection among people living with HIV
<p>CMV seropositivity does not lead to severe <span>pathology </span>in healthy individuals, but it contributes to medical complications in people living with HIV (PLHIV). This study provides a comprehensive evaluation of how CMV <span>seropositivity</span> shapes the immune system of 1887 PLHIV, by utilizing multi-omics and deep immune phenotyping dataset<span>s</span>. We observed prominent CMV-induced signatures at the DNA methylome and transcriptome levels <span>that were </span>related to immune functions in PLHIV. High FCRL6 expression is a promising biomarker for immune activation in latent CMV infection, underlied by the demethylation of FCRL6 and up-regulation of gene expression and plasma protein concentrations in CMV<span>-seropositive</span><span> </span>PLHIV. Furthermore, the host genetics-driven elevation in both gene and protein expression of FCRL6 was associated with latent CMV infection. We also identified a significant CMV-susceptibility locus associated with cytokine production capacity and protein abundance.</p>
Data and Scripts for "Timing matters in Macrophage / CD4+ T cell interactions: An agent-based model comparing Mycobacterium tuberculosis host-pathogen interactions between latently infected and naïve individuals"
<p>This contains the data and graphing scripts necessary to recreate all figures in the paper "Timing matters in Macrophage / CD4+ T cell interactions: An agent-based model comparing Mycobacterium tuberculosis host-pathogen interactions between latently infected and naïve individuals". Supplemental Material for the paper is also provided here. Please refer to the README.md for instructions on how to use. The model can be found at: https://github.itap.purdue.edu/ElsjePienaarGroup/LTBINaiveinvitroModel/ along with the uncalibrated parameter files and scripts to run on HPCs.</p>
Data from: Public opinion in Japanese newspaper readers' posts under the prolonged COVID-19 infection spread 2019-2021: Contents analysis using Latent Dirichlet Allocation
<p><span>These data are based on free description from <span>readers' posts on Japanese hardcopy newspaper articles in the public domain</span>. </span><span>Upon searching for "coronavirus," we found 412 reader submissions during the April 7, 2020 to May 25, 2020, 521 during January 8, 2021 to March 21, 2021, 458 during the April 25, 2021 to June 6, 2021, and 519 during July 12, 2021 to September 30, 2021. </span><span>Topics of content were extracted by Latent Dirichlet Allocation, and then calculating the ratio of topic occurrence in each description.</span></p>
Diagnosis of Active and Latent TB Infection With IFN-y Assays in African Children
ClinicalTrials.gov study NCT00456469. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Rifampin Versus Isoniazid for the Treatment of Latent Tuberculosis Infection in Children (P4v9)
ClinicalTrials.gov study NCT00170209. IPD Sharing: UNDECIDED. Countries: 7. Publications: 7.
Short-Course Isoniazid and Rifampin Compared With Isoniazid for Latent Tuberculosis Infection
ClinicalTrials.gov study NCT00397709. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Treatment of Latent Tuberculosis Infection With Isoniazid
ClinicalTrials.gov study NCT00293228. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Clinical Practice Guidelines Versus Decision-support for Latent Tuberculosis Infection (LTBI) Management
ClinicalTrials.gov study NCT05772065. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Study to Evaluate the Tolerability and Immunogenicity of Nyaditum Resae ® Probiotic Administered to Pediatric Population in Contact With Tuberculosis With or Without Latent Tuberculosis Infection
ClinicalTrials.gov study NCT02581579. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.