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10 results for “metagenomic next generation sequencing”
Laboratory validation of a clinical metagenomic next-generation sequencing assay for respiratory virus detection and discovery
<p>This repository contains data and code used to analyze data for this manuscript: </p> <p><em>Laboratory validation of a clinical metagenomic next-generation sequencing assay for respiratory virus detection and discovery</em></p>
Metagenomic Next-Generation Sequencing for the Diagnosis of Fracture-related Infection
ClinicalTrials.gov study NCT07256405. IPD Sharing: NO. Countries: 1. Publications: 5.
Metagenomic Next-Generation Sequencing Guides Anti-Infection Strategies
ClinicalTrials.gov study NCT06145841. IPD Sharing: NO. Countries: 1. Publications: 3.
Unmasking viral sequences by metagenomic next-generation sequencing in adult human blood samples during steroid-refractory/dependent graft-versus-host disease
<p><b>Background: </b>Viral infections are common complications following allogeneic hematopoietic stem cell transplantation (allo-HSCT<b>)</b>. Allo-HSCT recipients<b> </b>with steroid-refractory/dependent graft-versus-host disease (GvHD) are highly immunosuppressed and are more vulnerable to infections with weakly pathogenic or commensal viruses. Here, twenty-five adult allo-HSCT recipients from 2016 to 2019 with acute or chronic steroid-refractory/dependent GvHD were enrolled in a prospective cohort of patients at Geneva University Hospitals. We performed metagenomics next-generation sequencing (mNGS) analysis using a validated viral pipeline and <i>de novo</i> analysis on pooled stored routine plasma samples collected throughout the period of intensive steroid treatment or second-line GvHD therapy to identify weakly pathogenic, commensal and unexpected viruses.</p> <p><b>Results: </b>Median duration of intensive immunosuppression was 5.1 months (IQR 5.5).<b> </b>GvHD-related mortality rate was 36%.<b> </b>mNGS analysis detected viral nucleotide sequences in 24/25 patients. Sequences of ≥3 distinct viruses were detected in 16/25 patients, <i>Anelloviridae</i> (24/25) and human pegivirus-1 (9/25) were the most prevalent. In 7/25 patients with fatal outcomes, unexpected viral sequences, not assessed by routine investigations, were identified with mNGS and confirmed by RT-PCR. These cases included usutu virus (1), rubella virus (1 vaccine-strain and 1 wild-type), novel human astrovirus (HAstV) MLB2 (1), classic HAstV (1), human polyomavirus 6 and 7 (2), cutavirus (1), and bufavirus (1).</p> <p><b>Conclusions: </b>Unexpected, opportunistic and protracted viral infections were identified in 28% of highly immunocompromised allo-HSCT recipients with steroid refractory/dependent GvHD. These identified viruses have all been previously described in humans, but have poorly understood clinical significance. Rubella virus identification raises the possibility of re-emergence from past infections or vaccinations.</p>
Unmasking viral sequences by metagenomic next-generation sequencing in adult human blood samples during steroid-refractory/dependent graft-versus-host disease
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Metagenomic Next-Generation Sequencing for Diagnosis of Ascites Infection in End-stage Liver Diseases
ClinicalTrials.gov study NCT04125654. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Metagenomics Next-generation Sequencing Approach to Detect Microbial DNA/RNA Overtime in Individuals Undergoing Hematopoietic Stem Cell Transplant
ClinicalTrials.gov study NCT06904053. IPD Sharing: NO. Countries: 1. Publications: 0.
Pathogenic Metagenomic Next-generation Sequencing to Optimize the Diagnosis of Decompensated Cirrhosis Infection
ClinicalTrials.gov study NCT06039696. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Diagnostic Efficacy of Metagenomic Next-generation Sequencing in Patients With Spinal Infections: A Retrospective Study
ClinicalTrials.gov study NCT06172153. IPD Sharing: NO. Countries: 1. Publications: 0.
The Value of Full-targeted Pathogen Capture Metagenomics Next Generation Sequencing in Etiological Diagnosis of Sepsis
ClinicalTrials.gov study NCT05540808. IPD Sharing: NO. Countries: 0. Publications: 0.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.